G·A·B·B·A

Soares-da-Silva F, Freyer L, Elsaid R, Burlen-Defranoux O, Iturri L, Sismeiro O, Pinto-do-Ó P, Gomez-Perdiguero E, Cumano A. Yolk sac, but not HSC-derived progenitors, sustain erythropoiesis throughout murine embryonic life 2021 J. Exp. Medicine. 218(4); doi: 10.1084/jem.20201729

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Elsaid Ramy*, Soares-da-Silva Francisca*, Peixoto Marcia, Amiri Dali, Mackowski Nathan, Pereira Pablo, Bandeira Antonio, Cumano Ana. Hematopoiesis: A Layered Organization Across Chordate Species 2020 Frontiers in Cell and Developmental Biology doi:10.3389/fcell.2020.606642

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Ramy Elsaid, Sylvain Meunier, Odile Burlen-Defranoux, Francisca Soares-da-Silva, Thibaut Perchet, Lorea Iturri, Laina Freyer, Paulo Vieira, Pablo Pereira, Rachel Golub, Antonio Bandeira, Elisa Gomez Perdiguero, Ana Cumano; A wave of bipotent T/ILC-restricted progenitors shapes the embryonic thymus microenvironment in a time-dependent manner. Blood blood.2020006779.

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Soares-da-Silva Francisca*, Peixoto Márcia*, Cumano Ana, Pinto-do-Ó Perpetua. Crosstalk Between the Hepatic and Hematopoietic Systems During Embryonic Development 2020 Frontiers in Cell and Developmental Biology doi: 10.3389/fcell.2020.00612

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Chiquita, Samuel, et al. "Retinal thinning of inner sub-layers is associated with cortical atrophy in a mouse model of Alzheimer’s disease: a longitudinal multimodal in vivo study." Alzheimer's research & therapy 11.1 (2019): 90.

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Valente M, Resende TP, Nascimento DS, Burlen-Defranoux O, Soares-da-Silva F, et al. (2019) Mouse HSA+ immature cardiomyocytes persist in the adult heart and expand after ischemic injury. PLOS Biology 17(6): e3000335. https://doi.org/10.1371/journal.pbio.3000335

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Active control as evidence in favor of sense of ownership in the moving Virtual Hand Illusion

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Baptista AP, Gola A, Huang Y, Milanez-Almeida P, Torabi-Parizi P, Urban JF Jr, Shapiro VS, Gerner MY, Germain RN. The Chemoattractant Receptor Ebi2 Drives Intranodal Naive CD4+ T Cell Peripheralization to Promote Effective Adaptive Immunity. Immunity. 2019 May 21;50(5):1188-1201

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The regulation of mitochondria dynamics in neurite outgrowth by retinoic acid receptor-β signaling. FASEB, Feb 2019
Trigo, D, Goncalves, MB, Corcoran, J.

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Unravelling Protein Aggregation as an Ageing Related Process or a Neuropathological Response.
D Trigo, A Nadais, O Cruz e Silva.Ageing Res Rev. 2019 Feb 11. pii: S1568-1637(18)30264-2. doi: 10.1016/j.arr.2019.02.001.

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Regulation of myelination by exosome associated retinoic acid release from NG2-positive cells.
Goncalves MB1, Wu Y1, Clarke E1, Grist J1, Hobbs C1, Trigo D1, Jack J1, Corcoran JPT2.
J Neurosci. 2019 Feb 13. pii: 2922-18. doi: 10.1523/JNEUROSCI.2922-18.2019.

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André F. de Sousa, Kiriana K. Cowansage, Ipshita Zutshi, Leonardo M. Cardozo, Eun J. Yoo, Stefan Leutgeb, and Mark Mayford
"Optogenetic reactivation of memory ensembles in the retrosplenial cortex induces systems consolidation" (2019), PNAS, 116, 17

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Chiquita, Samuel, et al. "A longitudinal multimodal in vivo molecular imaging study of the 3xTg-AD mouse model shows progressive early hippocampal and taurine loss." Human molecular genetics 28.13 (2019): 2174-2188.

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Chiquita, Samuel, et al. "The Retina as a Window or Mirror of the Brain Changes Detected in Alzheimer’s Disease: Critical Aspects to Unravel." Molecular neurobiology (2019): 1-20.

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Zhu Y*, Sousa AMM*, Gao T*, Skarica M*, Li M*, Santpere G, Esteller-Cucala P, Juan D, Ferrandez-Peral L, Golden FO, Yang M, Miller DJ, Marques-Bonet T, Kawasawa YI, Zhao H, Sestan N (2018) Spatiotemporal transcriptomic divergence across human and macaque brain development. Science 362, eaat8077. * Equal contribution

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Li M*, Santpere G*, Kawasawa YI*, Evgrafov OV*, Gulden FO*, Pochareddy S*, Sunkin SM*, Li Z*, Shin Y*, Zhu Y, Sousa AMM, Kitchen RR, Werling DM, Kang HJ, Pletikos M, Choi J, Muchnik S, Xu X, Wang D, Liu S, Giusti-Rodríguez P, Leeuw CA, Pardiñas AF, BrainSpan Consortium, PsychENCODE Consortium: Developmental Subgroup, Hu M, Jin F, Li Y, Owen MJ, O'Donovan MC, Walters JT, Posthuma D, Sullivan PF, Levitt P, Weinberger1 DR, Kleinman JE, Geschwind DH, Sanders S, Hawrylycz MJ, Gerstein MB, Lein ES, Knowles JA, Sestan N (2018) Integrative functional genomic analysis of human brain development and neuropsychiatric risk. Science, 362, eaat7615. * Equal contribution

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Amiri A*, Coppola G*, Scuderi S*, Wu F*, Roychowdhury T*, Liu F, Pochareddy S, Shin Y, Safi A, Song L, Zhu Y, Sousa AMM, The PsychENCODE Consortium, Gerstein M, Crawford GE, Sestan N, Abyzov A, Vaccarino FM (2018) The transcriptome and epigenome landscape of human cortical development modeled in brain organoids. Science 362, eaat6720. * Equal contribution

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Tebbenkamp ATN, Varela L, Choi J, Paredes MI, Giani AM, Song JE, Sestan-Pesa M, Franjic D, Sousa AMM, Liu ZW, Li M, Bichsel C, Koch M, Szigeti-Buck K, Liu F, Li Z, Kawasawa YI, Paspalas CD, Mineur YS, Prontera P, Merla G, Picciotto MR, Arnsten AFT, Horvath TL, Sestan N (2018) The 7q11.23 protein DNAJC30 interacts with ATP synthase and links mitochondria to brain development. Cell 18, 31186-31193.

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Sin O, Mata-Cabana A, Seinstra RI, Nollen EAA. Filter Retardation Assay for Detecting and Quantifying Polyglutamine Aggregates Using Caenorhabditis elegans Lysates. Bio-protocol. 2018 8(19): e3042. DOI: 10.21769/BioProtoc.3042

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Mata-Cabana A, Sin O, Seinstra RI, Nollen EAA. Nuclear/cytoplasmic Fractionation of Proteins from Caenorhabditis elegans. Bio-protocol. 2018 Bio-protocol 8(20): e3053. DOI: 10.21769/BioProtoc.3053

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Rode S, Ohm H, Anhäuser L, Wagner M, Rosing M, Deng X, Sin O, Leidel SA, Storkebaum E, Rentmeister A, Zhu S, Rumpf S. Differential Requirement for Translation Initiation Factor Pathways During Ecdysone-Dependent Neuronal Remodeling in the Drosophila PNS. Cell Reports. 2018 24:2287–2299

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Rapino F, Delaunay S, Rambow F, Zhou Z, Tharun L, De Tullio P, Sin O, Shostak K, Schmitz S, Piepers J, Ghesquière B, Karim L, Charloteaux B, Jamart D, Florin A, Lambert C, Rorive A, Jerusalem G, Leucci E, Dewaele M, Vooijs M, Leidel SA, Georges M, Voz M, Peers B, Büttner R, Marine JC, Chariot A, Close P. Codon-specific translation reprogramming promotes resistance to targeted therapy. Nature. 2018 558(7711):605-609.

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Pinto-Almeida A, Mendes T, Ferreira P, Belo S, Anibal FF, Allegretti SM, Carrilho E, Afonso A. (2018) Comparative Proteomics Reveals Characteristic Proteins on Praziquantel-resistance in Schistosoma mansoni. bioRxiv 314724; doi: https://doi.org/10.1101/314724

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The interplay of leukemia cells and the bone marrow microenvironment. Duarte D, Hawkins ED, Lo Celso C. Blood. 2018 Apr 5;131(14):1507-1511.

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Mao K, Baptista AP, Tamoutounour S, Zhuang L, Bouladoux N, Martins AJ, Huang Y, Gerner MY, Belkaid Y, Germain RN. Innate and adaptive lymphocytes sequentially shape the gut microbiota and lipid metabolism. Nature. 2018 Feb 8;554(7691):255-259

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Inhibition of Endosteal Vascular Niche Remodeling Rescues Hematopoietic Stem Cell Loss in AML. Duarte D et al. Cell Stem Cell. 2018 Jan 4;22(1):64-77.e6.

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Retinoic acid synthesis by NG2 expressing cells promotes a permissive environment for axonal outgrowth.
MB Goncalves, Y Wu, D Trigo, E Clarke, T Malmqvist, J Grist, C Hobbs, T Carlstedt, JPT Corcoran, Neurobiology of Disease Volume 111, March 2018, Pages 70-79

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Costa G, Harrington KI, Lovegrove HE, Page DJ, Chakravartula S, Bentley K, Herbert SP. Asymmetric division coordinates collective cell migration in angiogenesis, Nature Cell Biology 2016, 18: 1292-1301.

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Carlyle BC, Kitchen RR, Kanyo JE, Voss EZ, Pletikos M, Sousa AMM, Lam TT, Gerstein MB, Sestan N, Nairn AC (2017) A multiregional proteomic survey of the postnatal human brain. Nature Neuroscience 20, 1787-1795

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Sousa AMM*, Zhu Y*, Raghanti MA, Kitchen RR, Onorati M, Tebbenkamo ATN, Stutz B, Meyer KA, Li M, Kawasawa YI, Liu F, Perez RG, Mele M, Carvalho T, Skarica M, Gulden FO, Pletikos M, Shibata A, Stephenson AR, Edles MK, Ely JJ, Elsworth JD, Horvath TL, Hof PR, Mane SM, Noonan JP, State MW, Lein ES, Knowles JA, Marques-Bonet T, Sherwood CC, Gerstein MB, Sestan N (2017) Molecular and cellular reorganization of neural circuits in the human lineage. Science 358, 1027-1032
* Equal contribution

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Irving G, Neves AL, Dambha-Miller H, Oishi A, Tagashira H, Verho A, Holden J. International variations in primary care physician consultation time: a systematic review of 67 countries.
BMJ Open. 2017 Nov 8;7(10):e017902.

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Rodriguez-Martinez A, Posma JM, Ayala R, Harvey N, Jimenez B, Neves AL, Lindon JC, Sonomura K, Sato TA, Matsuda F, Zalloua P, Gauguier D, Nicholson JK, Dumas ME. J-Resolved 1H NMR 1D-Projections for Large-Scale Metabolic Phenotyping Studies: Application to Blood Plasma Analysis. Anal Chem. 2017 Nov 7;89(21):11405-11412.

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Direct functional innervation of dorsolateral striatum spiny projection neurons by the amygdala

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Subcellular functional analysis of direct pathway striatal spiny projection neurons in patch versus matrix compartments of the dorsal striatum

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Mackay A, Burford A, Carvalho D, Izquierdo E, Fazal-Salom J, Taylor KR, Bjerke L, Clarke M, Vinci M, Nandhabalan M, Temelso S, Popov S, Molinari V, Raman P, Waanders AJ, Han HJ, Gupta S, Al-Sarraj S, Chandler C, Ng HK, Li X, Mu K, Trabelsi S, Brahim DH, Kisljakov AN, Konovalov DM, Moore AS, Carcaboso AM, Sunol M, de Torres C, Cruz O, Mora J, Shats LI, Stavale JN, Bidinotto LT, Reis RM, Entz-Werle N, Farrell M, Cryan J, Crimmins D, Caird J, Pears J, Monje M, Jabado N, Baker SJ, Pfister SM, Jones DTW, Fouladi M, von Bueren AO, Baudis M, Resnick A, Jones C. Integrated Molecular Meta-Analysis of 1,000 Pediatric High-Grade and Diffuse Intrinsic Pontine Glioma. Cancer Cell. 2017 Oct 9;32(4):520-537.e5.

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Resende LP, Truong ME, Gomez A, Jones DL. Intestinal stem cell ablation reveals differential requirements for survival in response to chemical challenge, Dev Biol. 2017 Apr 1;424(1):10-17

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"Declining Transmission and Immunity to Malaria and Emerging Artemisinin Resistance in Thailand: A Longitudinal Study."
Ataíde R, Powell R, Moore K, McLean A, Phyo AP, Nair S, White M, Anderson TJ, Beeson JG, Simpson JA, Nosten F, Fowkes FJI. (2017) Journal of Infectious Diseases

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Flavia Sousa, Pedro Fonte, Andrea Cruz, Peter J. Kennedy, Inês M. Pinto, Bruno Sarmento. Polyester-Based Nanoparticles for the Encapsulation of Monoclonal Antibodies. In: Picanço-Castro V., Swiech K. (eds) Recombinant Glycoprotein Production. Methods in Molecular Biology, 2018 vol 1674. Humana Press, New York, NY

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Helena S. Domingues, Andrea Cruz, Jonah R. Chan, João B. Relvas, Boris Rubinstein, Inês Mendes Pinto. Mechanical plasticity during oligodendrocyte differentiation and myelination, Glia. 1–10

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Flávia Sousa, Andrea Cruz, Pedro Fonte, Inês Mendes Pinto, Maria Teresa Neves-Petersen, Bruno Sarmento. A new paradigm for antiangiogenic therapy through controlled release of bevacizumab from PLGA nanoparticles. Scientific Reports Jun 16;7(1):3736

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Sandra O. Braz*, Andrea Cruz*, Andrea Lobo*, Joana Bravo, Joana Moreira-Ribeiro, Isabel Pereira-Castro, Jaime Freitas, Joao B. Relvas, Teresa Summavielle, Alexandra Moreira. Expression of Rac1 alternative 3`UTRs is a cell speciﬁc mechanism with a function in dendrite outgrowth in cortical neurons. BBA Gene Regulatory Mechanisms (2017), doi:10.1016/j.bbagrm.2017.03.002. * These authors contribute equally to the work

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Bucher, M., Wolfowicz, I., Voss, P. A., Hambleton, E. A., Guse, A. (2016). Development and symbiosis establishment in the cnidarian endosymbiosis model Aiptasia sp. Sci. Rep., 6: 19867.

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Grawunder, D., Hambleton, E. A., Bucher, M., Wolfowicz, I., Bechtoldt, N., Guse, A. (2015). Induction of gametogenesis in the cnidarian endosymbiosis model Aiptasia sp. Sci. Rep., 5: 15677.

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Gonçalves E, Fragoulis A, Garcia-Alonso L, Cramer T, Saez-Rodriguez J, Beltrao P Widespread Post-transcriptional Attenuation of Genomic Copy-Number Variation in Cancer. Cell Systems 2017

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Expression of tyrosine kinase receptor AXL is associated with worse outcome of metastatic renal cell carcinomas treated with sunitinib.
Zucca LE, Morini Matushita MA, da Silva Oliveira RJ, Scapulatempo-Neto C, de Lima MA, Ribeiro GG, Viana CR, Cárcano FM, Reis RM.
Urol Oncol. 2017 Oct 3. pii: S1078-1439(17)30466-0. doi: 10.1016/j.urolonc.2017.09.003. [Epub ahead of print]

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Alginate hydrogel improves anti-angiogenic bevacizumab activity in cancer therapy. Ferreira NN, M B Ferreira L, Miranda-Gonçalves V, Reis RM, Seraphim TV, Borges JC, Baltazar F, Gremião MPD. Eur J Pharm Biopharm. 2017 Oct;119:271-282.

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Ohradanova-Repic A, Nogueira E, Hartl I, Gomes AC, Preto A, Steinhuber E, Mühlgrabner V, Repic M, Kuttke M, Zwirzitz A, Prouza M, Suchanek M, Wozniak-Knopp G, Horejsi V, Schabbauer G, Cavaco-Paulo A, Stockinger H. “Fab antibody fragment-functionalized liposomes for specific targeting of antigen-positive cells”. Nanomedicine. 2017 Sep 19. pii: S1549-9634(17)30170-3. doi: 10.1016/j.nano.2017.09.003.

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Hepcidin is regulated by promoter-associated histone acetylation and HDAC3, Nature Communications 8, Article number: 403 (2017)

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A survey of the clinicopathological and molecular characteristics of patients with suspected Lynch syndrome in Latin America.
Rossi BM, Palmero EI, López-Kostner F, Sarroca C, Vaccaro CA, Spirandelli F, Ashton-Prolla P, Rodriguez Y, de Campos Reis Galvão H, Reis RM, Escremim de Paula A, Capochin Romagnolo LG, Alvarez K, Della Valle A, Neffa F, Kalfayan PG, Spirandelli E, Chialina S, Gutiérrez Angulo M, Castro-Mujica MDC, Sanchez de Monte J, Quispe R, da Silva SD, Rossi NT, Barletta-Carrillo C, Revollo S, Taborga X, Morillas LL, Tubeuf H, Monteiro-Santos EM, Piñero TA, Dominguez-Barrera C, Wernhoff P, Martins A, Hovig E, Møller P, Dominguez-Valentin M.
BMC Cancer. 2017 Sep 5;17(1):623. doi: 10.1186/s12885-017-3599-4.

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Mpp10 represents a platform for the interaction of multiple factors within the 90S pre-ribosome

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The passive biomechanics of human pelvic collecting lymphatic vessels. Athanasiou D, Edgar LT, Jafarnejad M, Nixon K, Duarte D et al. PLoS One. 2017 Aug 21;12(8):e0183222.

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Sousa AMM*, Meyer KA*, Santepere G, Gulden FO, Sestan N (2017) Evolution of the Human Nervous System Function, Structure, and Development. Cell 170, 226 - 247
* Equal contribution

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Seabra, C.M., Szoko, N., Erdin, S., Ragavendran, A., Stortchevoi, A., Maciel, P., Lundberg, K., Schlatzer, D., Smith, J., Talkowski, M.E., Gusella, J.F. and Natowicz, M.R., (2017). A Novel Microduplication of ARID1B: Clinical, Genetic and Proteomic Findings. Am J Med Gen Part A. 173(9), 2478–2484.

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Endogenous hepcidin and its agonist mediate resistance to selected infections by clearing non–transferrin-bound iron, Blood 2017 130:245-257

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Arslan AD, Sassano A, Saleiro D, Lisowski P, Kosciuczuk EM, Fischietti M, Eckerdt F, Fish EN, Platanias LC. Human SLFN5 is a transcriptional co-repressor of STAT1-mediated interferon responses and promotes the malignant phenotype in glioblastoma. Oncogene. 2017 Jul 3.

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Nogueira E, Freitas J, Loureiro A, Nogueira P, Gomes AC, Preto A, Carmo AM, Moreira A, Cavaco-Paulo A. Neutral PEGylated liposomal formulation for efficient folate-mediated delivery of MCL1 siRNA to activated macrophages. Colloids Surf B Biointerfaces. 2017 Jul 1;155:459-465. doi: 10.1016/j.colsurfb.2017.04.023.

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AKT can modulate the in vitro response of HNSCC cells to irreversible EGFR inhibitors. Silva-Oliveira RJ, Melendez M, Martinho O, Zanon MF, de Souza Viana L, Carvalho AL, Reis RM. Oncotarget. 2017 Jun 7;8(32):53288-53301

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Monocarboxylate transporter 1 is a key player in glioma-endothelial cell crosstalk. Miranda-Gonçalves V, Bezerra F, Costa-Almeida R, Freitas-Cunha M, Soares R, Martinho O, Reis RM, Pinheiro C, Baltazar F. Mol Carcinog. 2017 Aug 1. doi: 10.1002/mc.22707

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Rodriguez-Martinez A, Posma JM, Ayala R, Neves AL, Anwar M, Petretto E, Emanueli C, Gauguier D, Nicholson JK, Dumas ME. MWASTools: an R/Bioconductor package for metabolome-wide association studies. Bioinformatics. 2017 Jul 26.

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Chilloux J*, Neves AL*, Boulangé CL, Dumas ME. The microbial-mammalian metabolic axis: a critical symbiotic relationship.
Curr Opin Clin Nutr Metab Care. 2016 Jul;19(4):250-256.

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Freire AG, Waghray A, Soares-da-Silva F, Resende TP, Lee DF, Pereira CF, Nascimento DS, Lemischka IR, and Pinto-do-Ó P. (2017) Transient HES5 activity instructs mesodermal cells toward a cardiac fate. Stem Cell Reports. 9(1), 136-148.

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PCGF3/5-PRC1 initiates Polycomb recruitment in X chromosome inactivation.

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Brucklacher-Walbert, V.*, Ferreira, C.*, Stebegg, M., Fesneau, O., Innocentin, S.,Marie, J.C., Veldhoen, M. (2017). Cellular Stress in the Context of an Inflammatory Environment Supports TGF--Independent T Helper-17 Differentiation. Cell Reports 19, 2357-2370.

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Transmission of cytokinesis forces via E-cadherin dilution and actomyosin flows

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"Antibody Responses to Plasmodium falciparum and Plasmodium vivax and Prospective Risk of Plasmodium spp. Infection Postpartum."
McLean ARD, Boel M, McGready R, Ataide R, Drew D, Tsuboi T, Beeson JG, Nosten F, Simpson J, Fowkes FJI. (2017) Am J Trop Med Hyg

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Detection of ALK fusion transcripts in FFPE lung cancer samples by NanoString technology.
Evangelista AF, Zanon MF, Carloni AC, de Paula FE, Morini MA, Ferreira-Neto M, Soares IC, Miziara JE, de Marchi P, Scapulatempo-Neto C, Reis RM.
BMC Pulm Med. 2017 May 26;17(1):86.

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Mutational profile of TP53 in esophageal squamous cell carcinoma associated with chagasic megaesophagus.
Lacerda CF, Cruvinel-Carloni A, de Oliveira AT, Scapulatempo-Neto C, López RV, Crema E, Adad SJ, Rodrigues MA, Henry MA, Guimarães DP, Reis RM.
Dis Esophagus. 2017 Apr 1;30(4):1-9

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Olga Sin, Tristan de Jong, Alejandro Mata-Cabana, Michelle Kudron, Mohamad Amr Zaini, Francesco A. Aprile, Renée I. Seinstra, Esther Stroo, Roméo Willinge Prins, Céline N. Martineau, Hai Hui Wang, Wytse Hogewerf, Anne Steinhof, Erich E. Wanker, Michele Vendruscolo, Cornelis F. Calkhoven, Valerie Reinke, Victor Guryev, and Ellen A.A. Nollen. 2017 Molecular Cell 65, 1096–1108.

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Kroczynska B, Blyth GT, Rafidi RL, Majchrzak-Kita B, Xu L, Saleiro D, Kosciuczuk EM, Jemielity J, Su B, Altman JK, Eklund EA, Fish EN, Platanias LC. Central Regulatory Role for SIN1 in Interferon γ (IFNγ) Signaling and Generation of Biological Responses. J Biol Chem. 2017 Mar 17;292(11):4743-4752.

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Toxoplasmosis-associated immune reconstitution inflammatory syndrome involving the central nervous system (CNS-IRIS): a case report with longitudinal analysis of T cell subsets
R. Rb-Silva*, C. Nobrega*, E. Reiriz, S. Almeida, R. Sarmento-Castro, M. Correia-Neves, A. Horta
BMC Infectious Disease (2017), 17: 66.
DOI 10.1186/s12879-016-2159-x

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“Host Immunity and the assessment of emerging artemisinin resistance in malaria: a multinational cohort study”, Ricardo Ataide, Elizabeth A. Ashley, Rosanna Powell, Jo-Anne Chan, Michael Malloy, Katherine O’Flaherty, Eizo Takashima, Christine Langer, Takafumi Tsuboi, Arjen M. Dondorp, Nicholas P. Day, Mehul Dhorda, Rick M. Fairhurst, Pharath Lim, Chanaki Amaratunga, Sasithon Pukrittayakamee, Tran Tinh Hien, Ye Htut, Mayfong Mayxay, Md. Abul Faiz, James G. Beeson, Francois Nosten, Julie A. Simpson, Nicholas J. White and Freya J.I. Fowkes, (2017) PNAS

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Effects of the functional HOTAIR rs920778 and rs12826786 genetic variants in glioma susceptibility and patient prognosis.
Xavier-Magalhães A, Oliveira AI, de Castro JV, Pojo M, Gonçalves CS, Lourenço T, Viana-Pereira M, Costa S, Linhares P, Vaz R, Nabiço R, Amorim J, Pinto AA, Reis RM, Costa BM.
J Neurooncol. 2017 Mar;132(1):27-34.

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Targeting the hedgehog transcription factors GLI1 and GLI2 restores sensitivity to vemurafenib-resistant human melanoma cells.
Faião-Flores F, Alves-Fernandes DK, Pennacchi PC, Sandri S, Vicente AL, Scapulatempo-Neto C, Vazquez VL, Reis RM, Chauhan J, Goding CR, Smalley KS, Maria-Engler SS.
Oncogene. 2017 Mar 30;36(13):1849-1861.

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Rodriguez-Martinez A, Ayala R, Posma JM, Neves AL, Gauguier D, Nicholson JK, Dumas ME. MetaboSignal: a network-based approach for topological analysis of metabotype regulation via metabolic and signaling pathways. Bioinformatics. 2017 Mar 1;33(5):773-775.

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Levine AG, Hemmers S, Baptista AP, Schizas M, Faire MB, Moltedo B, Konopacki C, Schmidt-Supprian M, Germain RN, Treuting PM, Rudensky AY. Suppression of lethal autoimmunity by regulatory T cells with a single TCR specificity. J Exp Med. 2017 Mar 6;214(3):609-622

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Patricia C. Lopes, Why are behavioral and immune traits linked?, In Hormones and Behavior, Volume 88, 2017, Pages 52-59, ISSN 0018-506X, https://doi.org/10.1016/j.yhbeh.2016.09.008.

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Duarte, D., and Lo Celso, C. (2017). Imaging the Hematopoietic Stem Cell Niche. Advances in Stem Cells and their Niches 1, 59-83. (book chapter)

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Costa G, Lovegrove HE, Herbert SP. Endothelial cells divide unequally to sprout fairly, Cell Cycle 2017, 16:1-2.

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Redin C, Brand H, Collins RL, Kammin T, Mitchell E, Hodge JC, Hanscom C, Pillalamarri V, Seabra CM, …, Talkowski ME. (2016) The Genomic Landscape of Balanced Cytogenetic Abnormalities Associated with Congenital Anomalies. Nat. Genet. 49(1), 36–45.

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"Síndrome de Angelman: estado da investigação é animador", artigo publicado na revista "Saude e bem-estar".

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Early A.M., Arguello J.R., Cardoso-Moreira M. et al. Survey of Global Genetic Diversity Within the Drosophila Immune System. Genetics 205 (1), 353-366 (2017)

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Tenente, Inês M; Hayes, Madeline N; Ignatius, Myron S; McCarthy, Karin; Yohe, Marielle; Sindiri, Sivasish; Gryder, Berkley; Oliveira, Mariana L; Ramakrishnan, Ashwin; Tang, Qin; Chen, Eleanor Y; Nielsen, G Petur; Khan, Javed; Langenau, David M (2017) Myogenic regulatory transcription factors regulate growth in rhabdomyosarcoma. Elife. 6:e19214

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Kosciuczuk EM, Saleiro D, Platanias LC. Dual targeting of eIF4E by blocking MNK and mTOR pathways in leukemia. Cytokine. 2017 Jan;89:116-121.

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TCGA Research Network. Bass AJ, Derks S, Thorsson V, Shmulevich I, Dhankani V, Miller M, Hinoue T, Laird PW, Shen H, Schultz N, Shen R, Getz G, Lander E, Carvalho AL, Reis RM, Matsushita MM, Lucchesi F, de Oliveira AT, Janjigian Y, Kelsen D, Ladanyi M, Tang L, McCall SJ, Cheong JH, Ajani JA, Camargo CM. Chudamani S, Liu J, Lolla L, Naresh R, Pihl T, Sun Q, Wan Y, Wu Y, Demchok JA, Felau I, Ferguson ML, Mills Shaw, Sheth M, Tarnuzzer R, Wang Z, Yang L, Zenklusen JC, Hutter CM, Sofia HJ, Zhang J. Comprehensive Molecular Characterization of Oesophageal Carcinoma. Nature 2017 ;541(7636):169-175.

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HER Family Receptors are Important Theranostic Biomarkers for Cervical Cancer: Blocking Glucose Metabolism Enhances the Therapeutic Effect of HER Inhibitors.
Martinho O, Silva-Oliveira R, Cury FP, Barbosa AM, Granja S, Evangelista AF, Marques F, Miranda-Gonçalves V, Cardoso-Carneiro D, de Paula FE, Zanon M, Scapulatempo-Neto C, Moreira MA, Baltazar F, Longatto-Filho A, Reis RM.
Theranostics. 2017 Jan 15;7(3):717-732. doi: 10.7150/thno.17154. eCollection 2017.

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Study of hTERT and Histone 3 Mutations in Medulloblastoma.
Viana-Pereira M, Almeida GC, Stavale JN, Malheiro S, Clara C, Lobo P, Pimentel J, Reis RM.
Pathobiology. 2017;84(2):108-113.

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Sridhara SC, Carvalho S, et al. “Transcription dynamics signals R-loops suppression through SRPK2-mediated DDX23 phosphorylation” Cell Reports

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Tan S., Cardoso-Moreira M. et al. LTR-mediated retroposition as a mechanism of RNA-based duplication in metazoans. Genome research 26:1663-1675 (2016)

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Ochoa D, Jonikas M, Lawrence RT, El Debs B, Selkrig J, Typas A, Villén J, Santos SDM, Beltrao P. An atlas of human kinase regulation Mol Sys Bio 2016 12, 888

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MicroRNA profiling in human breast cancer cell lines exposed to the anti-neoplastic drug cediranib.
Bordinhão AL, Evangelista AF, Oliveira RJ, Macedo T, Silveira HC, Reis RM, Marques MM.
Oncol Rep. 2016 Dec;36(6):3197-3206.

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24.
Prevalence of BRCA1/BRCA2 mutations in a Brazilian population sample at-risk for hereditary breast cancer and characterization of its genetic ancestry.
Fernandes GC, Michelli RA, Galvão HC, Paula AE, Pereira R, Andrade CE, Felicio PS, Souza CP, Mendes DR, Volc S, Berardinelli GN, Grasel RS, Sabato CS, Viana DV, Mauad EC, Scapulatempo-Neto C, Arun B, Reis RM, Palmero EI.
Oncotarget. 2016 Dec 6;7(49):80465-80481.

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Towards a molecular profile of self-representation

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Tapirira guianensis Aubl. Extracts Inhibit Proliferation and Migration of Oral Cancer Cells Lines.
Silva-Oliveira RJ, Lopes GF, Camargos LF, Ribeiro AM, Santos FV, Severino RP, Severino VG, Terezan AP, Thomé RG, Santos HB, Reis RM, Ribeiro RI.
Int J Mol Sci. 2016 Nov 8;17(11). pii: E1839.

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Racial/Ethnic Disparities in Cervical Cancer Screening and Outcomes.
Musselwhite LW, Oliveira CM, Kwaramba T, de Paula Pantano N, Smith JS, Fregnani JH, Reis RM, Mauad E, Vazquez FL, Longatto-Filho A.
Acta Cytol. 2016;60(6):518-526. Epub 2016 Nov 9. Review.

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Positive Feedback Keeps Duration of Mitosis Temporally Insulated from Upstream Cell-Cycle Events
Ana Rita Araujo, Lendert Gelens, Rahuman S.M. Sheriff, Silvia D.M. Santos
Molecular Cell 64, 362–375 October 20, 2016

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Kotsantis, P., Silva, L. M., Irmscher, S., Jones, R. M., Gromak, N. and Petermann, E. Increased global transcription activity as a mechanism of replication stress in cancer. Nat. Commun. 7, 13087 doi: 10.1038/ncomms13087 (2016).

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Nogueira E., Gomes A. C., Preto A. and Cavaco-Paulo A. “Update on therapeutic approaches for rheumatoid arthritis.” Curr Med Chem. 2016;23(21):2190-203.

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Studer RA, Rodriguez-Mias RA, Haas KM, Hsu JI, Viéitez C, Solé C, Swaney DL, Stanford LB, Liachko I, Böttcher R, Dunham MJ, de Nadal E, Posas F, Beltrao P, Villén J. Evolution of protein phosphorylation across 18 fungal species. Science. 2016 Oct 14;354(6309):229-232.

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Low mutation percentage of KRAS and BRAF genes in Brazilian anal tumors.
Bidinotto LT, Véo CA, Loaiza EA, De França AP, Lorenzi AT, Rosa LA, De Oliveira CM, Levi JE, Scapulatempo-Neto C, Longatto-Filho A, Reis RM.
Mol Med Rep. 2016 Oct;14(4):3791-7.

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T-cell acute leukaemia exhibits dynamic interactions with bone marrow microenvironments. Hawkins ED*, Duarte D* et al. Nature. 2016 Oct 27;538(7626):518-522. (*equal contribution)

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Lilly AJ, Costa G, Largeot A, Fadlullah MZ, Lie-A-Ling M, Lacaud G, Kouskoff V. Interplay between SOX7 and RUNX1 regulates hemogenic endothelial fate in the yolk sac, Development 2016, 143: 4341-4351.

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Pinho-Costa L, Yakubu K, Hoedebecke K, Laranjo L, Reichel CP, Colon-Gonzalez MD, Neves AL, Errami H. Healthcare hashtag index development: Identifying global impact in social media. J Biomed Inform. 2016 Oct;63:390-399.

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"Síndrome de Angelman: principais desenvolvimentos científicos a nível mundial", Artigo publicado na revista NewsFarma.

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Ferro S, Azevedo-Silva J, Casal M, Côrte-Real M, Baltazar F, Preto A. “Characterization of acetate transport in colorectal cancer cells and potential therapeutic implications”, Oncotarget. 2016 Sep 21. doi: 10.18632/oncotarget.12156.

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Giulia Cazanelli, Suellen Ferro, Tiago Moreira, João Silva, Eugenia Nogueira, Ana Preto. Colorectal cancer therapeutic approaches: from classical drugs to new nanoparticles. Frontiers in Anti-Cancer Drug Discovery, 2016, Vol7, 3-82. Chapter3. Bentham eBooks, Bentham Science Publishers.

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Delves MJ, Straschil U, Ruecker A, Miguel-Blanco C, Marques S, Dufour AC, Baum J, Sinden RE.
Routine in vitro culture of P. falciparum gametocytes to evaluate novel transmission-blocking interventions.
Nature Protocols. 2016 Sep;11(9):1668-80.

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Wolfowicz, I., Baumgarten, S., Voss, P.A., Hambleton, E.A, Hatta, M., Voolstra, C., Guse, A. (2016). Aiptasia sp. larvae as a model to reveal mechanisms of symbiont selection in cnidarians. Sci. Rep. 6: 32366.

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A common variant within the HNF1B gene is associated with overall survival of multiple myeloma patients: results from the IMMEnSE consortium and meta-analysis.
Ríos-Tamayo R, Lupiañez CB, Campa D, Hielscher T, Weinhold N, Martínez-López J, Jerez A, Landi S, Jamroziak K, Dumontet C, Wątek M, Lesueur F, Reis RM, Marques H, Jurczyszyn A, Vogel U, Buda G, García-Sanz R, Orciuolo E, Petrini M, Vangsted AJ, Gemignani F, Försti A, Goldschmidt H, Hemminki K, Canzian F, Jurado M, Sainz J.
Oncotarget. 2016 Sep 13;7(37):59029-59048

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31.
Vemurafenib resistance increases melanoma invasiveness and modulates the tumor microenvironment by MMP-2 upregulation.
Sandri S, Faião-Flores F, Tiago M, Pennacchi PC, Massaro RR, Alves-Fernandes DK, Berardinelli GN, Evangelista AF, de Lima Vazquez V, Reis RM, Maria-Engler SS.
Pharmacol Res. 2016 Sep;111:523-533.

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Isolation, characterization and screening of the in vitro cytotoxic activity of a novel L-amino acid oxidase (LAAOcdt) from Crotalus durissus terrificus venom on human cancer cell lines.
Teixeira TL, Oliveira Silva VA, da Cunha DB, Polettini FL, Thomaz CD, Pianca AA, Zambom FL, da Silva Leitão Mazzi DP, Reis RM, Mazzi MV.
Toxicon. 2016 Sep 1;119:203-17.

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Absence of microsatellite instability and BRAF (V600E) mutation in testicular germ cell tumors.
Cárcano FM, Lengert AH, Vidal DO, Scapulatempo Neto C, Queiroz L, Marques H, Baltazar F, Berardinelli GN, Martinelli CM, da Silva EC, Reis RM, Lopes LF.
Andrology. 2016 Sep;4(5):866-72.

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Anti-EGFR Therapy: Strategies in Head and Neck Squamous Cell Carcinoma.
Oliveira-Silva RJ, Carolina de Carvalho A, de Souza Viana L, Carvalho AL, Reis RM.
Recent Pat Anticancer Drug Discov. 2016;11(2):170-83.

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Onorati M*, Li Z*, Liu F*, Sousa AMM*, Nakagawa N, Li M, Dell’Anno MT, Gulden FO, Pochareddy S, Tebbenkamp ATN, Han W, Pletikos M, Gao T, Zhu Y, Bichsel C, Varela L, Szigeti-Buck K, Lisgo S, Zhang Y, Testen A, Gao X-B, Mlakar J, Popovic M, Flamand M, Strittmatter SM, Kaczmarek LK, Anton ES, Horvath TL, Lindenbach BD, Sestan N (2016) Zika Virus Disrupts Phospho-TBK1 Localization and Mitosis in Human Neuroepithelial Stem Cells and Radial Glia. Cell Reports 16, 1–17
* Equal contribution

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"Antibody responses to Plasmodium falciparum and Plasmodium vivax blood-stage and sporozoite antigens in the postpartum period" Alistair McLean, Machteld Boel, Rose McGready, Ricardo Ataide, Damien Drew, Takafumi Tsuboi, James Beeson, Francois Nosten, Julie A Simpson, and Freya Fowkes. Scientific Reports (2016)

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Azevedo-Silva J., Ko Y. H., Pedersen P. L., Preto A., Casal M. “Anticancer agent 3BP: license to kill. “3-Bromopyruvate: from a simple molecule to the bedside of oncology patients”. J Bioenerg Biomembr. 2016 Aug;48(4):349-62. doi: 10.1007/s10863-016-9670-z

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Tumor Growth Suppression Induced by Biomimetic Silk Fibroin Hydrogels.
Yan LP, Silva-Correia J, Ribeiro VP, Miranda-Gonçalves V, Correia C, da Silva Morais A, Sousa RA, Reis RM, Oliveira AL, Oliveira JM, Reis RL.
Sci Rep. 2016 Aug 3;6:31037.

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Lactate Transporters and pH Regulation: Potential Therapeutic Targets in Glioblastomas.
Miranda-Gonçalves V, Reis RM, Baltazar F.
Curr Cancer Drug Targets. 2016;16(5):388-99. Review.

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Patricia C. Lopes, Per Block and Barbara König. Infection-induced behavioural changes reduce connectivity and the potential for disease spread in wild mice contact networks. Scientific Reports 6, Article number: 31790 (2016)

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Kosciuczuk EM, Saleiro D, Kroczynska B, Beauchamp EM, Eckerdt F, Blyth GT, Abedin SM, Giles FJ, Altman JK, Platanias LC. Merestinib blocks Mnk kinase activity in acute myeloid leukemia progenitors and exhibits antileukemic effects in vitro and in vivo. Blood. 2016 Jul 21;128(3):410-4.

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Significance of glycolytic metabolism-related protein expression in colorectal cancer, lymph node and hepatic metastasis.
Martins SF, Amorim R, Viana-Pereira M, Pinheiro C, Costa RF, Silva P, Couto C, Alves S, Fernandes S, Vilaça S, Falcão J, Marques H, Pardal F, Rodrigues M, Preto A, Reis RM, Longatto-Filho A, Baltazar F.
BMC Cancer. 2016 Jul 26;16:535

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Hypoxia-mediated upregulation of MCT1 expression supports the glycolytic phenotype of glioblastomas.
Miranda-Gonçalves V, Granja S, Martinho O, Honavar M, Pojo M, Costa BM, Pires MM, Pinheiro C, Cordeiro M, Bebiano G, Costa P, Reis RM, Baltazar F.
Oncotarget. 2016 Jul 19;7(29):46335-46353

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Copy Number Profiling of Brazilian Astrocytomas.
Bidinotto LT, Torrieri R, Mackay A, Almeida GC, Viana-Pereira M, Cruvinel-Carloni A, Spina ML, Campanella NC, Pereira de Menezes W, Clara CA, Becker AP, Jones C, Reis RM.
G3 (Bethesda). 2016 Jul 7;6(7):1867-78.

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The prognostic impact of TERT promoter mutations in glioblastomas is modified by the rs2853669 single nucleotide polymorphism.
Batista R, Cruvinel-Carloni A, Vinagre J, Peixoto J, Catarino TA, Campanella NC, Menezes W, Becker AP, de Almeida GC, Matsushita MM, Clara C, Neder L, Viana-Pereira M, Honavar M, Castro L, Lopes JM, Carvalho B, Vaz RM, Máximo V, Soares P, Sobrinho-Simões M, Reis RM, Lima J.
Int J Cancer. 2016 Jul 15;139(2):414-23.

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Studying cytokinesis in Drosophila epithelial tissues. Methods in Cell Biology.

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Arguello J.R., Cardoso-Moreira M. et al.Extensive local adaptation within the chemosensory system following Drosophila melanogaster's global expansion. Nature communications 7 (2016)

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Saleiro D, Kosciuczuk EM, Platanias LC. Beyond autophagy: New roles for ULK1 in immune signaling and interferon responses. Cytokine Growth Factor Rev. 2016 Jun;29:17-22.

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The metabolic microenvironment of melanomas: Prognostic value of MCT1 and MCT4.
Pinheiro C, Miranda-Gonçalves V, Longatto-Filho A, Vicente AL, Berardinelli GN, Scapulatempo-Neto C, Costa RF, Viana CR, Reis RM, Baltazar F, Vazquez VL.
Cell Cycle. 2016 Jun 2;15(11):1462-70.

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Cytotoxicity of allitinib, an irreversible anti-EGFR agent, in a large panel of human cancer-derived cell lines: KRAS mutation status as a predictive biomarker.
Silva-Oliveira RJ, Silva VA, Martinho O, Cruvinel-Carloni A, Melendez ME, Rosa MN, de Paula FE, de Souza Viana L, Carvalho AL, Reis RM.
Cell Oncol (Dordr). 2016 Jun;39(3):253-63.

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“Malaria and immunity during pregnancy and postpartum: a tale of two species” Alistair A.R.D. McLean, Ricardo Ataíde, Julie A. Simpson, James G. Beeson, Freya J.I. Fowkes. (2015). Journal of Parasitology

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Brucklacher-Walbert, V., Ferreira, C., Innocentin, S.,Kamdar, S., Withers, D.R., Kullberg, M., Veldhoen, M. (2016). Tbet or Continued RoRgt Expression is Not Required for Th17-Associated Immunopathology. J Immunol. 196, 4893-4904.

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Nogueira E, Gomes AC, Preto A, Cavaco-Paulo A. “Folate-targeted nanoparticles for rheumatoid arthritis therapy”. Nanomedicine. 2016 May;12(4):1113-26. doi: 10.1016/j.nano.2015.12.365.

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Oncogenetics service and the Brazilian public health system: the experience of a reference Cancer Hospital.
Palmero EI, Galvão HC, Fernandes GC, Paula AE, Oliveira JC, Souza CP, Andrade CE, Romagnolo LG, Volc S, C Neto M, Sabato C, Grasel R, Mauad E, Reis RM, Michelli RA.
Genet Mol Biol. 2016 May 13;39(2):168-77

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Brachyury as a potential modulator of androgen receptor activity and a key player in therapy resistance in prostate cancer.
Pinto F, Pértega-Gomes N, Vizcaíno JR, Andrade RP, Cárcano FM, Reis RM.
Oncotarget. 2016 May 17;7(20):28891-902.

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Raf Kinase Inhibitor Protein Expression and Prognostic Value in Soft Tissue Sarcomas.
Martinho O, Campos M, Ribeiro G, Penna V, Curcelli EC, Olivieri MV, Morini S, Scapulatempo C, Abrahão-Machado LF, Reis RM.
Pathobiology. 2016;83(1):41-6.

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Posa I, Carvalho S, et al. “A pan-cancer analysis of MYC-PVT1 revealsCNV-unmediated deregulation and poor prognosis in renal carcinoma” Oncotarget

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Pinto-Almeida A, Mendes T, de Oliveira RN, Corrêa SAP, Allegretti SM, Belo S, Tomás A, Anibal FF, Carrilho E and Afonso A. (2016) Morphological characteristics of Schistosoma mansoni PZQ-resistant and -susceptible strains are different in presence of Praziquantel. Front. Microbiol. 7:594. doi:10.3389/fmicb.2016.00594

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Cardoso-Moreira M., Arguello J.R., Gottipati S., Harshman L.G., Grenier J.K. and Clark A.G. Evidence for the fixation of gene duplications by positive selection in Drosophila. Genome research 26:787-798 (2016)

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Molecular profiling, including TERT promoter mutations, of acral lentiginous melanomas.
Vazquez Vde L, Vicente AL, Carloni A, Berardinelli G, Soares P, Scapulatempo C, Martinho O, Reis RM.
Melanoma Res. 2016 Apr;26(2):93-9.

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Hotspot TERT promoter mutations are rare events in testicular germ cell tumors.
Cárcano FM, Vidal DO, van Helvoort Lengert A, Neto CS, Queiroz L, Marques H, Baltazar F, da Silva Martinelli CM, Soares P, da Silva EC, Lopes LF, Reis RM.
Tumour Biol. 2016 Apr;37(4):4901-7

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Boulangé CL, Neves AL, Chilloux J, Nicholson JK, Dumas ME. Impact of the gut microbiota on inflammation, obesity, and metabolic disease. Genome Med. 2016 Apr 20;8(1):42.

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Barros-Martins, J., Schmolka, N., Fontinha, D., Pires de Miranda, M., Simas, J.P., Brok, I., Ferreira, C., Veldhoen, M., Silva-Santos, B., and Serre, K. (2016). Effector gammadelta T Cell Differentiation Relies on Master but Not Auxiliary Th Cell Transcription Factors. J Immunol. 196, 3642-3652.

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Longitudinal evaluation of regulatory T-cell dynamics on HIV-infected individuals during the first 2 years of therapy
C. Nobrega, A. Horta, V. Coutinho-Teixeira, A. Martins-Ribeiro, A. Baldaia, R. Rb-Silva, C. L. Santos, R. Sarmento-Castro, M. Correia-Neves
AIDS (2016), 30: 1175-85
doi:10.1097/QAD.0000000000001074

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Tai, D.J.C., Ragavendran, A., Manavalan, P., Stortchevoi, A., Seabra, C.M., … Gusella, J. F. and Talkowski, M. E. (2016). Engineering microdeletions and microduplications by targeting segmental duplications with CRISPR. Nat. Neurosci. 19, 517–522.

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Brachyury identifies a class of enteroendocrine cells in normal human intestinal crypts and colorectal cancer.
Jezkova J, Williams JS, Pinto F, Sammut SJ, Williams GT, Gollins S, McFarlane RJ, Reis RM, Wakeman JA.
Oncotarget. 2016 Mar 8;7(10):11478-86

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Nogueira E, Cruz CF, Loureiro A, Nogueira P, Freitas J, Moreira A, Carmo AM, Gomes AC, Preto A, Cavaco-Paulo A.. “Assessment of nanocapsule disruption to drug delivery in vitro”. Biochim Biophys Acta. 2016 Feb;1858(2):163-7. doi: 10.1016/j.bbamem.2015.11.008.

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TERT promoter mutations in soft tissue sarcomas.
Campanella NC, Penna V, Abrahão-Machado LF, Cruvinel-Carloni A, Ribeiro G, Soares P, Scapulatempo-Neto C, Reis RM.
Int J Biol Markers. 2016 Feb 28;31(1):e62-7

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Santos JC and Enninga J. (2016) At the crossroads: communication of bacteria-containing vacuoles with host organelles. Cell Microbiol. 2016 Jan 13. doi: 10.1111/cmi.12567.

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Kroczynska B, Rafidi RL, Majchrzak-Kita B, Kosciuczuk EM, Blyth GT, Jemielity J, Warminska Z, Saleiro D, Mehrotra S, Arslan AD, Fish EN, Platanias LC. Interferon γ (IFNγ) Signaling via Mechanistic Target of Rapamycin Complex 2 (mTORC2) and Regulatory Effects in the Generation of Type II Interferon Biological Responses. J Biol Chem. 2016 Jan 29;291(5):2389-96.

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Wagih O, Sugiyama N, Ishihama Y, Beltrao P. Uncovering Phosphorylation-Based Specificities through Functional Interaction Networks. Mol Cell Proteomics. 2016 Jan;15(1):236-45.

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SPINT2 Deregulation in Prostate Carcinoma.
Pereira MS, de Almeida GC, Pinto F, Viana-Pereira M, Reis RM.
J Histochem Cytochem. 2016 Jan;64(1):32-41.

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Science. 2015 Dec 3. pii: aad0084. [Epub ahead of print]
Fetal liver hematopoietic stem cell niches associate with portal vessels.
Khan JA, Mendelson A, Kunisaki Y, Birbrair A, Kou Y, Arnal-Estapé A, Pinho S, Ciero P, Nakahara F, Ma'ayan A, Bergman A, Merad M, Frenette PS.

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Santos JC, Duchateau M, Fredlund J, Weiner A, Mallet A, Schmitt C, Matondo M, Hourdel V, Chamot-Rooke J, Enninga J. (2015) The COPII complex and lysosomal VAMP7 determine intracellular Salmonella localization and growth. Cell Microbiol, 17: 1699–1720.

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Eugénia Nogueira, Andreia Gomes, Ana Preto and Artur Cavaco-Paulo. “Design of Liposomal Formulations for Cell Targeting”. Colloids Surf B Biointerfaces. 2015 Dec 1;136:514-26. doi: 10.1016/j.colsurfb.2015.09.034.

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Eugénia Nogueira, Andreia Gomes, Ana Preto and Artur Cavaco-Paulo. “Folate-targeted nanoparticles for rheumatoid arthritis therapy.” Nanomedicine. 2015 Dec 28. pii: S1549-9634(15)00610-3. doi: 10.1016/j.nano.2015.12.365.

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Neves AL, Chilloux J, Sarafian MH, Rahim MB, Boulangé CL, Dumas ME. The microbiome and its pharmacological targets: therapeutic avenues in cardiometabolic diseases. Curr Opin Pharmacol. 2015 Dec;25:36-44. doi: 10.1016/j.coph.2015.09.013.
PMID: 26531326

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Sin O and Nollen EAA. Regulation of protein homeostasis in aging and aging-related diseases: role of coding and non-coding genes. Cell Mol Life Sci. 2015 Nov;72(21):4027-47. doi: 10.1007/s00018-015-1985-0. Epub 2015 Jul 21.

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Martin H, Shales M, Fernandez‐Piñar P, Wei P, Molina M, Fiedler M, Shokat KM, Beltrao P, Lim W, Krogan NJ Differential genetic interactions of yeast stress response MAPK pathways Mol Syst Biol. 2015 11: 800

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Grosso AR, Leite AP, Carvalho S, et al. “Pervasive transcription read-through is associated with aberrant expression of cancer genes and RNA chimeras in renal carcinoma” eLife

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Curado J, et al. Promoter-like epigenetic signatures in exons displaying cell type-specific splicing
Genome Biology 2015, 16:236 doi:10.1186/s13059-015-0797-8

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Diogo Teixeira*, Andrea Cruz*, Sandra Braz, Alexandra Moreira, João Relvas, Rui Camacho. “PBS Finder: A Tool to Assist RNA Binding Proteins Studies”, ACM's Digital Library, Symposium on Applied Computing (SAC 2015), 2015 Vol 1, pp 32-39 *shared authorship

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N. Duarte, I. C. Coelho, Rita S. Patarrão, J. I. Almeida, C. Penha-Gonçalves and M. P. Macedo, How inflammation impinges on NAFLD: a role for Kupffer cells. Biomed Res Int. (2015)

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Rita S. Patarrão, W. Wayne Lautt and M. Paula Macedo, Acute glucagon induces postprandial peripheral insulin resistance. PLoS One, 10(5): 1-16 (2015).

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Alves S, Castro L, Fernandes MS, Francisco R, Castro P, Priault M, Chaves SR, Moyer MP, Oliveira C, Seruca R, Côrte-Real M, Sousa MJ, Preto A. “Colorectal cancer-related mutant KRAS alleles function as positive regulators of autophagy”. Oncotarget. 2015 Oct 13;6(31):30787-802. doi: 10.18632/oncotarget.5021.

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Ana Loureiro, Eugénia Nogueira, Nuno G. Azoia, Marisa Passos Sárria, Ana Sofia Abreu, Ulyana Shimanovich, Alexandra Rollett, Johan Härmark, Hans Hebert, Georg Guebitz, Gonçalo J. L. Bernardes, Ana Preto, Andreia C. Gomes, Artur Cavaco-Paulo. “Size Controlled Protein Nanoemulsions for Active Targeting of Folate Receptor Positive Cells”. Colloids and Surfaces B: Biointerfaces, 2015, 135, 90-98. doi:10.1016/j.colsurfb.2015.06.073

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Eugénia Nogueira, Franck Lager, Delphine Le Roux, Patrícia Nogueira, Jaime Freitas, Celine Charvet, Gilles Renault, Ana Loureiro, Catarina R. Almeida, Anna Ohradanova-Repic, Christian Machacek, Gonçalo J. L. Bernardes, Alexandra Moreira, Hannes Stockinger, Michael Burnet, Alexandre M. Carmo, Andreia C. Gomes, Ana Preto, Georges Bismuth and Artur Cavaco-Paulo. "Enhancing methotrexate tolerance with folate tagged liposomes in arthritic mice." Journal of Biomedical Nanotechnology, 2015, 11(12), 2243-2252.

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Nogueira E., MangialavoriI. C., Loureiro A., Azoia N. G., Sárria M. P., Nogueira P., Freitas J., Harmark, J., Shimanovich U., Rollett A., Lacroix G., Bernardes G. J. L., Guebitz G., Hebert H., Moreira A., Carmo A. M., Rossi J. P. F. C., Gomes A. C., Preto A. and Cavaco-Paulo A. “Peptide anchor for folate-targeted liposomal delivery”. Biomacromolecules, 2015, 16(9), 2904-2910.

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Maia et al., Inhibition of the spindle assembly checkpoint kinase TTK enhances the efficacy of docetaxel in a triple-negative breast cancer model, Annals of Oncology (2015).

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Marques SR, Ramakrishnan C, Carzaniga R, Blagborough AM, Delves MJ, Talman AM, Sinden RE.
An essential role of the basal body protein SAS-6 in Plasmodium male gamete development and malaria transmission. Cellular Microbiology 2015 Feb;17(2):191-206.

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Miguel-Blanco C, Lelièvre J, Delves MJ, Bardera AI, Presa JL, López-Barragán MJ, Ruecker A, Marques S, Sinden RE, Herreros E.
Imaging-based high-throughput screening assay to identify new molecules with transmission-blocking potential against Plasmodium falciparum female gamete formation.
Antimicrob Agents Chemother. 2015;59(6):3298-305.

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Laranjo L, Neves AL, Costa A, Ribeiro RT, Couto L, Sá AB. Facilitators, barriers and expectations in the self-management of type 2 diabetes - a qualitative study from Portugal. Eur J Gen Pract. 2015 Jun;21(2):103-10. doi: 10.3109/13814788.2014.1000855. Epub 2015 Feb 20.

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F. Mushtaq et al., “Magnetically Driven Bi2O3/BiOCl-Based Hybrid Microrobots for Photocatalytic Water Remediation”, Journal of Materials Chemistry A, 2015

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Saleiro D, Platanias LC. ULK1 in type I interferon response. Oncotarget. 2015 Sep 22;6(28):24586-7.

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KOSTIC I*, FIDALGO-CARVALHO I*, ADAY S, VAZÃO H, CARVALHEIRO T, GRÃOS M, DUARTE A, CARDOSO C, GONÇALVES L, CARVALHO L, PAIVA A, FERREIRA L. Lysophosphatidic acid enhances survival of human CD34(+) cells in ischemic conditions. Sci Rep. 2015 Nov 10;5:16406. doi: 10.1038/srep16406. PubMed PMID: 26553339; PubMed Central PMCID: PMC4639756.* Authors contributed
equally.

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Maternal piRNAs Are Essential for Germline Development following De Novo Establishment of Endo-siRNAs in Caenorhabditis elegans
de Albuquerque, Bruno F.M. et al. Developmental Cell , Volume 34 , Issue 4 , 448 - 456

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Pérez-Lluch S*, Blanco E*, Tilgner H*, Curado J*, Ruiz-Romero M, Corominas M, Guigó, R Absence of canonical marks of active chromatin in developmentally regulated genes
Nature Genetics 47, 1158–1167 (2015) doi:10.1038/ng.3381

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Amorim R, Pinheiro C, Miranda-Gonçalves V, Pereira H, Moyer MP, Preto A, Baltazar F. “Monocarboxylate transport inhibition potentiates the cytotoxic effect of 5-fluorouracil in colorectal cancer cells.” Cancer Lett. 2015 Aug 28;365(1):68-78.
doi: 10.1016/j.canlet.2015.05.015.

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Johnson JR, Santos SD, Johnson T, Pieper U, Strumillo M, Wagih O, Sali A, Krogan NJ, Beltrao P Prediction of functionally important phospho-regulatory events in Xenopus laevis oocytes PLOS Comput Biol 11(8): e1004362.

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El Ouaamari A, Zhou J, Liew CW, Shirakawa J, Dirice E, Gedeon N, Kahraman S, De Jesus D, Bhatt S, Kim JS, Clauss TRW, Camp DG, Smith RD, Qian WJ and Kulkarni RN. Compensatory Islet Response to Insulin Resistance Revealed by Quantitative Proteomics. J. Proteome Res 14(8):3111-22, 2015

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Gupta MK, Teo AKK, Rao TN, Bhatt S, Kleinridders A, Shirakawa, J, Takatani T, De Jesus DF, Windmueller R, Wagers AJ, Kulkarni RN. Excessive cellular proliferation negatively impacts reprogramming efficiency of human fibroblasts. Stem Cells Trans Med DOI: 10.5966/sctm.2014-0217.

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Pinto-Almeida A, Mendes T, Armada A, Belo S, Carrilho E, Viveiros M and Afonso Ana. (2015) The role of efflux pumps in Schistosoma mansoni Praziquantel resistant phenotype. PLoS ONE 10(10): e0140147. doi:10.1371/journal.pone.0140147

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Veldhoen, M., and Ferreira, C. (2015). Influence of nutrient-derived metabolites on lymphocyte immunity. Nature medicine 21, 709-718.

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Ana Loureiro, Gonçalo J. L. Bernardesc, Ulyana Shimanovichc, Marisa Passos Sárriaa,b, Eugénia Nogueira, Ana Preto, Andreia C. Gomesb, Artur Cavaco-Paulo. “Folic Acid-Tagged Protein Nanoemulsions Loaded with CORM-2 Enhance the Survival of Mice Bearing Subcutaneous A20 Lymphoma Tumors”, Nanomedicine. 2015 Jul;11(5):1077-83. doi: 10.1016/j.nano.2015.02.022.

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Automated Identification and Localization of Hematopoietic Stem Cells in 3D Intravital Microscopy Data. Khorshed RA, Hawkins ED, Duarte D, Scott MK, Akinduro OA, Rashidi NM, Spitaler M, Lo Celso C. Stem Cell Reports. 2015 Jul 14;5(1):139-53

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Cellular immune correlates analysis of an HIV-1 preexposure prophylaxis trial.
Kuebler PJ, Mehrotra ML, McConnell JJ, Holditch SJ, Shaw BI, Tarosso LF, Leadabrand KS, Milush JM, York VA, Raposo RA, Cheng RG, Eriksson EM, McMahan V, Glidden DV, Shiboski S, Grant RM, Nixon DF, Kallás EG.
Proc Natl Acad Sci U S A. 2015 Jun 22. pii: 201501443. [Epub ahead of print]

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Barreira da Silva R, Laird ME, Yatim N, Fiette L, Ingersoll MA, Albert ML. (2015) Dipeptidylpeptidase 4 inhibition enhances lymphocyte trafficking, improving both naturally occurring tumor immunity and immunotherapy. Nat Immunol. [Epub ahead of print]

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Andrea Cruz, Paula Ludovico, Egidio Torrado, José Bernardo Gama, Jeremy Sousa, Joana Gaifem, Rui Appelberg, Fernando Rodrigues, Andrea M Cooper, Jorge Pedrosa, Margarida Saraiva. IL-17A promotes intracellular growth of Mycobacterium by inhibiting apoptosis of infected macrophages. Front. Immunol. 6:498. doi: 10.3389/fimmu.2015.00498

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Oliveira CSF, Pereira H, Alves S, Castro L, Baltazar F, Chaves SR, Côrte-Real M, Preto A."Cathepsin D protects colorectal cancer cells from acetate-induced apoptosis through autophagy-independent degradation of damaged mitochondria". Cell Death Dis. 2015 Jun 18;6:e1788. doi: 10.1038/cddis.2015.157.

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Pratas D, Silva RM, Pinho AJ, Ferreira PJSG (2015). An alignment-free method to find and visualise rearrangements between pairs of DNA sequences. Sci Rep. 5: 10203.

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Carvalho S, Barreira da Silva R, Shawki A, Castro H, Lamy M, Eide D, Costa V, Mackenzie B, Tomás AM. (2015) LiZIP3 is a cellular zinc transporter that mediates the tightly regulated import of zinc in Leishmania infantum parasites. Mol Microbiol. 96(3):581-95

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Modulating APOBEC expression enhances DNA vaccine immunogenicity.
Almeida RR, Raposo RA, Caroline Coirada F, da Silva JR, de Souza Ferreira LC, Kalil J, Nixon DF, Cunha-Neto E.
Immunol Cell Biol. 2015 May 8. doi: 10.1038/icb.2015.53.

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A.M. Lindo et al., “The biocompatibility and anti-biofouling properties of magnetic core-multishell Fe@C NWs/AAO nanocomposites”, Physical Chemistry Chemical Physics, 2015

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Hepcidin and iron disorders: new biology and clinical approaches, International Journal of Laboratory Hematology, 2015,

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“Malaria in pregnancy interacts with and alters the angiogenic profiles of the placenta” Ricardo Ataíde, O. Murillo, J.G. Dombrowski, R.M. Souza, F.A. Lima, G.F.M.C. Lima, A.D. Hristov, S.C.N. Valle, S.M. Di Santi, S. Epiphanio, C.R.F. Marinho. (2015). PLoS Neglected Tropical Diseases

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RM Silva, D Pratas, L Castro, AJ Pinho, PJSG Ferreira (2015). Three minimal sequences found in Ebola virus genomes and absent from human DNA. Bioinformatics: btv189.

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"Ube3a reinstatement identifies distinct developmental windows in a murine Angelman syndrome model."
Sara Silva-Santos1,2,3, Geeske M. van Woerden1,2, Caroline F. Bruinsma1,2, Edwin Mientjes1,2, Mehrnoush Aghadavoud Jolfaei1,2, Ben Distel4, Steven A. Kushner2,5 and Ype Elgersma1,2

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Numerous Transitions of Sex Chromosomes in Diptera
B Vicoso, D Bachtrog - PLoS Biology, 2015

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Lun MP, Johnson MB, Broadbelt KG, Watanabe M, Kang YJ, Chau KF, Springel MW, Malesz A, Sousa AMM, Pletikos M, Adelita T, Calicchio ML, Zhang Y, Holtzman MJ, Lidov HG, Sestan N, Steen H, Monuki ES, Lehtinen MK (2015) Spatially Heterogeneous Choroid Plexus Transcriptomes Encode Positional Identity and Contribute to Regional CSF Production. J Neurosci. 35(12):4903-16.

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Grenier J., Arguello J.R., Cardoso Moreira M. et al. Global diversity lines–a five-continent reference panel of sequenced Drosophila melanogaster strains. G3. 5:593-603 (2015)

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Colamonici M, Blyth G, Saleiro D, Szilard A, Bliss-Moreau M, Giles FJ, Altman JK, Beauchamp EM, Platanias LC. Dual targeting of acute myeloid leukemia progenitors by catalytic mTOR inhibition and blockade of the p110α subunit of PI3 kinase. Oncotarget. 2015 Apr 10;6(10):8062-70.

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Saleiro D, Mehrotra S, Kroczynska B, Beauchamp EM, Lisowski P, Majchrzak-Kita B, Bhagat TD, Stein BL, McMahon B, Altman JK, Kosciuczuk EM, Baker DP, Jie C, Jafari N, Thompson CB, Levine RL, Fish EN, Verma AK, Platanias LC. Central role of ULK1 in type I interferon signaling. Cell Rep. 2015 Apr 28;11(4):605-17.

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João Azevedo-Silva, Odilia Queirós, Fatima Baltazar, Young H. KO, Peter Pedersen, Ana Preto, Margarida Casal. “The cytotoxicity of 3-Bromopyruvate in breast cancer cells depends on extracellular pH”. Biochem J. 2015 Apr 15;467(2):247-58.
doi: 10.1042/BJ20140921.

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Rei M, Pennington DJ, Silva-Santos B. The emerging protumor role of γδ T lymphocytes: implications for cancer immunotherapy. Cancer Research 2015 Mar 1; 75(5):798-802

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Antiviral gene expression in psoriasis.
Raposo RA, Gupta R, Abdel-Mohsen M, Dimon M, Debbaneh M, Jiang W, York VA, Leadabrand KS, Brown G, Malakouti M, Arron S, Kuebler PJ, Wu JJ, Pillai SK, Nixon DF, Liao W.
J Eur Acad Dermatol Venereol. 2015 Mar 23. doi: 10.1111/jdv.13091. [Epub ahead of print]

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Ect2/Pbl Acts via Rho and Polarity Proteins to Direct the Assembly of an Isotropic Actomyosin Cortex upon Mitotic Entry

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Sakamoto KM, Grant S, Saleiro D, Crispino JD, Hijiya N, Giles F, Platanias LC, Eklund EA. Targeting novel signaling pathways for resistant acute myeloid leukemia. Mol Genet Metab. 2015 Mar;114(3):397-402.

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Leveille et al., Genome-wide profiling of p53-regulated enhancer RNAs uncovers a subset of enhancers controlled by a lncRNA, Nature Communications (2015).

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The impact of genomics on population genetics of parasitic diseases
Daniel N. Hupalo, Martina Bradic, and Jane M. Carlton

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Andrea Cruz, Egídio Torrado, Jenny Carmona, Alexandra G. Fraga, Patrício Costa, Fernando Rodrigues, Rui Appelberg, Margarida Correia-Neves, Andrea M. Cooper, Margarida Saraiva, Jorge Pedrosa, António G. Castro. BCG vaccination-induced long-lasting control of Mycobacterium tuberculosis correlates with the accumulation of a novel population of CD4+IL-17+TNF+IL-2+ T cells. Vaccine 2015, 33, 85–91.

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Test, treat, and cure.
Nixon DF, Simon GL, Raposo RA.
J Acquir Immune Defic Syndr. 2015 Jan 1;68(1):e9-10. doi: 10.1097/QAI.0000000000000385.

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Neuronal RAR Signaling Modulates PTEN Activity Directly
in Neurons and via Exosome Transfer in Astrocytes to
Prevent Glial Scar Formation and Induce Spinal Cord
Regeneration

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Hepcidin-Induced Hypoferremia Is a Critical Host Defense Mechanism against the Siderophilic Bacterium Vibrio vulnificus, Cell Host & Microbe, 2015, 17, 47-57

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Saleiro D, Platanias LC. Intersection of mTOR and STAT signaling in immunity. Trends Immunol. 2015 Jan;36(1):21-9.

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Axonal morphological changes following impulse activity in mouse peripheral nerve in vivo: the return pathway for sodium ions

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Tenente IM, Tang Q, Moore JC, Langenau DM. (2014) Normal and malignant muscle cell transplantation into immune compromised adult zebrafish. J Vis Exp. 94. doi: 10.3791/52597.

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De Jesus DF, Kulkarni RN. Epigenetic modifiers of islet function and mass. TEM 25(12): 628-636, 2014

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Baptista AP, Roozendaal R, Reijmers RM, Koning JJ, Unger WW, Greuter M, Keuning ED, Molenaar R, Goverse G, Sneeboer MMS, den Haan JMM, Boes M, Mebius RE. Lymph node stromal cells constrain immunity via MHC class II self-antigen presentation. eLife 2014 Nov 19

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Dirice E, Kahraman S, De Jesus DF, Hu J, Kulkarni RN. Maternal insulin resistance and transient hyperglycemia impacts the metabolic and endocrine phenotypes of offspring. APJ - Endocrinology and Metabolism DOI: 10.1152/ajpendo.00210.2014, 2014.

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Nat Med. 2014 Nov;20(11):1315-20. doi: 10.1038/nm.3707. Epub 2014 Oct 19.
Megakaryocytes regulate hematopoietic stem cell quiescence through CXCL4 secretion.
Bruns I*, Lucas D*, Pinho S*, Ahmed J, Lambert MP, Kunisaki Y, Scheiermann C, Schiff L, Poncz M, Bergman A, Frenette PS. * These authors contributed equally.

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Epigenetic regulation of EFEMP1 in prostate cancer: biological relevance and clinical potential.

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The ubiquitin ligase FbxL7 regulates the Dachsous-Fat-Dachs system in Drosophila.
Rodrigues-Campos M, Thompson BJ.
Development. 2014 Nov;141(21):4098-103. doi: 10.1242/dev.113498. Epub 2014 Sep 25.

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Brito MA, Palmela I, Cardoso FL, Sá-Pereira I, Brites D (2014). Blood-brain barrier and bilirubin: clinical aspects and experimental data. Archives of Medical Research 45(8):660-76.

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Sousa AMM*, Meyer KA*, Sestan N (2014) Molecular and Cellular Mechanisms of Human Brain Development and Evolution. In The Cognitive Neurosciences , 5th edition. Gazzaniga MS, Mangun GR, Eds., The MIT Press, pp. 67-74
* Equal contribution

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Sin O, Michels H, Nollen EAA. Genetic screens in Caenorhabditis elegans models for neurodegenerative diseases. Biochim Biophys Acta. 2014 Oct;1842(10):1951-1959. doi: 10.1016/j.bbadis.2014.01.015. Epub 2014 Feb 11.

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Linterman, M.A., Denton, A.E., Divekar, D.P., Zvetkova, I., Kane, L., Ferreira, C., Veldhoen, M., Clare, S., Dougan, G., Espeli, M., et al. (2014). CD28 expression is required after T cell priming for helper T cell responses and protective immunity to infection. Elife 3.

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The neurotrophic factor receptor RET drives haematopoietic stem cell survival and function.
Fonseca-Pereira D, Arroz-Madeira S, Rodrigues-Campos M, Barbosa IA, Domingues RG, Bento T, Almeida AR, Ribeiro H, Potocnik AJ, Enomoto H, Veiga-Fernandes H.
Nature. 2014 Oct 2;514(7520):98-101. doi: 10.1038/nature13498. Epub 2014 Jul 27.

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Ana Curinha, Sandra Oliveira Braz, Isabel Pereira-Castro, Andrea Cruz, Alexandra Moreira. Implications of polyadenylation in health and disease. Nucleus 2014 Sep 5;5(6)

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Macedo MP, Lima IS, Gaspar JM, Afonso RA, Patarrão RS, Kim YB & Ribeiro RT, Risk of postprandial insulin resistance: The liver/vagus rapport. Rev Endocr Metab Disord. 15 (1): 67-77 (2014)

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Couch Y, Davis AE, Sá-Pereira I, Campbell SJ, Anthony DC (2014). Viral pre-challenge increases central nervous system inflammation after intracranial interleukin-1β injection. Journal of Neuroinflammation. 17;11:178.

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Duarte-Pereira S, Silva SS, Azevedo L, Castro L, Amorim A, Silva RM (2014).
NAMPT and NAPRT1: novel polymorphisms and distribution of variants between normal tissues and tumor samples. Scientific Reports 4: 6311.

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Rei M, Gonçalves-Sousa N, Lança T, Thompson RG, Mensurado S, Balkwill FR, Kulbe H, Pennington DJ, Silva-Santos B. Murine CD27(−) Vγ6(+) γδ T cells producing IL-17A promote ovarian cancer growth via mobilization of protumor small peritoneal macrophages. PNAS. 2014 Aug 26;111(34):E3562-70

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Marriott, C.L., Mackley, E.C., Ferreira, C., Veldhoen, M., Yagita, H., and Withers, D.R. (2014). OX40 controls effector CD4+ T-cell expansion, not follicular T helper cell generation in acute Listeria infection. Eur J Immunol 44, 2437-2447.

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Groh, M., Silva, L. M., Gromak, N. Mechanisms of transcriptional dysregulation in repeat expansion disorders. Biochemical Society Transactions Aug 2014, 42 (4) 1123-1128.

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Maia et al., A growing role for Aurora A in chromosome instability, Nature Cell Biology (2014).

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Talman AM, Prieto JH, Marques S, Ubaida-Mohien C, Lawniczak M, Wass MN, Xu T, Frank R, Ecker A, Stanway RS, Krishna S, Sternberg MJ, Christophides GK, Graham DR, Dinglasan RR, Yates JR 3rd, Sinden RE.
Proteomic analysis of the Plasmodium male gamete reveals the key role for glycolysis in flagellar motility. Malar J. 2014 Aug 13;13:315.

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Dynamic regulation of host restriction factor expression over the course of HIV-1 infection in vivo
Raposo RA, Abdel-Mohsen M, Deng X, Hecht FM, Pilcher CD, Pillai SK and Nixon DF.
J. Virol. published ahead of print 16 July 2014 , doi:10.1128/JVI.01771-14

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Araujo HF, Kaplan J, Damasio H, Damasio A. (2014) Involvement of cortical midline structures in the processing of autobiographical information. PeerJ 2:e481 http://dx.doi.org/10.7717/peerj.481

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Laranjo L, Arguel A, Neves AL, Gallagher AM, Kaplan R, Mortimer N, Mendes GA, Lau AY. The influence of social networking sites on health behavior change: a systematic review and meta-analysis. J Am Med Inform Assoc. 2014 Jul 8.

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Tang, Q.*, Abdelfattah, N. S.*, Blackburn, J.S., Moore, J.C., Martinez, S.A., Moore, F.E., Lobbardi, R., Tenente, I.M., Ignatius, M. S., Berman, J.N., Liwski, R.S., Houvras, Y., Langenau, D.M.* (2014) Optimized cell transplantation using adult rag2 mutant zebrafish. Nature Methods

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Oliveira CC, Sluijter M, Querido B, Ossendorp F, van der Burg SH, van Hall T. Dominant contribution of the proteasome and metalloproteinases to TAP-independent MHC-I peptide repertoire. Molecular Immunology 2014, 62(1):129-136

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Santos JC, Silva-Gomes S, Silva JP, Gama M, Rosa G, Gallo RL, Appelberg R. (2014) Endogenous cathelicidin production limits inflammation and protective immunity to Mycobacterium avium in mice. Imm Inflamm Dis. 2(1): 1-12.

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Baltazar F, Pinheiro C, Morais-Santos F, Azevedo-Silva J, Queirós O, Preto A, Casal M. “Monocarboxylate transporters as targets and mediators in cancer therapy response”. Histol Histopathol. 2014 Dec;29(12):1511-1524. Epub 2014 Jun 12.

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When is it socially acceptable to feel sick?
Patricia C. Lopes
Proc. R. Soc. B 2014 281 20140218; DOI: 10.1098/rspb.2014.0218. Published 18 June 2014

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Zhu Y, Li M, Sousa AMM, Sestan N (2014) XSAnno: a framework for building ortholog models in cross-species transcriptome comparisons. BMC Genomics. 2014, 15:343

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Mizoguchi T, Pinho S, Ahmed J, Kunisaki Y, Hanoun M, Mendelson A, Ono N, Kronenberg HM, Frenette PS. Osterix Marks Distinct Waves of Primitive and Definitive Stromal Progenitors during Bone Marrow Development. Dev Cell. 2014 May 12;29(3):340-9. doi: 10.1016/j.devcel.2014.03.013.

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Neves AL, Couto L. Cardiovascular risk in overweight/obese and lean hypertensive patients. Rev Port Cardiol. 2014 May 12. pii: S0870-2551(14)00082-1.

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Shang L, Daubeuf B, Triantafilou M, Salgado-Pires S, Reith W, Monteiro R, Pugin J, Leger O, Ferlin W2, Kosco-Vilbois M, Triantafilou K, Elson G. (2014) Selective Antibody Intervention of Toll-like Receptor 4 Activation through Fc γ Receptor Tethering. J Biol Chem. 2014 May 30;289(22):15309-15318

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Sousa, A. F., Gomes-Alves, A. G., Benítez, D., Comini, M. a, Flohé, L., Jaeger, T., , Passos J, , Stuhlmann, Tomás AM, Castro, H. (2014). Genetic and chemical analyses reveal that trypanothione synthetase but not glutathionylspermidine synthetase is essential for Leishmania infantum. Free Radical Biology & Medicine, 73C, 229–238.

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J. Voog, S. Sandall, G. Hime, Resende, L.P.F., A. Aslanan, M. Loza-Coll, T. Hunter, M.T. Fuller, and D.L. Jones. (2014) Escargot restricts niche cell-stem cell conversion in the Drosophila testis. Cell Reports 7 (3): 722-734.

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A multicellular view of cytokinesis in epithelial tissue.

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Ferreira, C., Palmer, D., Blake, K., Garden, O.A., and Dyson, J. (2014). Reduced regulatory T cell diversity in NOD mice is linked to early events in the thymus. J Immunol 192, 4145-4152.

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FREIRE AG, NASCIMENTO DS, FORTE G, VALENTE M, RESENDE TP, PAGLIARI S, ABREU C, CARVALHO IF, DI NARDO P, PINTO-DO-Ó P. Stable phenotype and function of immortalized Lin-Sca-1+ cardiac progenitor cells in long-term culture: a step closer to standardization. Stem Cells Dev. 2014 MAY 1;23(9):1012-26. DOI: 10.1089/SCD.2013.0305. EPUB 2014 FEB 14. PUBMED PMID: 24367889.

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Carvalho S, Vitor AC, et al. “SETD2 is required for DNA double-strand break repair and activation of the p53-mediated checkpoint” eLife

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Injury Signals Cooperate with Nf1 Loss to Relieve the Tumor-Suppressive Environment of Adult Peripheral Nerve
Sara Ribeiro, Ilaria Napoli, Ian J. White, Simona Parrinello, Adrienne M. Flanagan, Ueli Suter, Luis F. Parada, Alison C. Lloyd. Cell Rep. 2013

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The Tc1/mariner transposable element family shapes genetic variation and gene expression in the protist Trichomonas vaginalis
Martina Bradic, Sally D Warring, Vivien Low and Jane M Carlton

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A mathematical perspective on CD4(+) T cell quorum-sensing.

Reynolds J, Amado IF, Freitas AA, Lythe G, Molina-París C.

We analyse a mathematical model of the peripheral CD4(+) T cell population, based on a quorum-sensing mechanism, by which an optimum number of regulatory T cells can be established and maintained. We divide the population of a single T cell receptor specificity into four pools: naive, IL-2 producing, IL-2 non-producing, and regulatory CD4(+) T cells. Proliferation, death and differentiation of cells are introduced as transition probabilities of a stochastic Markov model, with the assumption that the amount of IL-2 available to CD4(+) T cells is proportional to the size of the population of IL-2 producing CD4(+) T cells. We explore the population dynamics both in the absence and in the presence of specific antigen. We study the establishment of the peripheral CD4(+) T cell pool from thymic output in the absence of antigen, and its return to homeostasis after an immune challenge, by steady state analysis of the deterministic approximation. The number of regulatory T cells at steady state is greater in the presence of antigen than in its absence. We also consider the stochastic dynamics of the model after an immune challenge, in particular the behaviour leading to ultimate extinction of the IL-2 producing and regulatory T cell populations.

J Theor Biol. 2014 Apr 21;347:160-75.

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van de Pavert, Ferreira, Molenaar, Domingues, Moreira-Santos, Almeida, Ibiza, Barbosa, Ribeiro, Godinho-Silva, Konijn, Schooneman, Goverse, Habani, Haak, Santori, Littman, Dzierzak, Simas, Mebius & Veiga-Fernandes, H. (2014). Maternal retinoids control group 3innate lymphoid cells and set the offspring immunity. Nature Apr 3;508(7494):123-7

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PID-1 is a novel factor that operates during 21U-RNA biogenesis in Caenorhabditis elegans.
Bruno F.M. de Albuquerque, Maartje J. Luteijn, Ricardo J. Cordeiro Rodrigues, Petra van Bergeijk, Selma Waaijers, Lucas J.T. Kaaij, Holger Klein, Mike Boxem and René F. Ketting. Genes Dev. 2014 Apr 1;28(7):683-8. doi: 10.1101/gad.238220.114.

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Mazué F, Delmas D, Murillo G, Saleiro D, Limagne E, Latruffe N. Differential protective effects of red wine polyphenol extracts (RWEs) on colon carcinogenesis. Food Funct. 2014 Apr;5(4):663-70.

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Requirement for highly efficient pre-mRNA splicing during Drosophila early embryonic development

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Physiological implications of NTBI uptake by T lymphocytes, Frontiers in Pharmacology, 2014, 5:24

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Dirice E, Kahraman S, Jiang W, El Ouaamari A, De Jesus DF, Teo A, Hu J, Kawamori D, Gaglia J, Mathis D, Kulkarni RN. Soluble factors secreted by T-cells promote β-cell proliferation. Diabetes 63:188-202, 2014.

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Vale PF, Fenton A, Brown SP. (2014) Limiting damage during infection: lessons from infection tolerance for novel therapeutics. PLOS Biology. DOI: 10.1371/journal.pbio.1001769

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Stefanska M, Costa G, Lie-A-Ling M, Kouskoff V, Lacaud G. Smooth muscle cells largely develop independently of functional hemogenic endothelium. Stem Cell Res. 2014 Jan;12(1):222-32

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L.R. Martins, P. Lúcio, A. Melão, I. Antunes, B.A. Cardoso, R. Stansfield, M.T. Bertilaccio, P. Ghia, D. Drygin, M.G. Silva, J.T. Barata (2014). Activity of the clinical-stage CK2-specific inhibitor CX-4945 against chronic lymphocytic leukemia. Leukemia 28 (1): 179–182.

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“Malaria, primigravidae and antibodies: current knowledge and future perspectives” Ricardo Ataíde, Alfredo Mayor, Stephen J. Rogerson. DOI information: 10.1016/j.pt.2013.12.007. Trends in Parasitology (2014)

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Accurate detection of upper tract urothelial carcinoma in tissue and urine by means of quantitative GDF15, TMEFF2 and VIM promoter methylation.

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Pletikos M*, Sousa AMM*, Sedmak G*, Meyer KA, Zhu Y, Cheng F, Li M, Kawasawa YI, Sestan N (2014) Temporal specification and bilaterality of human neocortical topographic gene expression. Neuron. 81(2):321-32.
* Equal contribution

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Impulse Conduction Increases Mitochondrial Transport in Adult Mammalian Peripheral Nerves In Vivo
M. Sajic, V. Mastrolia, C. Y. Lee, D.Trigo, M. Sadeghian, A. J. Mosley, N. A. Gregson, M. R. Duchen, K.J. Smith
PLoS Biology. December 31, 2013DOI: 10.1371/journal.pbio.1001754

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Perez-Campo FM, Costa G, Lie-A-Ling M, Stifani S, Kouskoff V, Lacaud G. MOZ-mediated repression of p16INK4a is critical for the self-renewal of neural and hematopoietic stem cells. Stem Cells 2013

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Lemes VA, Neves AL, Guazzelli IC, Frazzatto E, Nicolau C, Corrêa-Giannella ML, Velho G, Villares SM. Angiotensin converting enzyme insertion/deletion polymorphism is associated with increased adiposity and blood pressure in obese children and adolescents. Gene. 2013 Dec 15;532(2):197-202.

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Is This Mine? Small RNAs Help to Decide
de Albuquerque, Bruno F.M. et al. Developmental Cell , Volume 27 , Issue 6 , 599 - 601

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Beltrao P, Bork P, Krogan NJ, van Noort V. Evolution and functional cross-talk of protein post-translational modifications. Mol Syst Biol. 2013 Dec 22;9:714.

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Garbutt JS, Scholefield JA, Vale PF, Little TJ. (2013) Elevated maternal temperature enhances offspring disease resistance in Daphnia magna. Functional Ecology. DOI: 10.1111/1365-2435.12197

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Gandon S, Vale PF. (2013) The evolution of resistance against good and bad infections. Journal of Evolutionary Biology. 27:303-312. DOI: 10.1111/jeb.12291

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IL-2 coordinates IL-2-producing and regulatory T cell interplay.

Amado IF, Berges J, Luther RJ, Mailhé MP, Garcia S, Bandeira A, Weaver C, Liston A, Freitas AA.

Many species of bacteria use quorum sensing to sense the amount of secreted metabolites and to adapt their growth according to their population density. We asked whether similar mechanisms would operate in lymphocyte homeostasis. We investigated the regulation of the size of interleukin-2 (IL-2)-producing CD4(+) T cell (IL-2p) pool using different IL-2 reporter mice. We found that in the absence of either IL-2 or regulatory CD4(+) T (T reg) cells, the number of IL-2p cells increases. Administration of IL-2 decreases the number of cells of the IL-2p cell subset and, pertinently, abrogates their ability to produce IL-2 upon in vivo cognate stimulation, while increasing T reg cell numbers. We propose that control of the IL-2p cell numbers occurs via a quorum sensing-like feedback loop where the produced IL-2 is sensed by both the activated CD4(+) T cell pool and by T reg cells, which reciprocally regulate cells of the IL-2p cell subset. In conclusion, IL-2 acts as a self-regulatory circuit integrating the homeostasis of activated and T reg cells as CD4(+) T cells restrain their growth by monitoring IL-2 levels, thereby preventing uncontrolled responses and autoimmunity.

J Exp Med. 2013 Nov 18;210(12):2707-20.

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J.T. Barata (2013). IL-7Rα: Mr Hyde's twists and turns. Blood 122 (26): 4151-4152.

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Non-Transferrin-Bound Iron (NTBI) Uptake by T Lymphocytes: Evidence for the Selective Aquisition of Oligomeric Ferric Citrate Species, PLOS One, 2013, 8(11):e79870

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LINE-1 Retrotransposable Element DNA Accumulates in HIV-1-infected Cells
J Virol. 2013, Oct 2. [Epub ahead of print]

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Kunisaki Y, Bruns I, Scheiermann C, Ahmed J, Pinho S, Zhang D, Mizoguchi T, Wei Q, Lucas D, Ito K, Mar JC, Bergman A & Frenette PS. Arteriolar niches maintain haematopoietic stem cell quiescence. Nature Oct 2013. In Press

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Expression profile of host restriction factors in HIV-1 elite controllers
Abdel-Mohsen M, Raposo RA et al., Retrovirology 2013, 10:106 (16 October 2013)

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Schmolka N, Serre K, Grosso AR, Rei M, Pennington DJ, Gomes AQ, Silva-Santos B. Epigenetic and transcriptional signatures of stable versus plastic differentiation of proinflammatory γδ T cell subsets. Nat Immunol. 2013 Oct;14(10):1093-100

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Oliveira CC, Querido B, Sluijter M, de Groot AF, van der Zee R, Rabelink MJWE, Hoeben RC, Ossendorp F, van der Burg SH, van Hall T. New role of signal peptide peptidase to liberate C-terminal peptides for MHC class-I presentation. The Journal of Immunology, 2013, 191(8):4020-8

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A Conserved Protein with AN1 Zinc-finger and Ubiquitin-like Domains Modulates Cdc48 (p97) Function in the Ubiquitin-Proteasome Pathway

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Pinto P, Barbara C, Montserrat JM, Patarrão RS, Guarino MP, Carmo MM, Macedo MP, Martinho C, Dias R & Gomes MJ, Effects of CPAP on nitrate and norepinephrine levels in severe and mild-moderate sleep apnea. BMC Pulm Med. 13, 13 (2013).

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Nogueira E, Loureiro A, Nogueira P, Freitas J, R. Almeida CR, Härmark J, Hebert H, Moreira A, Carmo AM, Preto A, Gomes AC, Cavaco-Paulo A. “Liposome and protein based stealth nanoparticles”. Faraday Discussions 2013, DOI: 10.1039/C3FD00057E

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A bacteriophage detection tool for viability assessment of Salmonella cells
E. Fernandes, V. Martins, C. Nobrega, C. M. Carvalho, F. A. Cardoso, S. Cardoso, J. Dias, D. Deng, L. D. Kluskens, P. P. Freitas, J. Azeredo
Biosensors and Bioelectronics (2014) 15:239-246
doi: 10.1016/j.bios.2013.08.053

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Martina Bradic, Henrique Teotonio and Richard Borowsky
The population genomics of repeated evolution in the blind cavefish A. mexicanus, Molecular Biology and Evolution, August 8, 2013 doi:10.1093/molbev/mst13.

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Poulos MG, Guo P, Kofler NM, Pinho S, Gutkin MC, Tikhonova A, Aifantis I, Frenette PS, Kitajewski J, Rafii S, Butler JM. Endothelial jagged-1 is necessary for homeostatic and regenerative hematopoiesis. Cell Reports. 2013 Sep 12;4(5):1022-34.

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Neves AL, Coelho J, Couto L, Leite-Moreira A, Roncon-Albuquerque R Jr. Metabolic endotoxemia: a molecular link between obesity and cardiovascular risk. J Mol Endocrinol. 2013 Sep 11;51(2):R51-64.

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Oliveira CC, van Hall T. Importance of TAP-independent processing pathways. Molecular Immunology 2013, 55(2): 113-116.

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Biochemical and Biophysical Characterization of Recombinant Yeast Proteasome Maturation Factor Ump1.
Computational and Structural Biotechnology Journal

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Goss PE, Lee BL, Badovinac-Crnjevic T, Strasser-Weippl K, Chavarri-Guerra Y, Louis JS, Villarreal-Garza C, Carvalho A, Gil CF, Sternberg C, Dueñas-Gonzalez A, Sgroi D, Cuello M, Fresco R, Reis RM, Villa L, Solares AL, Leon MX, Torres-Vigil I, Covarrubias-Gomez A, Hernández A, Bertolino M, Schwartsmann G, Santillana S, Esteva F, Fein L, Mano M, Gomez H, Hurlbert M, Durstine A, Azenha G. Planning cancer control in Latin America and the Caribbean. Lancet Oncol. 2013;14(5):391-436.

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Increased expression of intrinsic antiviral genes in HLA-B*57-positive individuals
Raposo RA et al., 2013: J Leukoc Biol, jlb.0313150; doi:10.1189/jlb.0313150

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Effects of Cellular Activation on Anti-HIV-1 Restriction Factor Expression Profile in Primary Cells
Raposo RA et al., 2013, J. Virol. published ahead of print 21 August 2013 , doi:10.1128/JVI.02128-13

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Araujo HF, Kaplan J and Damasio A (2013). Cortical midline structures and autobiographical-self processes: an activation-likelihood estimation (ALE) meta-analysis. Front. Hum. Neurosci. 7:548. doi: 10.3389/fnhum.2013.00548

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Morais-de-Sá, E., Vega-Rioja, A., Trovisco, V., and St Johnston, D. (2013). Oskar Is Targeted for Degradation by the Sequential Action of Par-1, GSK-3, and the SCFSlimb Ubiquitin Ligase. Dev Cell 26, 303-314.

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Morais-de-Sá, E., and Sunkel, C. (2013). Adherens junctions determine the apical position of the midbody during follicular epithelial cell division. EMBO Rep 14, 696-703

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Pereira, C.F. *, Chang, B., Qiu, J., Niu, X., Papatsenko, D., Hendry, C.E., Clark, N.R., Nomura-Kitabayashi A., Kovacic J.C., Ma’ayan A., Schaniel C., Lemischka, I.R., Moore, K.A* (2013). Induction of a Hemogenic Program in Mouse Fibroblasts. Cell Stem Cell. 13, 205-18. *corresponding authors.

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Increased circulating platelet microparticles as a potential biomarker in asthma. Duarte D*, Taveira-Gomes T, Sokhatska O, Palmares C, Costa R, Negrão R, Guimarães JT, Delgado L, Soares R, Moreira A. Allergy. 2013 Aug;68(8):1073-5. (*corresponding author)

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Isoxanthohumol modulates angiogenesis and inflammation via vascular endothelial growth factor receptor, tumor necrosis factor alpha and nuclear factor kappa B pathways. Negrão R*, Duarte D*, Costa R, Soares R. Biofactors. 2013 Aug 1 (*equal contribution)

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Stolp HB, Liddelow SA, Sá-Pereira I, Dziegielewska KM and Saunders NR (2013). Immune responses at brain barriers and implications for brain development and neurological function in later life. Frontiers in Integrative Neuroscience 7: 61.

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Vale PF. (2013) Killing them softly: managing pathogen polymorphism and virulence in spatially variable environments. Trends in Parasitology. 29: 417-422.http://dx.doi.org/10.1016/j.pt.2013.07.002

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Ghajar CM, Correia AL, and Bissell MJ. (2013). The role of the microenvironment in tumor initiation, progression and metastasis. Molecular Basis of Cancer, 4th Ed. chapter on the Tumor Microenvironment (in press).

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Pinho S, Lacombe J, Hanoun M, Mizoguchi T, Bruns I, Kunisaki Y, Frenette PS. PDGFRα and CD51 mark human Nestin+ sphere-forming mesenchymal stem cells capable of hematopoietic progenitor cell expansion. J Exp Med. 2013 Jul 1;210(7):1351-67.

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Deregulation of PAX2 expression in renal cell tumours: mechanisms and potential use in differential diagnosis.

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Tolerance has its limits: how the thymus copes with infection
C. Nunes-Alves, C. Nobrega, S. Behar, M. Correia-Neves
Trends in immunology (2013), 34(10):502-510
doi 10.1016/j.it.2013.06.004

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PLoS One. 2013 Jul 9;8(7):e68026. doi: 10.1371/journal.pone.0068026. Print 2013.
Headcase promotes cell survival and niche maintenance in the Drosophila testis.
Resende LP1, Boyle M, Tran D, Fellner T, Jones DL.

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Swaney DL, Beltrao P, Starita L, Guo A, Rush J, Fields S, Krogan NJ, Villén J. Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation. Nat Methods. 2013 Jul;10(7):676-82

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Lipoarabinomannan mannose caps do not affect mycobacterial virulence and immunogenicity in experimental animal models of infection
A. Afonso-Barroso, S.O. Clark, A. Williams, G.T. Rosa, C. Nobrega, S. Silva-Gomes, S. Vale-Costa, R. Ummels, N. Stoker, F.M. Zadeh, P. van der Ley, B.J. Appelmelk, G. Puzo, J. Nigou, J. Geurtsen, R. Appelberg
Cellular Microbiology, 2013, 15(4): 660
doi:10.1111/cmi.12065

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Perez-Campo FM, Costa G, Lie-a-Ling M, Kouskoff V, Lacaud G. The MYSTerious MOZ, a histone acetyltransferase with a key role in haematopoiesis. Immunology 2013; 139(2):161-5.

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Patricia C. Lopes, Hilary Chan, Sophie Demathieu, Paulina Gonzalez-Gomez, John C. Wingfield and George E. Bentley. The impact of exposure to a novel female on symptoms of infection and on the reproductive axis (2013). Neuroimmunomodulation. Accepted.
DOI: 10.1159/000353779

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Cavaleiro R, Tendeiro R, Foxall RB, Soares RS, Baptista AP, Gomes P, Valadas E, Victorino RM, Sousa AE. Monocyte and myeloid dendritic cell activation occurs throughout HIV type 2 infection, an attenuated form of HIV disease. J Infect Dis. 2013 Jun 1;207(11):1730-42

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ARAF acts as a scaffold to stabilise BRAF:CRAF heterodimers. Oncogene
Rebocho AP and Marais R.

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Lança T, Costa MF, Gonçalves-Sousa N, Rei M, Grosso AR, Penido C, Silva-Santos B. Protective role of the inflammatory CCR2/CCL2 chemokine pathway through recruitment of type 1 cytotoxic γδ T lymphocytes to tumor beds. J Immunol. 2013 Jun 15;190(12):6673-80

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Laranjo L, Neves AL, Villanueva T, Cruz J, Brito de Sá A, Sakellarides C. Patients' access to their medical records. Acta Med Port. 2013 May-Jun;26(3):265-70.

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Baptista AP, Olivier BJ, Goverse G, Greuter M, Knippenberg M, Kusser K, Domingues RG, Veiga-Fernandes H, Luster AD, Lugering A, Randall TD, Cupedo T, Mebius RE. Colonic patch and colonic SILT development are independent and differentially regulated events. Mucosal Immunol. 2013 May;6(3):511-21

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Delves MJ, Ruecker A, Straschil U, Leliévre J, Marques S, López-Barragán MJ, Herreros E, Sinden RE. Male and female P. falciparum mature gametocytes show different responses to antimalarial drugs. Antimicrob Agents Chemother. 2013 Apr 29.

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Carneiro J, Duarte-Pereira S, Azevedo L, Castro LFC, Aguiar P, Moreira IS, Amorim A, Silva RM (2013). The Evolutionary Portrait of Metazoan NAD Salvage. PLoS ONE 8(5): e64674.

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Gannage M, da Silva RB and Münz C. (2013) Antigen processing for MHC presentation via macroautophagy, Methods Mol Biol. 960:473-88

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R. Ataíde*, R.M. Souza*, J.G. Dombrowski, V. Ippólito, E.H. Aitken, S.N. Valle, et al., Placental Histopathological Changes Associated with Plasmodium vivax Infection during Pregnancy. PLoS Neglected Tropical Diseases. 7 (2013) e2071. PMID 23459254
* authors contributed equally

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Selective tracking of template DNA strands after induction of mitosis with unreplicative genomes (MUGs) in Drosophila S2 cells.

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Radzisheuskaya A, Chia GLB, Santos R, Theunissen TW, Castro LFC, Nichols J, Silva JCR. A defined Oct4 level governs cell state transitions of pluripotency entry and differentiation into all embryonic lineages. Nature Cell Biology. 30 April (2013) doi:10.1038/ncb2742

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Correia AL, Mori H, Chen EI, Schmitt FC, Bissell MJ. (2013). The hemopexin domain of MMP3 is responsible for mammary epithelial invasion and morphogenesis through extracellular interaction with HSP90β. Genes Dev, 27: 805‐17.

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Sex-biased gene expression at homomorphic sex chromosomes in emus and its implication for sex chromosome evolution
B Vicoso, VB Kaiser, D Bachtrog - Proceedings of the National Academy of Sciences, 2013

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Reversal of an ancient sex chromosome to an autosome in Drosophila
B Vicoso, D Bachtrog - Nature, 2013

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Comparative sex chromosome genomics in snakes: differentiation, evolutionary strata, and lack of global dosage compensation
B Vicoso, JJ Emerson, Y Zektser, S Mahajan, D Bachtrog - PLoS biology, 2013

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Chow A, Huggins M, Ahmed J, Hashimoto D, Lucas D, Kunisaki Y, Pinho S, Leboeuf M, Noizat C, van Rooijen N, Tanaka M, Zhao ZJ, Bergman A, Merad M, Frenette PS. CD169⁺ macrophages provide a niche promoting erythropoiesis under homeostasis and stress. Nature Medicine 2013 Apr;19(4):429-36.

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T Cells Target APOBEC3 Proteins in HIV-1-infected Humans and SIV-infected Indian Rhesus Macaques
Champiat S, Garrison KE, Raposo RA, Burwitz BJ, Reed J, Tandon R, York VA, Newman LP, Nimityongskul FA, Wilson NA, Almeida RR, Martin JN, Deeks SG, Rosenberg MG, Wiznia AA, Spotts GE, Pilcher CD, Hecht FM, Ostrowski MA, Sacha JB, Nixon DF.
J Virol. 2013 Mar 27. [Epub ahead of print]

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Figueiredo J, Soderberg O, Simoes-Correia J, Grannas K, Suriano G, et al. (2013) The importance of E-cadherin binding partners to evaluate the pathogenicity of E-cadherin missense mutations associated to HDGC. Eur J Hum Genet 21: 301-309.

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Vogelaar IP, Figueiredo J, van Rooij IA, Simoes-Correia J, van der Post RS, et al. (2013) Identification of germline mutations in the cancer predisposing gene CDH1 in patients with orofacial clefts. Hum Mol Genet 22: 919-926.

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Neves AL. EGPRN: European General Practice Research Network. Eur J Gen Pract. 2013 Mar;19(1):62-4.

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N. Correia, K. Durinck, A.P. Leite, M. Ongenaert, P. Rondou, F. Speleman, F.J. Enguita, J.T. Barata (2013). Novel TAL1 targets beyond protein-coding genes: identification of TAL1-regulated microRNAs in T-cell acute lymphoblastic leukemia. Leukemia 27 (7): 1603-1606.

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Carvalho S, Raposo AC, et al. “Histone methyltransferase SETD2 coordinates FACT recruitment with nucleosome dynamics during transcription” Nucleic Acids Research

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Costa Y*, Ding J*, Theunissen TW*, Faiola F*, Fidalgo M, Saunders A, Qiu J, Xu H, Ma'ayan A, Lawrence M, Hore TA, Moore K, Levasseur DN, Dietmann S, Reik W, Silva JCR, Wang J. (2013). Nanog-dependent function of Tet1 and Tet2 in establishment of pluripotency. Nature. doi:10.1038/nature11925. (*co-authorship)

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Costa Y, Ding J, Theunissen TW, Faiola F, Hore TA, Shliaha PV, Fidalgo M, Saunders A, Lawrence M, Dietmann S, Das S ,Levasseur DN, Li Z, Xu M, Reik W, Wang J#, Silva JCR#. Nanog-dependent function of Tet1 and Tet2 in establishment of pluripotency. Nature. (2013), doi:10.1038/nature11925.

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Vale PF, Choisy M, Little TJ. (2013) Host nutrition alters the variance in parasite transmission potential. Biology Letters. 9:20121145. doi:10.1098/rsbl.2012.1145

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High percentage of regulatory CD4+ T cells associates with worse immune reconstitution in HIV-infected patients
A. Horta*, C. Nobrega*, P. Amorim-Machado, V. Coutinho-Teixeira, P. Barreira-Silva, S. Boavida, P. Costa, R. Sarmento-Castro, A. Gil Castro, M. Correia-Neves
PLoS ONE, 2013, 8(2):e257336
doi:10.1371/journal.pone.005733

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Lucas D., Pinho S., and Frenette P. MSC Niche for Hematopoiesis. In Mesenchymal Stromal Cells. P. Hematti, and A. Keating, editors. Springer New York, 2013, pp 91-106.

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Dying to entrain: regulating ipRGC spacing.
Pinto-Teixeira F, Desplan C.
Dev Cell. 2013 Feb 25;24(4):338-40.

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Mancio-Silva L, Lopez-Rubio JJ, Claes A, Scherf A.
Sir2a regulates rDNA transcription and multiplication rate in the human malaria parasite Plasmodium falciparum.
Nat Commun. 2013;4:1530. doi: 10.1038/ncomms2539.

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Alves, J.M. & Lopes A.M. Population Genomics/Macro vs Microevolution. Brenner's Encyclopedia of Genetics (Second Edition). 2013. Pages 412–414

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Pereira B, Sousa S, Barros R, Carreto L, Oliveira P, Oliveira C, Chartier NT, Plateroti M, Rouault JP, Freund JN, Billaud M, Almeida R. "CDX2 regulation by the RNA-binding protein MEX3A: impact on intestinal differentiation and stemness" Nucleic Acids Res. (2013) 41(7):3986-3999

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Marques C, Oliveira CSF, Alves S, Chaves SR, Coutinho OP, Côrte-Real M, Preto A. “Acetate-induced apoptosis in colorectal carcinoma cells involves lysosomal membrane permeabilization and cathepsin D release”. Cell Death and Disease (2013) Feb 21;4:e507. doi: 10.1038/cddis.2013.29.

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T cells home to the thymus and control infection
C. Nobrega*, C. Nunes-Alves*, B. Cerqueira-Rodrigues, S. Roque, P. Barreira-Silva, S. M. Behar, M. Correia-Neves
Journal of Immunology, 2013, 190:1646
doi:10.4049/jimmunol.1202412

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Frenette PS, Pinho S, Lucas D, Scheiermann C. Mesenchymal Stem Cell: Keystone of the Hematopoietic Stem Cell Niche and a Stepping-Stone for Regenerative Medicine. Annual Review of Immunology. 2013 Jan 3.

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Henriques, Catarina M., et al. "Telomerase Is Required for Zebrafish Lifespan." PLoS genetics 9.1 (2013): e1003214.

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Mancio-Silva L, Scherf A.
In situ fluorescence visualization of transcription sites and genomic Loci in blood stages of Plasmodium falciparum.
Methods Mol Biol. 2013;923:335-51.

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Maia et al., Modulation of Golgi-associated microtubule nucleation throughout the cell cycle, Cytoskeleton (2013).

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Conrad MD, Bradic M, Warring SD, Gorman AW, Carlton JM.
Getting trichy: tools and approaches to interrogating Trichomonas vaginalis in a post-genome world. Trends Parasitol. 2013 Jan;29(1):17-25. doi: 10.1016/j.pt.2012.10.004.

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Probing the function of neuronal populations: combining micromirror-based optogenetic photostimulation with voltage-sensitive dye imaging.

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Julien Vézilier, Antoine Nicot, Julien De Lorgeril, Sylvain Gandon, Ana Rivero (2012) The impact of insecticide resistance on Culex pipiens immunity. Evolutionary Applications ISSN 1752-4571

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Saleiro D, Murillo G, Benya RV, Bissonnette M, Hart J, Mehta RG.
Estrogen receptor-β protects against colitis-associated neoplasia in mice. Int J Cancer. 2012;131:2553-61. doi: 10.1002/ijc.27578.

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Alves, J. M., Lopes, A. M., Chikhi, L. & Amorim, A. 2012. On the structural plasticity of the human genome: Chromosomal inversions revisited. Current Genomics, 13,

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NTPDase1 activity attenuates microglial phagocytosis. Bulavina L1, Szulzewsky F, Rocha A, Krabbe G, Robson SC, Matyash V, Kettenmann H.
Purinergic Signal. 2013 Jun;9(2):199-205. doi: 10.1007/s11302-012-9339-y. Epub 2012 Dec 5.

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Cardoso-Moreira M., Arguello J. R. and Clark A.G. Mutation spectrum of Drosophila CNVs revealed by breakpoint sequencing. Genome Biology. 13:R119 (2012)

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Moniz, S., Sousa, M., Moraes, B.J., Mendes, A.I., Palma, M., Barreto, C., Fragata, J.I., Amaral, M.D., Matos, P., "HGF Stimulation of Rac1 Signaling Enhances Pharmacological Correction of the Most Prevalent Cystic Fibrosis Mutant F508del-CFTR", ACS Chem. Biol., 8(2), 432-42 (2013)

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Potential Downstream Target Genes of Aberrant ETS Transcription Factors Are Differentially Affected in Ewing's Sarcoma and Prostate Carcinoma.

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On the pathogenesis of Plasmodium vivax malaria: Perspectives from the Brazilian field.
Costa FT, Lopes SC, Albrecht L, Ataíde R, Siqueira AM, Souza RM, Russell B, Renia L, Marinho CR, Lacerda MV.

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Holland SJ, Bartok I, Attaf M, Genolet R, Luescher IF, Kotsiou E, Richard A, Wang, E, White M, Coe DJ, Chai JG, Ferreira C, Dyson J. The T-cell receptor is not hardwired to engage MHC ligands. Proc. Natl. Acad. Sci. U.S.A. 2012 Nov 6;109 (45):E3111-8.

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Collins MJ, Napoli I*, Ribeiro S*, Roberts S, and Alison C. Lloyd1. Loss of Rb Cooperates with Ras to Drive Oncogenic Growth in Mammalian Cells. Current Biology (In press) (*equal contributions)

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Tendeiro R, Albuquerque AS, Foxall RB, Cavaleiro R, Soares RS, Baptista AP, Soares MV, Gomes P, Sousa AE. Preserved CD4 T-cell telomere length during long-lasting HIV-2 infection. AIDS 2013 Jan 14;27(2):289-92

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Radzisheuskaya A, Pasque V, Gillich A, Halley-Stott RP, Panamarova M, Zernicka-Goetz M, Surani MA, Silva JCR. Histone variant macroH2A marks embryonic differentiation in vivo and acts as an epigenetic barrier to induced pluripotency. Journal of Cell Science. Oct 17, (2012) doi: 10.1242/jcs.113019.

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Fidalgo M, Faiola F, Pereira CF, Ding J, Saunders A, Gingold J, Schaniel C, Lemischka IR, Silva JCR, Wang J. Zfp281 Mediates Nanog Autorepression through Recruitment of the NuRD Complex and Inhibits Somatic Cell Reprogramming. Proc Natl Acad Sci. (2012) Oct 2;109(40):16202-7. doi: 10.1073/pnas.1208533109. Epub 2012 Sep 17.

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Vézilier J, Nicot A, Gandon S & Rivero A (2012) Plasmodium infection decreases fecundity and increases survival of mosquitoes. Proceedings of the Royal Society of London, Series B. 279: 4033-4041

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Maia et al., Cdk1 and Plk1 mediate a CLASP2 phospho-switch that stabilizes kinetochore-microtubule attachments, JCB (2012).

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Martin LA, Pancholi S, Farmer I, Guest S, Ribas R, Weigel MT, Thornhill AM, Ghazoui Z, A'hern R, Evans DB, Lane HA, Johnston SR, Dowsett M. (2012). Effectiveness and molecular interactions of the clinically active mTORC1 inhibitor everolimus in combination with tamoxifen or letrozole in vitro and in vivo.Breast Cancer Res. 2012 Oct 17;14(5):R132.

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Jenny Carmona, Andrea Cruz, Lúcia Moreira-Teixeira, Carole Sousa, Jeremy Sousa, Nuno S. Osório, Ana L. Saraiva, Stefan Svenson, Gunilla Kallenius, Jorge Pedrosa, Fernando Rodrigues, António G. Castro and Margarida Saraiva. Mycobacterium tuberculosis strains are differentially recognized by TLRs with an impact on the immune response. PLoS ONE 2013 8(6): e67277.

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Ricardo A. Afonso, Ana B. Fernandes, Celina Santos, Dário Ligeiro, Inês S. Lima, Rita S. Patarrão, Paula A. Videira, Jorge Caldeira and M. Paula Macedo, Postprandial insulin resistance in zucker diabetic fatty rats is associated with parasympathetic-no axis deficiencies. J Neuroendocrinol. 24: 1346-1355 (2012).

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Rita S. Patarrão, W. Wayne Lautt, Ricardo A. Afonso, Rogério T. Ribeiro, Ana B. Fernandes, José M. Boavida and M. Paula Macedo, Postprandial but not fasting insulin resistance is an early identifier of dysmetabolism in overweight subjects. Can J Physiol Pharmacol. 90: 923-931 (2012).

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Queirós O, Preto A, Pacheco A, Pinheiro C, Silva J, Moreira R, Pedro M, Ko Y, Pederson P, Baltazar F and Casal M. “Butyrate activates the monocarboxylate transporter MCT4 expression in breast cancer cells and enhances the antitumor activity of 3-bromopyruvate”. J Bioenerg Biomembr 2012, 44(1):141-53. http://hdl.handle.net/1822/21366

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Dynamics of Intracellular Clathrin/AP1- and Clathrin/AP3-Containing Carriers. Kural C, Tacheva-Grigorova SK, Boulant S, Cocucci E, Baust T, Duarte D, Kirchhausen T. Cell Rep. 2012 Oct 24

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Miller DJ, Duka T, Stimpson CD, Schapiro SJ, Baze WB, McArthur MJ, Fobbs AJ, Sousa AMM, Sestan N, Wildman DE, Lipovich L, Kuzawa CW, Hof PR, Sherwood CC (2012) Prolonged myelination in human neocortical evolution. Proc Natl Acad Sci U S A. 2012 Oct 9;109 (41) :16480-5. Epub 2012 Sep 24. PMID: 23012402

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Pereira PNG, Dobreva MP, Maas E, Cornelis F, Moya IM, Umans L, Verfaillie CM, Camus A, Chuva de Sousa Lopes S, Huylebroeck D and Zwijsen A. Antagonism of Nodal signaling by BMP/Smad5 prevents ectopic primitive streak formation in the mouse amnion. Development, 2012 Sept 15, 139, 3343-3354.

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Tilgner H, Knowles DG, Johnson R, Davis CA, Chakrabortty S, Djebali S, Curado J, Snyder M, Gingeras TR, Guigó R.
Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs
Genome Res. 2012 Sep;22(9):1616-25.

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Sarah Djebali, et al.
Landscape of transcription in human cells
Nature. 2012 Sep 6;489(7414):101-8. doi: 10.1038/nature11233.

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A. M. Zeeshan, et al., "Graphite Coating of Iron Nanowires for Nanorobotic Applications: Synthesis, Characterization and Magnetic Wireless Manipulation", Advanced Functional Materials, 2012

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Sierra-Miranda M, Delgadillo DM, Mancio-Silva L, Vargas M, Villegas-Sepulveda N, Martínez-Calvillo S, Scherf A, Hernandez-Rivas R.
Two long non-coding RNAs generated from subtelomeric regions accumulate in a novel perinuclear compartment in Plasmodium falciparum.
Mol Biochem Parasitol. 2012 Sep;185(1):36-47. doi: 10.1016/j.molbiopara.2012.06.005. Epub 2012 Jun 18.

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Tendeiro R, Fernandes S, Foxall RB, Marcelino JM, Taveira N, Soares RS, Baptista AP, Cavaleiro R, Gomes P, Victorino RM, Sousa AE. Memory B-cell depletion is a feature of HIV-2 infection even in the absence of detectable viremia. AIDS. 2012 Aug 24;26(13):1607-17.

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Ribot JC, Debarros A, Mancio-Silva L, Pamplona A, Silva-Santos B.
B7-CD28 costimulatory signals control the survival and proliferation of murine and human γδ T cells via IL-2 production.
J Immunol. 2012 Aug 1;189(3):1202-8. doi: 10.4049/jimmunol.1200268. Epub 2012 Jun 25.

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Patel, A, Harker, N, Moreira-Santos, L, Ferreira, M, Alden, K, Timmis, J, Foster, K, Garefalaki, A, Pachnis, P, Andrews, P, Enomoto, H, Milbrandt, J, Pachnis, V, Coles, M, Kioussis, D, Veiga-Fernandes, H. (2012). Differential RET signaling responses orchestrate lymphoid and nervous enteric system development. Science Signaling 5 (235), ra55.

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Christophe Lancrin, Milena Mazan, Monika Stefanska, Rahima Patel, Monika Lichtinger, Guilherme Costa, Özge Vargel, Nicola K. Wilson, Tarik Möröy, Constanze Bonifer, Berthold Göttgens, Valerie Kouskoff and Georges Lacaud
GFI1 and GFI1B control the loss of endothelial identity of hemogenic endothelium during hematopoietic commitment
Blood 2012;120 314-322

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Vale PF, Little TJ. Fecundity compensation and tolerance to a sterilizing pathogen in Daphnia. Journal of Evolutionary Biology. 25: 1888–1896. DOI: 10.1111/j.1420-9101.2012.02579.x

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Patrícia C. Lopes, John C. Wingfield, George E. Bentley (2012) Lipopolysaccharide injection induces rapid decrease of hypothalamic GnRH mRNA and peptide, but does not affect GnIH in zebra finches. Hormones and Behavior 62(2):1739. http://dx.doi.org/10.1016/j.yhbeh.2012.06.007

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Patrícia C. Lopes, James Adelman, John C. Wingfield, George E. Bentley (2012) Social context modulates sickness behavior. Behavioral Ecology and Sociobiology 66(10) pp 1421-1428.
DOI: 10.1007/s00265-012-1397-1

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Molecular Subtyping of Primary Prostate Cancer Reveals Specific and Shared Target Genes of Different ETS Rearrangements.

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Carneiro P, Fernandes MS, Figueiredo J, Caldeira J, Carvalho J, et al. (2012) E-cadherin dysfunction in gastric cancer--cellular consequences, clinical applications and open questions. FEBS Lett 586: 2981-2989.

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Carneiro P, Fernandes MS, Figueiredo J, Caldeira J, Carvalho J, Pinheiro H, Leite M, Melo S, Oliveira P, Simões-Correia J, Oliveira MJ, Carneiro F, Figueiredo C, Paredes J, Oliveira C, Seruca R. "E-cadherin dysfunction in gastric cancer--cellular consequences, clinical applications and open questions" FEBS Letters (2012) 586(18): 2981-9

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Paredes J, Figueiredo J, Albergaria A, Oliveira P, Carvalho J, Ribeiro AS, Caldeira J, Costa AM, Simões-Correia J, Oliveira MJ, Pinheiro H, Pinho SS, Mateus R, Reis CA, Leite M, Fernandes MS, Schmitt F, Carneiro F, Figueiredo C, Oliveira C, Seruca R. "Epithelial E- and P-cadherins: Role and clinical significance in cancer" (2012), Biochimica et Biophysica Acta 1822(2):297-311

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Oliveira P, Pinho SS, Cabral J, Carvalho S, Huntsman D, Gärtner F, Seruca R, Reis CA, Oliveira C (2012) "Loss and recovery of Mgat3 and GnT-III mediated E-cadherin N-glycosylation is a mechanism involved in Epithelial-Mesenchymal-Epithelial Transitions", PLoS ONE - 7(3)

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Oliveira P, Sanges R, Huntsman D, Stupka E, Oliveira C (2012) "Characterization of the intronic portion of cadherin superfamily members, common cancer orchestrators", European Journal of Human Genetics, Feb 8 (Epub ahead of print)

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Neves AL, Mohammedi K, Emery N, Roussel R, Fumeron F, Marre M, Velho G. Allelic variations in superoxide dismutase-1 (SOD1) gene and renal and cardiovascular morbidity and mortality in type 2 diabetic subjects. Mol Genet Metab. 2012 Jul;106(3):359-65.

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Tendeiro R, Foxall RB, Baptista AP, Pinto F, Soares RS, Cavaleiro R, Valadas E, Gomes P, Victorino RM, Sousa AE. PD-1 and its ligand PD-L1 are progressively up-regulated on CD4 and CD8 T-cells in HIV-2 infection irrespective of the presence of viremia. AIDS. 2012 Jun 1;26(9):1065-71.

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Soudeh Ehsani, José Carlos Santos, Cristina D. Rodrigues, Ricardo Henriques, Laurent Audry, Christophe Zimmer, Philippe Sansonetti, Guy Tran Van Nhieu and Jost Enninga. Hierarchies of Host Factor Dynamics at the Entry Site of Shigella flexneri during Host Cell Invasion. Infect. Immun. 2012;80 2548-2557

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Dobreva MP, Lhoest L., Pereira PNG, Chuva de Sousa Lopes S, Zwijsen A and Umans L. Periostin as a Biomarker of the amniotic membrane. Stem Cells International, 2012

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Influence of HAART on Alternative Reading Frame Immune Responses over the Course of HIV-1 Infection.
Champiat S, Raposo RA, et al., 2012: PLoS ONE 7(6): e39311

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Panseri S, Cunha C, D'Alessandro T, Sandri M, Russo A, Giavaresi G, Marcacci M, Hung CT, Tampieri A. Magnetic hydroxyapatite bone substitutes to enhance tissue regeneration: assessment in vitro using osteoblast-like cells and in vivo in a rabbit critical bone defect. Plos One. 2012 June 7(6): e38710. DOI: 10.1371/journal.pone.0038710

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Drosophila Polo regulates the spindle assembly checkpoint through Mps1-dependent BubR1 phosphorylation.

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Ferreira C, Veldhoen M. Host and microbes date exclusively. Cell 2012 Jun 22: 149 (7): 1428-30.

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Vale PF, Choisy M, Froissart R, Sanjuan R, Gandon S. The distribution of viral mutation fitness effects on different host backgrounds. Evolution. Early View. DOI: 10.1111/j.1558-5646.2012.01691.x

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Kwan KY, Lam MMS, Johnson MB, Dube U, Shim S, Rasin MR, Sousa AMM, Fertuzinhos S, Chen JG, Arellano JI, Chan DW, Pletikos M, Vasung L, Rowitch DH, Huang EJ, Schwartz ML, Willemsen R, Oostra BA, Rakic P, Heffer M, Kostovic I, Judas M, Sestan N (2012) Species-dependent post-transcriptional regulation of NOS1 by FMRP in the developing cerebral cortex. Cell. 2012 May 11;149 (4) :899-911. PMID: 22579290

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Guilherme Costa, Andrzej Mazan, Arnaud Gandillet, Stella Pearson, Georges Lacaud, and Valerie Kouskoff
SOX7 regulates the expression of VE-cadherin in the haemogenic endothelium at the onset of haematopoietic development
Development 2012;139 1587-1598

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Costa G, Kouskoff V, Lacaud G.
Origin of blood cells and HSC production in the embryo.
Trends Immunol. May, 2012 Volume 33, Issue 5

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Ignatius, M.S., Chen, E., Elpek, N.M., Fuller, A.Z., Tenente, I.M., Clagg, R., Liu, S., Blackburn, J.S., Linardic, C.M., Rosenberg, A.E., Nielsen, P.G., Mempel, T.R., Langenau, D.M. (2012) In Vivo Imaging of Tumor-Propagating Cells, Regional Tumor Heterogeneity, and Dynamic Cell Movements in Embryonal Rhabdomyosarcoma. Cancer Cell . 21(5): 680-693

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Cunha C, Panseri S, Sandri M, Marcacci M, Tampieri A. Inspired by nature. Bio-inspired artificial scaffolds and the quest to replicate biology. Editorial uncovered short article. Materials Today. 2012 May;15(5):223.

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van Oosten AL, Costa Y, Smith A, Silva JCR. Jak/Stat3 signalling is sufficient and dominant over antagonistic cues for the establishment of naïve pluripotency. Nature Communications. May 8;3:827 (2012) doi: 10.1038/ncomms1822.

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van Oosten AL, Costa Y, Smith AG, Silva JCR. (2012) Jak/Stat3 signalling is sufficient and dominant over antagonistic cues for the establishment of naïve pluripotency. Nature Communications. 3:817.

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Paredes J, Figueiredo J, Albergaria A, Oliveira P, Carvalho J, et al. (2012) Epithelial E- and P-cadherins: role and clinical significance in cancer. Biochim Biophys Acta 1826: 297-311.

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Quorum-Sensing in CD4(+) T Cell Homeostasis: A Hypothesis and a Model.

Almeida AR, Amado IF, Reynolds J, Berges J, Lythe G, Molina-París C, Freitas AA.

Homeostasis of lymphocyte numbers is believed to be due to competition between cellular populations for a common niche of restricted size, defined by the combination of interactions and trophic factors required for cell survival. Here we propose a new mechanism: homeostasis of lymphocyte numbers could also be achieved by the ability of lymphocytes to perceive the density of their own populations. Such a mechanism would be reminiscent of the primordial quorum-sensing systems used by bacteria, in which some bacteria sense the accumulation of bacterial metabolites secreted by other elements of the population, allowing them to "count" the number of cells present and adapt their growth accordingly. We propose that homeostasis of CD4(+) T cell numbers may occur via a quorum-sensing-like mechanism, where IL-2 is produced by activated CD4(+) T cells and sensed by a population of CD4(+) Treg cells that expresses the high-affinity IL-2Rα-chain and can regulate the number of activated IL-2-producing CD4(+) T cells and the total CD4(+) T cell population. In other words, CD4(+) T cell populations can restrain their growth by monitoring the number of activated cells, thus preventing uncontrolled lymphocyte proliferation during immune responses. We hypothesize that malfunction of this quorum-sensing mechanism may lead to uncontrolled T cell activation and autoimmunity. Finally, we present a mathematical model that describes the key role of IL-2 and quorum-sensing mechanisms in CD4(+) T cell homeostasis during an immune response.

Front Immunol. 2012;3:125. doi: 10.3389/fimmu.2012.00125. Epub 2012 May 25.

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Nat Neurosci. 2012 May;15(5):713-21. doi: 10.1038/nn.3080.
An evolutionary recent neuroepithelial cell adhesion function of huntingtin implicates ADAM10-Ncadherin.
Lo Sardo V1, Zuccato C, Gaudenzi G, Vitali B, Ramos C, Tartari M, Myre MA, Walker JA, Pistocchi A, Conti L, Valenza M, Drung B, Schmidt B, Gusella J, Zeitlin S, Cotelli F, Cattaneo E.

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Induction of strain-transcending antibodies against Group A PfEMP1 surface antigens from virulent malaria parasites.
Ghumra A, Semblat JP, Ataide R, Kifude C, Adams Y, Claessens A, Anong DN, Bull PC, Fennell C, Arman M, Amambua-Ngwa A, Walther M, Conway DJ, Kassambara L, Doumbo OK, Raza A, Rowe JA.

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Romano, E., Cotari, JW.,* Barreira da Silva, R.,* Betts, B., Chung, DJ., Mitsu, FJ., Avogadri, F., Angelo, ES., Mehrara, B., Heller, G., Münz, C., Altan-Bonnet, G. and Young, JW. (2012) “Human Langerhans cells use an IL15Rα/IL15/pSTAT5-dependent mechanism to break T cell tolerance against the self-differentiation tumor antigen, WT1” Blood Epub ahead of print. * Equal contributors

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Resende LP, Jones DL. Local signaling within stem cell niches: insights from Drosophila. Curr Opin Cell Biol. 2012 Apr;24(2):225-31.

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Sá-Pereira I, Brites D and Brito MA (2012). Neurovascular Unit: a Focus on Pericytes. Molecular Neurobiology 45:327–347.

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Garziera M, De Re V, Geremia S, Seruca R, Figueiredo J, et al. (2012) A novel CDH1 germline missense mutation in a sporadic gastric cancer patient in north-east of Italy. Clin Exp Med.

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Ribeiro J.D., Morey L.,Mas A., Gutierrez A.,Luis N.M., Mejetta S., Richly H., Benitah S.A., Keyes W.M., Di Croce L. ZRF1 controls oncogene-induced senescence through the INK4-ARF locus. Oncogene In press

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A case-control study on the diagnostic potential of multi-antigen serological tests for tuberculosis
R. Duarte, A. Afonso, C. Ferreira, S. Roque, O. Vasconcelos, R. Sarmento-Castro, M. Tavares, C. Caldas, R. Greenwald, K. Lyashchenko, M. Correia-Neves, C. Nobrega
Archives of Clinical Microbiology, 2012, 3(2): 1-5
doi: 10.3823/249

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Oliveira-Maia AJ, de Araujo IE, Monteiro C, Workman V, Galhardo V and Nicolelis MAL. The insular cortex controls food preferences independently of taste receptor signaling. Front. Syst. Neurosci. 2012 6:5. doi: 10.3389/fnsys.2012.00005

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Pinheiro H, Carvalho J, Oliveira P, Ferreira D, Pinto MT, Osório H, Licastro D, Bordeira-Carriço R, Jordan P, Lazarevic D, Sanges R, Stupka E, Huntsman D, Seruca R, Oliveira C. "Transcription initiation arising from E-cadherin/CDH1 intron2: a novel protein isoform that increases gastric cancer cell invasion and angiogenesis" Human Molecular Genetics (2012) 21: 4253-69

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Pteridium aquilinum and its ptaquiloside toxin induce DNA damage response in gastric epithelial cells, a link with gastric carcinogenesis.

Gomes J, Magalhães A, Michel V, Amado IF, Aranha P, Ovesen RG, Hansen HC, Gärtner F, Reis CA, Touati E.

The multifactorial origin of gastric cancer encompasses environmental factors mainly associated with diet. Pteridium aquilinum-bracken fern-is the only higher plant known to cause cancer in animals. Its carcinogenic toxin, ptaquiloside, has been identified in milk of cows and groundwater. Humans can be directly exposed by consumption of the plant, contaminated water or milk, and spore inhalation. Epidemiological studies have shown an association between bracken exposure and gastric cancer. In the present work, the genotoxicity of P. aquilinum and ptaquiloside, including DNA damaging effects and DNA damage response, was characterized in human gastric epithelial cells and in a mouse model. In vitro, the highest doses of P. aquilinum extracts (40 mg/ml) and ptaquiloside (60 μg/ml) decreased cell viability and induced apoptosis. γH2AX and P53-binding protein 1 analysis indicated induction of DNA strand breaks in treated cells. P53 level also increased after exposure, associated with ATR-Chk1 signaling pathway activation. The involvement of ptaquiloside in the DNA damage activity of P. aquilinum was confirmed by deregulation of the expression of a panel of genes related to DNA damage signaling pathways and DNA repair, in response to purified ptaquiloside. Oral administration of P. aquilinum extracts to mice increased gastric cell proliferation and led to frameshift events in intron 2 of the P53 gene. Our data demonstrate the direct DNA damaging and mutagenic effects of P. aquilinum. These results are in agreement with the carcinogenic properties attributed to this fern and its ptaquiloside toxin and support their role in promoting gastric carcinogenesis.

Toxicol Sci. 2012 Mar;126(1):60-71. doi: 10.1093/toxsci/kfr329. Epub 2011 Dec 5.

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Moya IM, Umans L, Maas E, Pereira PNG, Beets K, Francis A, Sents W, Robertson EJ, Mummery CL, Huylebroeck D and Zwijsen A. Stalk Cell Phenotype Depends on Integration of Notch and Smad1/5 Signaling Cascades. Developmental Cell, 2012 Feb 21.

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González, R., Ataíde, R., Naniche, D., Menéndez, C. & Mayor, A. HIV and malaria interactions: where do we stand? Expert Review of Anti-infective Therapy 10, 153-165 (2012).

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Cell Tissue Res. 2012 Feb 10. [Epub ahead of print]
New perspectives of tissue remodelling with neural stem and progenitor cell-based therapies.
Cossetti C, Alfaro-Cervello C, Donegà M, Tyzack G, Pluchino S.

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Tavares, L., Dimitrova, E., Oxley, D., Webster, J., Poot, R., Demmers, J., Bezstarosti, K., Taylor, S., Ura, H., Koide, H., et al. (2012). RYBP-PRC1 Complexes Mediate H2A Ubiquitylation at Polycomb Target Sites Independently of PRC2 and H3K27me3. Cell 148, 664-678.

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Correia AL and Bissell MJ. (2012). The tumor microenvironment is a dominant force in multidrug resistance. Drug Resist Updat, 15: 39‐49.

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Simoes-Correia J, Figueiredo J, Lopes R, Stricher F, Oliveira C, et al. (2012) E-cadherin destabilization accounts for the pathogenicity of missense mutations in hereditary diffuse gastric cancer. PLoS One 7: e33783.

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Bradic M, Beerli P, García-de León FJ, Esquivel-Bobadilla S, Borowsky RL.
Gene flow and population structure in the Mexican blind cavefish complex (Astyanax mexicanus). BMC Evol Biol. 2012 Jan 23;12:9. doi: 10.1186/1471-2148-12-9.

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C. Grimaldi, F. Chiarini, G. Tabellini, F. Ricci, P.L. Tazzari, M. Battistelli, E. Falcieri, R. Bortul, F. Melchionda, I. Iacobucci, P. Pagliaro, G. Martinelli, A. Pession, J.T. Barata, J.A. McCubrey and A.M. Martelli (2012). AMP-Dependent Kinase/Mammalian Target of Rapamycin Complex 1 Signaling in T-Cell Acute Lymphoblastic Leukemia: Therapeutic Implications. Leukemia 26 (1): 91-100.

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Seidel UJ, Oliveira CC, Lampen MH, Hall T. A novel category of antigens enabling CTL immunity to tumor escape variants: Cinderella antigens. Cancer Immunology, Immunotherapy 2012, 61(1): 119-125.

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Cardoso-Moreira M. and Long M. The origin and evolution of new genes. Evolutionary genomics: statistical and computational methods. Methods Mol Biol. (2012)

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Beltrao P, Albanèse V, Kenner LR, Swaney DL, Burlingame AL, Villén J, Lim WA, Fraser JS, Frydman J, Krogan NJ Systematic Functional Prioritization of Protein Post-translational Modifications 2012 Cell 150 (2), 413-425

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Xanthohumol-supplemented beer modulates angiogenesis and inflammation in a skin wound healing model. Involvement of local adipocytes. Negrão R, Costa R, Duarte D, Gomes TT, Coelho P, Guimarães JT, Guardão L, Azevedo I, Soares R. J Cell Biochem. 2012 Jan;113(1):100-9.

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Napoli I, Noon LA, Ribeiro S, Kerai AP, Parrinello S, Rosenberg LH, Collins MJ, Harrisingh MC, White I, Woodhoo A, Lloyd AC. A central role for the ERK-signalling pathway in controlling Schwann cell plasticity and peripheral nerve regeneration in vivo. Neuron 2011. in press

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Pena AC, Penacho N, Mancio-Silva L, Neres R, Seixas JD, Fernandes AC, Romão CC, Mota MM, Bernardes GJ, Pamplona A.
A novel Carbon Monoxide-Releasing Molecule (CO-RM) fully protects mice from Severe Malaria.
Antimicrob Agents Chemother. 2011 Dec 12.

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Fellous S, Duncan A, Quillery E, Vale PF & Kaltz O. (2012) Genetic influence on disease spread following arrival of infected carriers. Ecology Letters. 15:186–192

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Crystallographic Analysis of Polypyrimidine Tract-Binding Protein-Raver1 Interactions Involved in Regulation of Alternative Splicing

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Nilotinib and MEK inhibitors induce synthetic lethality through paradoxical activation of RAF in drug-resistant chronic myeloid leukemia.
Cancer Cell
Packer LM, Rana S, Hayward R, O'Hare T, Eide CA, Rebocho A, Heidorn S, Zabriskie MS, Niculescu-Duvaz I, Druker BJ, Springer C, Marais R.

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Lusti-Narasimhan M, Ndowa F, Pires SS. (2011) Importance of sexually transmitted infections in funding for HIV within proposals to the Global Fund. STIs; 87 S 2:ii19-22. doi: 10.1136/sextrans-2011-050183

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Theunissen, TW, Costa, Y., Radzhisheuskaya, A., van Oosten, A.L., Lavial, F., Pain, B., Castro, LFC, Silva JCR. Reprogramming capacity of Nanog is functionally conserved in vertebrates and resides in a unique homeodomain. Development. 2011 Nov;138(22):4853-65.

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Barreira da Silva, R. and Münz, C. (2011) Natural killer cell activation by dendritic cells: balancing inhibitory and activating signals, Cell Mol Life Sci. 68(21):3505-18

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REVIEW: Conidi A, Cazzola S, Beets K, Coddens K, Collart C, Cornelis F, Cox L, Joke D, Dobreva MP, Dries R, Esguerra C, Francis A, Ibrahimi A, Kroes R, Lesage F, Maas E, Moya I, Pereira PNG, Stappers E, Stryjewska A, van den Berghe V, Vermeire L, Verstappen G, Seuntjens E, Umans L, Zwijsen A, Huylebroeck D. Few Smad proteins and many Smad-interacting proteins yield multiple functions and action modes in TGFβ/BMP signaling in vivo. Cytokine Growth Factor, 2011 Nov 25.

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Book Chapter

Sofia Corte-Real, Frederico Aires da Silva and Joao Goncalves.
Chapter16- Development of Antibody Fragments for Therapeutic Applications
Castanho, M. / Santos, N. (eds.)
Peptide Drug Discovery and Development
Translational Research in Academia and Industry
Wiley-VCH Verlag GmbH & Co. KG (2011)

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Theunissen TW, Costa Y, Radzisheuskaya A, van Oosten AL, Lavial F, Pain B, Castro LF, Silva JC. (2011). Reprogramming capacity of Nanog is functionally conserved in vertebrates and resides in a unique homeodomain. Development. 138(22):4853-65.

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Caldeira J, Simoes-Correia J, Paredes J, Pinto MT, Sousa S, et al. (2012) CPEB1, a novel gene silenced in gastric cancer: a Drosophila approach. Gut 61: 1115-1123.

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Sanghera N, Correia BE, Correia JR, Ludwig C, Agarwal S, et al. (2011) Deciphering the molecular details for the binding of the prion protein to main ganglioside GM1 of neuronal membranes. Chem Biol 18: 1422-1431.

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Swarup VP, Huang Y, Murillo G, Saleiro D, Mehta RG, Bishnoi SW. Modeling the cellular impact of nanoshell-based biosensors using mouse alveolar macrophage cultures. Metallomics. 2011 Nov;3(11):1218-26. doi: 10.1039/c1mt00089f.

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Oliveira CC, Querido B, Sluijter M, Derbinski J, van der Burg SH, van Hall T. Peptide transporter TAP mediates between competing antigen sources generating distinct surface MHC class I peptide repertoires. European Journal of Immunology 2011, 41(11): 3114-3124.

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Cardoso-Moreira M., Emerson J.J., Clark A.G. and Long M. Drosophila duplication hotspots are associated with late-replicating regions of the genome. PLoS Genetics. 7:e1002340 (2011)

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Kang HJ*, Kawasawa YI*, Cheng F*, Zhu Y*, Xu X*, Li M*, Sousa AMM, Pletikos M, Meyer KA, Sedmak G, Guennel T, Shin Y, Johnson MB, Krsnik Z, Mayer S, Fertuzinhos S, Umlauf S, Lisgo SN, Vortmeyer A, Weinberger DR, Mane S, Hyde TM, Huttner A, Reimers M, Kleinman JE, Sestan N (2011) Spatio-temporal transcriptome of the human brain. Nature. 2011 Oct 26;478 (7370) :483-9. Epub 2011 Oct 26. PMID: 22031440
* Equal contribution

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Talman AM, Lacroix C, Marques SR, Blagborough AM, Carzaniga R, Ménard R, Sinden RE.
PbGEST mediates malaria transmission to both mosquito and vertebrate host.
Mol Microbiol. 2011 Oct;82(2):462-74.

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Pereira MJ, Carvalho IF, Karp JM, Ferreira LS.Sensing the cardiac environment: exploiting cues for regeneration. J Cardiovasc Transl Res. 2011 Oct;4(5):616-30. Epub 2011 Jul 7.

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Foxall RB, Albuquerque AS, Soares RS, Baptista AP, Cavaleiro R, Tendeiro R, Gomes P, Victorino RM, Sousa AE. Memory and naive-like regulatory CD4+ T cells expand during HIV-2 infection in direct association with CD4+ T-cell depletion irrespectively of viremia. AIDS. 2011 Oct 23;25(16):1961-70.

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Yuki Takada*, Chie Naruse*, Yael Costa*, Takayuki Shirakawa, Makoto Tachibana, Jafar Sharif, Fuyuko Kezuka-Shiotani, Dai Kakiuchi, Hiroshi Masumoto, Yo-ichi Shinkai, Kazuyuki Ohbo, Antoine H. F. M. Peters, James M. A. Turner, Masahide Asano, Haruhiko Koseki1. (2011). HP1γ links histone methylation marks to meiotic synapsis in mice. Development. 138(19):4207-17. (*co-authorship)

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Takeo, S., Lake, C.M., Morais-de-Sá, E., Sunkel, C.E., and Hawley, R.S. (2011). Synaptonemal complex-dependent centromeric clustering and the initiation of synapsis in Drosophila oocytes. Curr Biol 21, 1845-1851.

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Ana B. Fernandes, Rita S. Patarrão, Paula A. Videira and M. Paula Macedo, Understanding postprandial glucose clearance by peripheral organs: the role of the hepatic parasympathetic system. J Neuroendocrinol, 23(12): 1288-1295 (2011)

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Barreira da Silva, R., Graf, C. and Münz, C. (2011) Cytoskeletal stabilization of inhibitory interactions in immunological synapses of mature human dendritic with natural killer cells, Blood, 118(25):6487-98 Epub 2011 Sep 13.

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Panseri S, Russo A, Cunha C, Bondi A, Di Martino A, Patella S, Kon E. Osteochondral tissue engineering approaches for articular cartilage and subchondral bone regeneration. Knee Surgery, Sports Traumatology, Arthroscopy. 2011 September. DOI: 10.1007/s00167-011-1655-1

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Oliveira-Maia AJ, Roberts CD, Walker QD, Luo B, Kuhn C, et al. Intravascular Food Reward. PLoS ONE 2011 6(9): e24992. doi:10.1371/journal.pone.0024992

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RNA Homeostasis Governed by Cell Type-Specific and Branched Feedback Loops Acting on NMD. Huang L, Lou CH, Chan W, Shum EY, Shao A, Stone E, Karam R, Song HW, Wilkinson MF. Mol Cell. 2011 Sep 16;43(6):950-61

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Bradic, M., Costa J. and Chelo I. (2011). Genotyping with Sequenom. (Book chapter) Methods Mol Biol. 2011;772:193-210. doi: 10.1007/978-1-61779-228-1_11.

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Pereira PNG, Dobreva MP, Graham L, Huylebroeck D, Lawson K and Zwijsen A. Amnion formation in the mouse embryo: The single amniochorionic fold model. BMC Developmental Biology, 2011 Aug 1;11:48

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A.M. Lindo, et al., "Tunable kinetic proofreading in a model with molecular frustration", Theory in Biosciences, 2011

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Maia & Maiato, Aurora Mitochondrialis drives fission during mitosis, Dev Cell (2011).

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P.P. Zenatti, D. Ribeiro, W. Li, L. Zuurbier, M.C. Silva, M. Paganin, J. Tritapoe, J.A. Hixon, A.B. Silveira, B.A. Cardoso, L.M. Sarmento, N. Correia, M.L. Toribio, J. Kobarg, M. Horstmann, R. Pieters, S.R. Brandalise, A.A. Ferrando, J.P. Meijerink, S.K. Durum, J.A. Yunes, J.T. Barata (2011). Oncogenic IL7R gain-of-function mutations in childhood T-cell acute lymphoblastic leukemia. Nature Genetics 43 (10): 932-939.

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Teixeira CM, Martín ED, Sahún I, Masachs N, Pujadas L, Corvelo A, Bosch C,Rossi D, Martinez A, Maldonado R, Dierssen M, Soriano E. Overexpression of Reelin Prevents the Manifestation of Behavioral Phenotypes Related to Schizophrenia and Bipolar Disorder. Neuropsychopharmacology. 2011 Aug 3. 10.1038/npp.2011.153.

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Sonawane, A., Santos, J. C., Mishra, B. B., Jena, P., Progida, C., Sorensen, O. E., Gallo, R., Appelberg, R. and Griffiths, G. (2011), Cathelicidin is involved in the intracellular killing of mycobacteria in macrophages. Cellular Microbiology, 13: 1601–1617.

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Kluijt I, Siemerink EJ, Ausems MG, van Os TA, de Jong D, et al. (2012) CDH1-related hereditary diffuse gastric cancer syndrome: clinical variations and implications for counseling. Int J Cancer 131: 367-376.

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Could platelet-accumulating polyphenols prevent tumour metastasis? Negrão R, Duarte D, Costa R, Soares R. Nat Rev Cancer. 2011 Aug 24; 11(9):685 (letter to the Editor).

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Pinho AV, Rooman I, Reichert M, De Medts N, Bouwens L, Rustgi AK, Real FX. Adult pancreatic acinar cells dedifferentiate to an embryonic progenitor phenotype with concomitant activation of a senescence programme that is present in chronic pancreatitis. Gut. 2011 Jul;60(7):958-66.

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Protein Kinase C and NF-kB-Dependent CD4 Downregulation in Macrophages Induced by T Cell-Derived Soluble Factors: Consequences for HIV-1 Infection.
Raposo RA et al., 2011: J Immunol 187(2): 748-59

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Theunissen TW, Silva JC. Switching on pluripotency: a perspective on the biological requirement of Nanog. Philos Trans R Soc Lond B Biol Sci. 2011 Aug 12;366(1575):2222-9.

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Antibodies That Induce Phagocytosis of Malaria Infected Erythrocytes: Effect of HIV Infection and Correlation with Clinical Outcomes
Ricardo Ataíde1,2*, Victor Mwapasa3,4, Malcolm E. Molyneux3,5, Steven R. Meshnick6, Stephen J. Rogerson1

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AP Silva, et al. Transcriptional profiling of azole-resistant Candida parapsilosis strains. Antimicrob. Agents Chemother. 55(7): 3546-56. Epub 2011 Apr 25.

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Simboeck, E. Ribeiro, J. D., Teichmann, S., and Di Croce, L. (2011). Epigenetics and senescence: Learning from the INK4-ARF locus. Biochem Pharmacol. 82(10):1361-70

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New insight puts CRAF in sight as a therapeutic target.
Cancer Discovery
Rebocho AP, Marais R.

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de Almeida SF, Grosso AR, Koch F, Fenouil R, Carvalho S, et al. “Splicing enhances recruitment of methyltransferase HYPB/Setd2 and methylation of histone H3 lysine 36” Nature Structural &
Molecular Biology

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Pinto PAB, Henriques T, Freitas MO, Martins T, Domingues RG, Wyrzykowska PS, Coelho PA, Carmo AM, Sunkel CE, Proudfoot NJ, Moreira A (2011) RNA polymerase II kinetics in polo polyadenylation signal selection. EMBO J. in press.

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Bruno, I.*, Karam, R.*, Huang, L., Bhardwaj, A., Lou, C., Shum, E.Y., Gifford W.D., Pfaff, S.L., Wilkinson, M.F. Identification of a microRNA that activates gene expression by repressing nonsense-mediated RNA decay. Mol Cell. 2011 May 20;42(4):500-10.
*co-first authors

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An shRNA-based screen of splicing regulators identifies SFRS3 as a negative regulator of IL-1β secretion.

Moura-Alves P, Neves-Costa A, Raquel H, Pacheco TR, D'Almeida B, Rodrigues R, Cadima-Couto I, Chora Â, Oliveira M, Gama-Carvalho M, Hacohen N, Moita LF.

Instituto de Medicina Molecular, Faculdade de Medicina, Universidade de Lisboa, Lisboa, Portugal.

Abstract

The generation of diversity and plasticity of transcriptional programs are key components of effective vertebrate immune responses. The role of Alternative Splicing has been recognized, but it is underappreciated and poorly understood as a critical mechanism for the regulation and fine-tuning of physiological immune responses. Here we report the generation of loss-of-function phenotypes for a large collection of genes known or predicted to be involved in the splicing reaction and the identification of 19 novel regulators of IL-1β secretion in response to E. coli challenge of THP-1 cells. Twelve of these genes are required for IL-1β secretion, while seven are negative regulators of this process. Silencing of SFRS3 increased IL-1β secretion due to elevation of IL-1β and caspase-1 mRNA in addition to active caspase-1 levels. This study points to the relevance of splicing in the regulation of auto-inflammatory diseases.

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A. Silva, A.B.A. Laranjeira, L.R. Martins, B.A. Cardoso, J. Demengeot, J.A. Yunes, B. Seddon, J.T. Barata (2011). IL-7 contributes to the progression of human T-cell acute lymphoblastic leukemias. Cancer Research 71 (14): 4780-4789.

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Proteomic-Based Identification of CD4-Interacting Proteins in Human Primary Macrophages
Raposo RA et al., 2011: PLoS ONE 6(4): e18690

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Costa F, Carvalho IF, Montelaro RC, Gomes P, Martins MC.Covalent immobilization of antimicrobial peptides (AMPs) onto biomaterial surfaces.Acta Biomater. 2011 Apr;7(4):1431-40. Epub 2010 Nov 5.

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A Moleirinho, et al. (2011). Gains, losses and changes of function after gene duplication: study of the metallothionein family. PLoS ONE 6(4): e18487.

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Ribas R, Moncaut N, Siligan C, Taylor K, Cross JW, Rigby PW, Carvajal JJ. (2011). "Members of the TEAD family of transcription factors regulate the expression of Myf5 in ventral somitic compartments." Dev Biol. 2011 Apr 17. [Epub ahead of print]

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Pinho AV, Rooman I, Real FX. p53-dependent regulation of growth, epithelial-mesenchymal transition and stemness in normal pancreatic epithelial cells.Cell Cycle. 2011 Apr 15;10(8):1312-21.

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Dunbier AK, Anderson H, Ghazoui Z, Lopez-Knowles E, Pancholi S, Ribas R, Drury S, Sidhu K, Leary A, Martin LA, Dowsett M. (2011). ESR1 is co-expressed with closely adjacent uncharacterised genes spanning a breast cancer susceptibility locus at 6q25.1.PLoS Genet. 2011 Apr;7(4):e1001382.

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Neves AL, Villanueva T. French boost European telemedicine. CMAJ. 2011 Apr 19;183(7):E387-8.

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Inhibition of topoisomerase Iiα: novel function of wedelolactone

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Vale PF, Wilson AJ, Best A, Boots M, Little TJ (2011) Epidemiological, evolutionary, and coevolutionary implications of context-dependent parasitism. The American Naturalist. 177:510-521

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Polycomblike 2 facilitates the recruitment of PRC2 Polycomb group complexes to the inactive X chromosome and to target loci in embryonic stem cells

Miguel Casanova, Tanja Preissner, Andrea Cerase, Raymond Poot, Daisuke Yamada, Xiangzhi Li, Ruth Appanah, Karel Bezstarosti, Jeroen Demmers, Haruhiko Koseki and Neil Brockdorff

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Cunha C, Panseri S, Villa O, Silva D, Gelain F. 3D culture of adult mouse neural stem cells within different functionalized self-assembling peptide scaffolds. International Journal of Nanomedicine. In press.

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Compartmentalized Notch signaling sustains epithelial mirror symmetry.

Wibowo I*, Pinto-Teixeira F*, Satou C, Higashijima S, López-Schier H.
* equal contribution
Development. 2011 Mar;138(6):1143-52.

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Vicoso, B. and Bachtrog, B. Lack of global dosage compensation in Schistosoma mansoni, a female-heterogametic parasite. Genome Biol Evol (2011) doi: 10.1093/gbe/evr010

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Román AC, González-Rico FJ, Moltó E, Hernando H, Neto A, Vicente-Garcia C, Ballestar E, Gómez-Skarmeta JL, Vavrova-Anderson J, White RJ, Montoliu L, Fernández-Salguero PM.Dioxin receptor and SLUG transcription factors regulate the insulator activity of B1 SINE retrotransposons via an RNA polymerase switch. Genome Research (2011)

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S Costa-de-Oliveira et al. (2011). FKS2 Mutations Associated with Decreased Echinocandin Susceptibility of Candida glabrata following Anidulafungin Therapy. Antimicrobial Agents and Chemotherapy 55(3):1312-4. Epub 2010 Dec 13.

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A precursor microRNA in a cancer cell nucleus: Get me out of here! Cell Cycle
Melo SA, Esteller M.

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Interplay between depressive-like behavior and the immune system in an animal model of prenatal dexamethasone administration
S. Roque, T. Gil Oliveira, C. Nobrega, P. Barreira-Silva, C. Nunes-Alves, N. Sousa, J. Almeida Palha, M. Correia-Neves
Frontiers in Behavioral Neurosciences, 2011, 5: 4
doi: 10.3389/fnbeh.2011.00004

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Molina MD, Neto A, Maeso I, Gómez-Skarmeta JL, Saló E, Cebrià F.,Noggin and Noggin-Like Genes Control Dorsoventral Axis Regeneration in Planarians, Current Biology (2011)

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Small molecule enoxacin is a cancer-specific growth inhibitor that acts by enhancing TAR RNA-binding protein 2-mediated microRNA processing. PNAS
Sonia Melo, Alberto Villanueva, Catia Moutinho, Veronica Davalos, Riccardo Spizzo, Cristina Ivan, Simona Rossi, Fernando Setien, Oriol Casanovas, Laia Simo-Riudalbas, Javier Carmona, Jordi Carrere, August Vidale, Alvaro Aytes, Sara Puertas, Santiago Ropero, Raghu Kallurig, Carlo M. Croce, George A. Calin, and Manel Esteller

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Lünemann A, Tackenberg B, DeAngelis T, da Silva RB, Messmer B, Vanoaica LD, Miller A, Apatoff B, Lublin FD, Lünemann JD and Münz C. (2011) Impaired IFN-γ production and proliferation of NK cells in multiple sclerosis. Int Immunol. 23(2):139-48.

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Neurobiol Dis. 2011 Feb;41(2):508-27. Epub 2010 Nov 5.
Reactive astrocytes and Wnt/β-catenin signaling link nigrostriatal injury to repair in 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine model of Parkinson's disease.
L'Episcopo F, Tirolo C, Testa N, Caniglia S, Morale MC, Cossetti C, D'Adamo P, Zardini E, Andreoni L, Ihekwaba AE, Serra PA, Franciotta D, Martino G, Pluchino S, Marchetti B.

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Maria Teixeira-Coelho, Andrea Cruz, Jenny Carmona , Carole Sousa , Daniela R. Pereira, Ana Saraiva, Mark Veldhoen, Jorge Pedrosa, António Castro, Margarida Saraiva. TLR2 deficiency by compromising p19 (IL-23) expression limits Th17 cell responses to Mycobacterium tuberculosis. Int Immunol. 2011 Feb;23(2):89-96.

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Hindley JP, Ferreira C, Jones E, Lauder SN, Ladell K, Wynn KK, Betts GJ, Singh Y, Price DA, Godkin AJ, Dyson J, Gallimore A. Analysis of the T cell receptor repertoires of tumor-infiltrating conventional and regulatory T cells reveals no evidence for conversion in carcinogen-induced tumors. Cancer Res. 2011 Feb 1; 71(3):736-46

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M Sárria, M.M.Santos, M.A. Reis-Henriques , M.N.Vieira & N.M. Monteiro, (In Press). The Unpredictable Effects of Mixtures of Androgenic and Estrogenic Chemicals on Fish Early Life. Environment International.

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Mammalian polycomb-like Pcl2/Mtf2 is a novel regulatory component of PRC2 that can differentially modulate polycomb activity both at the Hox gene cluster and at Cdkn2a genes.

Xiangzhi Li,1 Kyo-ichi Isono, Daisuke Yamada, Takaho A. Endo, Mitsuhiro Endoh, Jun Shinga, Yoko Mizutani-Koseki, Arie P. Otte, Miguel Casanova, Hiroshi Kitamura, Takehiko Kamijo, Jafar Sharif, Osamu Ohara, Tetsuro Toyada, Bradley E. Bernstein, Neil Brockdorff, and Haruhiko Koseki

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Gelain F, Panseri S, Antonini S, Cunha C, Donega M, Lowery J, Taraballi F, Cerri G, Montagna M, Baldissera F, Vescovi A. Transplantation of Nanostructured Composite Scaffolds Results in the Regeneration of Chronically Injured Spinal Cords. ACS Nano. 2011 Jan 25;5(1):227-36. doi: 10.1021/nn102461w

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“Immunisation with recombinant PfEMP1 domains elicits functional rosette-inhibiting and phagocytosis-inducing antibodies to Plasmodium falciparum.” Ashfaq Ghumra;Pongsak Khunrae;Ricardo Ataide;Ahmed Raza;Stephen J Rogerson;Matthew K Higgins;Alex Rowe, PloS ONE. 2010

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Nichols RJ, Sen S, Choo YJ, Beltrao P, Zietek M, Chaba R, Lee S, Kazmierczak K, Lee K, Wong A, Shales M, Lovett S, Winkler M, Krogan NJ, Typas A, Gross CA “Phenotypic Landscape of a Bacterial Cell” Cell, 2011 Jan 7;144(1):143-56

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Paiva F, Duarte-Pereira S, Carvalho JR, Costa VL, Patrício P, Ribeiro FR, Lobo F, Jerónimo C, Henrique R. Functional and epigenetic characterization of KRT19 GENE in renal neoplasms. DNA Cell Biol 30(2):85-90, 2011.

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Theunissen TW, van Oosten AL, Castelo-Branco G, Hall J, Smith A, Silva JC. Nanog overcomes reprogramming barriers and induces pluripotency in minimal conditions. Curr Biol. 2011 Jan 11;21(1):65-71. Epub 2010 Dec 30.

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Pedroso DC, Tellechea A, Moura L, Fidalgo-Carvalho I, Duarte J, Carvalho E, Ferreira L. Improved survival, vascular differentiation and wound healing potential of stem cells co-cultured with endothelial cells.PLoS One. 2011 Jan 24;6(1):e16114.

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Alexandra G. Fraga, Andrea Cruz, Teresa G. Martins, Egidio Torrado, Margarida Saraiva, Daniela R. Pereira, Wayne Meyers, Françoise Portaels F, Manuel T. Silva, António G. Castro. Jorge Pedrosa. Mycobacterium ulcerans triggers T-cell immunity followed by local and regional but not systemic immunosuppression. Infect Immun. 2011 Jan;79(1):421-30

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Figueiredo J, Simoes-Correia J, Soderberg O, Suriano G, Seruca R (2011) ADP-ribosylation factor 6 mediates E-cadherin recovery by chemical chaperones. PLoS One 6: e23188.

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Functional and structural characterization of a novel
mannosyl-3- phosphoglycerate synthase from Rubrobacter xylanophilus reveals its dual substrate specificity

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CD4+ CD25+ Treg regulate the contribution of CD8+ T-cell subsets in repopulation of the lymphopenic environment.

Almeida AR, Ciernik IF, Sallusto F, Lanzavecchia A.

Eur J Immunol. 2010 Dec;40(12):3478-88. doi: 10.1002/eji.201040600. Epub 2010 Nov 11.

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Kapitzky L, Beltrao P, Berens TJ, Gassner N, Zhou C, Wüster A, Wu J, Babu M,Elledge SJ,Toczyski D,Lokey RS, Krogan NJ “Cross-species chemogenomic profiling reveals evolutionarily conserved drug mode of action” Mol Syst Biol., 2010 Dec 21;6:451

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Costa VL, Henrique R, Danielsen SA, Duarte-Pereira S, Eknaes M, Skotheim RI, Rodrigues A, Magalhães JS, Oliveira J, Lothe RA, Teixeira MR, Jeronimo C*, Lind GE*.Three epigenetic biomarkers, GDF15, TMEFF2 and VIM, accurately predict bladder cancer from DNA-based analyses of urine samples. Clin Cancer Res 16(23):5842-51, 2010. (*should be regarded as joint senior authors).

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Richly, H., Rocha-Viegas, L., Ribeiro, J. D., Demajo, S., Gundem, G., Lopez- Bigas, N., Nakagawa, T., Rospert, S., Ito, T., and Di Croce, L. (2010). Transcriptional activation of polycomb-repressed genes by ZRF1. Nature 468, 1124-1128.

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Angiogenesis and inflammation signalling are targets of beer polyphenols on vascular cells. Negrão R, Costa R, Duarte D, Taveira Gomes T, Mendanha M, Moura L, Vasques L, Azevedo I, Soares R. J Cell Biochem. 2010 Dec 1;111(5):1270-9.

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Corvelo A, Hallegger M, Smith CW, Eyras E. Genome-wide association between branch point properties and alternative splicing. PLoS Comput Biol. 2010 Nov 24;6(11):e1001016.

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Carvalho P, Stanley AM, Rapoport TA.
Retro-translocation of a misfolded luminal ER protein by the ubiquitin-ligase Hrd1p. Cell; 2010: 143 (4) 579-591

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PLoS One. 2010 Nov 24;5(11):e15515.
Two Notch ligands, Dll1 and Jag1, are differently restricted in their range of action to control neurogenesis in the mammalian spinal cord.
Ramos C, Rocha S, Gaspar C, Henrique D.
Faculdade de Medicina de Lisboa, Instituto de Medicina Molecular, Lisboa, Portugal.

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van Hall T, Oliveira CC, Joosten SA, Ottenhoff TH. The other Janus face of Qa-1 and HLA-E: diverse peptide repertoires in times of stress. Microbes and Infection 2010, 12(12-13): 910-918.

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A Strand-Specific Burst in Transcription of Pericentric Satellites Is Required for Chromocenter Formation and Early Mouse Development

Aline.V. Probst, Ikuhiro Okamoto, Miguel Casanova, Fatima El Marjou, Patricia Le Baccon, Geneviève Almouzni

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Parrinello S, Napoli I, Ribeiro S, Digby PW, Fedorova M, Parkinson DB, Doddrell RD, Nakayama M, Adams RH, Lloyd AC. EphB signaling directs peripheral nerve regeneration through Sox2-dependent Schwann cell sorting. Cell 2010 Oct 1;143(1):145-55

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Vieira J, Henrique R, Ribeiro FR, Barros-Silva JD, Peixoto A, Santos C, Pinheiro M, Costa VL, Soares MJ, Oliveira J, Jerónimo C, Teixeira MR. Feasibility of differential diagnosis of kidney tumors by comparative genomic hybridization of fine needle aspiration biopsies. Genes Chromosomes Cancer 49(10):935-47, 2010.

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A Genetic Defect in Exportin-5 Traps Precursor MicroRNAs in the Nucleus of Cancer Cells. Cancer Cell
Sonia A. Melo, Catia Moutinho, Santiago Ropero, George A. Calin, Simona Rossi, Riccardo Spizzo, Agustin F. Fernandez, Veronica Davalos, Alberto Villanueva, Guillermo Montoya, Hiroyuki Yamamoto, Simo Schwartz and Manel Esteller

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Silva, N., Radhouani, H., Goncalves, A., Araujo, C., Rodrigues, J., Igrejas, G. & Poeta, P. In vitro activity of ceftobiprole against Gram-positive and Gram-negative bacteria isolated from humans and animals. J Antimicrob Chemother 65, 801-803.

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Silva, N., Felgar, A., Goncalves, A., Correia, S., Pacheco, R., Araujo, C., Igrejas, G. & Poeta, P. Absence of extended-spectrum-beta-lactamase-producing Escherichia coli isolates in migratory birds: song thrush (Turdus philomelos). J Antimicrob Chemother 65, 1306-1307.

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Goncalves, A., Torres, C., Silva, N. & other authors Genetic Characterization of Extended-Spectrum Beta-Lactamases in Escherichia coli Isolates of Pigs from a Portuguese Intensive Swine Farm. Foodborne Pathog Dis.

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Araujo, C., Torres, C., Silva, N. & other authors Vancomycin-resistant enterococci from Portuguese wastewater treatment plants. J Basic Microbiol.

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Goncalves, A., Poeta, P., Silva, N. & other authors Characterization of vancomycin-resistant enterococci isolated from fecal samples of ostriches by molecular methods. Foodborne Pathog Dis 7, 1133-1136.

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Silva, N., Igrejas, G., Figueiredo, N., Goncalves, A., Radhouani, H., Rodrigues, J. & Poeta, P. Molecular characterization of antimicrobial resistance in enterococci and Escherichia coli isolates from European wild rabbit (Oryctolagus cuniculus). Sci Total Environ 408, 4871-4876.

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Igrejas, G., Silva, N., Radhouani, H., Goncalves, A., Araujo, C., Rodrigues, J. & Poeta, P. Antimicrobial activity of doripenem against bacterial isolates from humans and animals. J Antibiot (Tokyo).

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Saleiro D, Murillo G, Lubahn DB, Kopelovich L, Korach KS, Mehta RG. Enhanced induction of mucin-depleted foci in estrogen receptor {beta} knockout mice. Cancer Prev Res (Phila). 2010;3:1198-204.

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Labbé P, Vale PF, Little TJ. (2010) Successfully resisting a pathogen is rarely costly in Daphnia magna. BMC Evolutionary Biology 10:355

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Functional Convergence of Developmentally- and Adult-Generated Granule Cells in Dentate Gyrus Circuits Supporting Hippocampus-Dependent Memory. Stone SSD*, Teixeira CM*, Zaslavsky K, Wheeler AL, Martinez-Canabal A, Wang AH, Sakaguchi M, Lozano AM and Frankland PW. Hippocampus. 2010.

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Savva-Bordalo J, Ramalho-Carvalho J, Costa V L, Rodrigues A, Dias C P, Veiga I, Machado M, Teixeira MR, Henrique R, Jerónimo C. Promoter methylation and large intragenic rearrangements of DPYD are not implicated in severe toxicity to 5-fluorouracil-based chemotherapy in gastrointestinal cancer patients BMC Cancer 10:470, 2010.

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Jerónimo C, Esteller M. DNA Methylation Markers for Prostate Cancer with a Stem Cell Twist. Cancer Prev Res (Phila Pa) 3(9):1053-5, 2010.

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Yang J, van Oosten AL, Theunissen TW, Guo G, Silva JC, Smith A. Stat3 activation is limiting for reprogramming to ground state pluripotency. Cell Stem Cell. 2010 Sep 3;7(3):319-28.

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Fernandes RA, Yu C, Carmo AM, Evans EJ, van der Merwe PA, Davis SJ (2010) What controls T cell receptor phosphorylation? Cell 142:668-669.

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Singh Y, Ferreira, C, Chan AC, Dyson J, Garden OA. Restricted TCR-alpha CDR3 diversity disadvantages natural regulatory T cell Development in B6.2.16 beta chain transgenic mice. J. Immunol. 2010 Sep 15;185 (6):3408-16.

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Antagonism of lateral amygdala alpha1-adrenergic receptors facilitates fear conditioning and long-term potentiation.

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Sinden RE, Talman A, Marques SR, Wass MN, Sternberg MJ.
The flagellum in malarial parasites.
Curr Opin Microbiol. 2010 Aug;13(4):491-500.

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Cell Microbiol. 2010 Aug;12(8):1046-63. Epub 2010 Feb 9.

Mycobacterium tuberculosis protein ESAT-6 is a potent activator of the NLRP3/ASC inflammasome.
Bibhuti B. Mishra1,†, Pedro Moura-Alves2,3,‡, Avinash Sonawane4, Nir Hacohen5,6, Gareth Griffiths4, Luis F. Moita2,*, Elsa Anes1,*

1Centro de Patogénese Molecular, Unidade dos Retrovírus e Infecções Associadas e Instituto de Medicina Molecular, Faculdade de Farmácia, Universidade de Lisboa, Lisboa, Portugal.
2Cell Biology of the Immune System Unit, Instituto de Medicina Molecular, Faculdade de Medicina, Universidade de Lisboa, 1649-028 Lisboa, Portugal.
3Graduate Program in Basic and Applied Biology, Abel Salazar Institute of Biomedical Sciences, University of Porto, 4099-003 Porto, Portugal.
4Department of Molecular Biosciences, University of Oslo, PO Box 1041, Blindern, 0316 Oslo, Norway.
5Center for Immunology and Inflammatory Diseases, Division of Rheumatology, Allergy, and Immunology, Massachusetts General Hospital, Charlestown, MA 02129, USA.
6Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
*Correspondence: Luis F. Moita,

*Correspondence: Elsa Anes,

*Correspondence:

E-mail lmoita@fm.ul.pt; Tel. (+35) 121 799 9512; Fax (+35) 121 799 9504;

E-mail eanes@ff.ul.pt; Tel. (+35) 121 794 6443; Fax (+35) 121 793 4212.

‡These authors contributed equally to this work.

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Alder O, Lavial F, Helness A, Brookes E, Pinho S, Chandrashekran A, Arnaud P, Pombo A, O’Neill L, Azuara V. Ring1B and Suv39h1 delineate distinct chromatin states at bivalent genes during early mouse lineage commitment. Development 2010 Aug 137(15):2483-92.

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Carvalho JR, Filipe L, Costa VL, Ribeiro FR, Martins AT, Teixeira MR, Jerónimo C, Henrique R. Detailed analysis of expression and promoter methylation status of apoptosis-related genes in prostate cancer. Apoptosis 15(8):956-65, 2010.

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Dysregulation of microRNAs in cancer: Playing with fire. FEBS Let
Sonia A. Melo, Manel Esteller

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CpG island hypermethylation-associated silencing of non-coding RNAs transcribed from ultraconserved regions in human cancer. Oncogene
Lujambio A, Portela A, Liz J, Melo SA, Rossi S, Spizzo R, Croce CM, Calin GA, Esteller M.

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Mancio-Silva L, Zhang Q, Scheidig-Benatar C, Scherf A.
Clustering of dispersed ribosomal DNA and its role in gene regulation and chromosome-end associations in malaria parasites.
Proc Natl Acad Sci U S A. 2010 Aug 24;107(34):15117-22.

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L.R. Martins, P. Lúcio, M.C. Silva, P. Gameiro, M.G. Silva, J.T. Barata (2010). Targeting CK2 Overexpression and Hyperactivation as a Novel Therapeutic Tool in Chronic Lymphocytic Leukemia. Blood 116 (15): 2724-2731.

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Stoichiometry of a regulatory splicing complex revealed by single-molecule analyses

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Cunha C, Panseri S, Antonini S. Emerging nanotechnology approaches in tissue engineering for peripheral nerve regeneration. Review. Nanomedicine: Nanotechnology, Biology and Medicine. 2011 Feb;7(1):50-9. DOI:10.1016/j.nano.2010.07.004

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Andrea Cruz, Alexandra G. Fraga, Jeffrey Fountain, Javier Rangel-Moreno, Egídio Torrado, Margarida Saraiva, Daniela Pereira, Jorge Pedrosa, Andrea M. Cooper and António G. Castro. Pathological role of interleukin 17 in mice subjected to repeated BCG vaccination after infection with Mycobacterium tuberculosis. J Exp Med. 2010; 207:1609-16

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Pereira CF, Piccolo FM, Tsubouchi T, Sauer S, Ryan NK, Bruno L, Landeira D, Santos J, Banito A, Gil J, Koseki H, Merkenschlager M, Fisher AG.ESCs require PRC2 to direct the successful reprogramming of differentiated cells toward pluripotency.
Cell Stem Cell. 2010 Jun 4;6(6):547-56.

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Mandel EM, Kaltenbrun E, Callis TE, Zeng XX, Marques SR, Yelon D, Wang DZ, Conlon FL.
The BMP pathway acts to directly regulate Tbx20 in the developing heart.
Development. 2010 Jun;137(11):1919-29.

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Jarid2 is a PRC2 component in embryonic stem cells required for multi-lineage differentiation and recruitment of PRC1 and RNA Polymerase II to developmental regulators

Landeira D, Sauer S, Poot R, Dvorkina M, Mazzarella L, Jørgensen HF, Pereira CF, Leleu M, Piccolo FM, Spivakov M, Brookes E, Pombo A, Fisher C, Skarnes WC, Snoek T, Bezstarosti K, Demmers J, Klose RJ, Casanova M, Tavares L, Brockdorff N, Merkenschlager M, Fisher AG.

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I.S. Vala, L.R. Martins, N. Imaizumi, R.J. Nunes, J. Rino, F. Kuonen, L.M. Carvalho, C. Ruegg, I. Monteiro Grillo, J.T. Barata, M. Mareel, S.C.R. Santos (2010). Low Doses of Ionizing Radiation Promote Tumor Growth and Metastasis by Enhancing Angiogenesis. PLoS ONE 5(6): e11222.

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Lefebvre C, Rajbhandari P, Alvarez MJ, Bandaru P, Lim WK, Sato M, Wang K, Sumazin P, Kustagi M, Bisikirska BC, Basso K, Beltrao P, Krogan N, Gautier J, Dalla-Favera R, Califano A. “A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers” Mol Syst Biol. 2010 Jun 8;6:377

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Cardoso-Moreira M. and Long M. Mutational bias shaping ﬂy copy number variation:
implications for genome evolution. Trends in Genetics. 26:243-247 (2010)

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Using an Improved Phagocytosis Assay to Evaluate the Effect of HIV on Specific Antibodies to Pregnancy-Associated Malaria

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VEGF promotes malaria-associated acute lung injury in mice

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Drosophila S2 cells as a model system to investigate mitotic spindle dynamics, architecture, and function. Moutinho-Pereira S, Matos I, Maiato H. Methods Cell Biol. 2010;97:243-57.

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“Using an improved phagocytosis assay to evaluate the effect of HIV on specific antibodies to pregnancy-associated malaria.” Ataide R, Hasang W, Wilson DW, Beeson JG, Mwapasa V, Molyneux ME, Rogerson, SR, .PLoS ONE. 2010;5(5):e10807.

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“VEGF promotes malaria-associated acute lung injury in mice.” Epiphanio S, Campos MG, Pamplona A, Carapau D, Pena AC, Ataide R, et al. PLoS pathogens. 2010;6(5):e1000916

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Beltrao P, Cagney C, Krogan NJ “Quantitative Genetic Interactions Reveal Layers of Biological Modularity” Cell. 2010 May 28;141(5):739-45

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Costa V L, Henrique R, Ribeiro FR, Carvalho JR, Oliveira J, Lobo F, Teixeira MR, Jerónimo C. Epigenetic regulation of Wnt-signaling pathway in urological tumors. Epigenetics 16;5(4):343-51, 2010.

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Jarid2 is a PRC2 component in embryonic stem cells required for multi-lineage differentiation and recruitment of PRC1 and RNA Polymerase II to developmental regulators

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Morais-de-Sá E, Vincent Mirouse and Daniel St Johnston (2010) aPKC phosphorylation of Bazooka defines the apical/lateral border in Drosophila epithelial cells. Cell, 141 (3) 509-523

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Environmental Enrichment does not Compromise the Immune Response in Mice Chronically Infected with Mycobacterium avium
A. Olsson, A. Costa, C. Nobrega, S. Roque, M. Correia-Neves
Scandinavian Journal of Immunology, 2010, 71(4): 249
doi: 10.1111/j.1365-3083.2010.02371.x

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Albergaria A, Ribeiro AS, Pinho S, Milanezi F, Carneiro V, Sousa B, Sousa S, Oliveira C, Machado JC, Seruca R, Paredes J, Schmitt F. ICI 182,780 induces P-cadherin overexpression in breast cancer cells through chromatin remodelling at the promoter level: a role for C/EBP{beta} in CDH3 gene activation. Hum Mol Genet. 2010 Apr 21

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Manuel Lima-Rodrigues, Nuno Lamas, Ana Valle-Fernandes, Andrea Cruz, Artur Vieira, Pedro Oliveira, Jorge Pedrosa, António G. Castro, Rui M. Reis, Fátima Baltazar, Armando Almeida. The selective COX-2 inhibitor Etoricoxib reduces acute inflammatory markers in a model of neurogenic laryngitis but loses its efficacy with prolonged treatment. Inflamm Res. 2010 Sep;59(9):743-53.

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Savage, D. F., Afonso, B., Chen, A. H., and Silver, P. A. 2010. Spatially ordered dynamics of the bacterial carbon fixation machinery. Science. 327, 5970, 1258-1261. DOI=10.1126/science.1186090.

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Soares RS, Tendeiro R, Foxall RB, Baptista AP, Cavaleiro R, Gomes P, Camacho R, Valadas E, Doroana M, Lucas M, Antunes F, Victorino RM, Sousa AE. Cell-associated viral burden provides evidence of ongoing viral replication in aviremic HIV-2-infected patients. J Virol. 2011 Mar;85(5):2429-38.

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Pinheiro H, Bordeira-Carriço R, Seixas S, Carvalho J, Senz J, Oliveira P, Inácio P, Gusmão L, Rocha J, Huntsman D, Seruca R, Oliveira C (2010) “Allele specific CDH1 down-regulation and hereditary diffuse gastric cancer” Hum Mol Gen - 19(5).

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Mank, JE, Vicoso, B, Berlin, S, Charlesworth, B. Effective population size and the faster-X effect: empirical results and their interpretation. Evolution 64: 663–674, 2010

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Pinheiro H, Bordeira-Carriço R, Seixas S, Carvalho J, Senz J, Oliveira P, Inácio P, Gusmão L, Rocha J, Huntsman D, Seruca R, Oliveira C. Allele-specific CDH1 downregulation and hereditary diffuse gastric cancer.
Hum Mol Genet. 2010 Mar 1;19(5):943-52. Epub 2009 Dec 4.

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GABA(C) Receptors in the Lateral Amygdala: A Possible Novel Target for the Treatment of Fear and Anxiety Disorders?

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C.M. Henriques, J. Rino, R.J. Nibbs, G.G. Graham, J.T. Barata (2010). IL-7 induces rapid clathrin-mediated internalization and JAK3-dependent degradation of IL-7Rα in T cells. Blood 115 (16): 3269-3277.

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Vale PF, Little TJ. (2010) CRISPR-mediated phage resistance and the ghost of co-evolution past. Proceedings of the Royal Society of London – Biological Sciences 277 2097-2103

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Cunha C, Brambilla R, Thomas KL. A simple role for BDNF in learning and memory? Review. Frontiers in Molecular Neuroscience. 2010 Feb 9;3:1. doi: 10.3389/neuro.02.001.2010

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S. Corte-Real, L. Fonseca, C Barbas, Y Chang, P Moore, J. Gonçalves.
Intrabody-based mapping of Latency-Associated Nuclear Antigen from Kaposi’s Sarcoma-
Associated Herpesvirus show conserved epitopes for viral latency inhibition.
Virology: Research and Treatment 2010:2; 1-16

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Silva K, Vieira MN, Almada VC & Monteiro NM, 2010. Reversing sex-role reversal: compete only when you must. Animal Behaviour, 79: 885-893.

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F. Ferreira, M.M.Santos, M.A. Reis-Henriques , M.N.Vieira & N.M. Monteiro, 2010. Sexing blennies using genital papilla morphology or ano-genital distance. Journal of Fish Biology 77: 1432-1438.

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Rivero A, Vézilier J, Weill M, Read AF, Gandon S (2010) Insecticide control of vector borne diseases: when is insecticide resistance a problem? PLoS Pathogens 6(8): e1001000

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Rivero A, Magaud A, Nicot A, Vézilier J (2011) Energetic costs of insecticide resistance in Culex pipiens mosquitoes. Journal of Medical Entomology.

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Vézilier J, Nicot A, Gandon S, Rivero A (2010) Insecticide resistance and malaria transmission: infection rate and oocyst burden in Culex pipiens mosquitoes infected with Plasmodium relictum. Malaria Journal

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Dissemination of mycobacteria to the thymus renders newly generated T cells tolerant to the invading pathogen
C. Nobrega, S. Roque, C. Nunes-Alves, A. Coelho, I. Medeiros, A. G. Castro, R. Appelberg, M. Correia-Neves
Journal of Immunology, 2010, 184: 351
doi:10.4049/jimmunol.0902152

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Carvalho M, Ferreira PJ, Mendes VS, Silva R, Pereira JA, Jerónimo C, Silva MB. Human cancer cell antiproliferative and antioxidant activities of Juglans regia L. Food Chem Toxicol 48(1):441-750, 2010.

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Alves, J. M., A. Caliman, R. D. Guariento, M. P. Figueiredo-Barros, L. S. Carneiro, V. F. Farjalla, R. L. Bozelli & F. A. Esteves, 2010. Stoichiometry of benthic invertebrate nutrient recycling: interspecific variation and the role of body mass. Aquatic Ecology 44: 421–430.

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REVIEW: Dobreva MP, Pereira PNG, Deprest J, Zwijsen A. On the Origin of Amniotic Stem Cells: of mice and men. International Journal of Developmental Biology, 2010, 54(5):761-77

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Ribeiro AS, Albergaria A, Sousa B, Correia AL, Bracke M, Seruca R, and Schmitt FC. (2009). Extracellular cleavage and shedding of P‐cadherin: a mechanism underlying the invasive behaviour of breast cancer cells. Oncogene, 29: 392‐402.

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Oliveira CC, van Veelen PA, Querido B, de Ru A, Sluijter M, Laban S, van der Burg SH, Offringa R and van Hall T. The nonpolymorphic MHC Qa-1b mediates CD8+ T cell surveillance of antigen-processing defects. The Journal of Experimental Medicine 2010, 207(1): 207-221.

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Furmanski AL, Bartok I, Chai JG, Singh Y, Ferreira C, Scott D, Holland SJ, Bourdeaux C, Crompton T, Dyson J. Peptide-specific, TCR-alpha-driven, co-receptor independent negative selection in TCR alpha chain transgenic mice. J. Immunol. 2010 Jan 15;184 (2):650-7.

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A. Silva, P.Y. Jotta, A.B. Silveira, D. Ribeiro, S.R. Brandalise, J.A. Yunes, J.T. Barata (2010). Regulation of PTEN by CK2 and Notch1 in primary T-cell acute lymphoblastic leukemia: rationale for combined use of CK2- and gamma-secretase inhibitors. Haematologica 95 (4): 674-678.

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Oncol Rep. 2009 Dec;22(6):1349-56.
Glioma-astrocyte interaction modifies the astrocyte phenotype in a co-culture experimental model.
Gagliano N, Costa F, Cossetti C, Pettinari L, Bassi R, Chiriva-Internati M, Cobos E, Gioia M, Pluchino S.

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Savarese F, Dávila A, Nechanitzky R, De La Rosa-Velazquez I, Pereira CF, Engelke R, Takahashi K, Jenuwein T, Kohwi-Shigematsu T, Fisher AG, Grosschedl R. Satb1 and Satb2 regulate embryonic stem cell differentiation and Nanog expression. Genes Dev. 2009 Nov 15;23(22):2625-38.

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Cavaleiro R, Baptista AP, Soares RS, Tendeiro R, Foxall RB, Gomes P, Victorino RM, Sousa AE. Major depletion of plasmacytoid dendritic cells in HIV-2 infection, an attenuated form of HIV disease. PLoS Pathog. 2009 Nov;5(11):e1000667.

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Lünemann A, Lünemann JD, Roberts S, Messmer B, Barreira da Silva R, Raine CS and Münz C. (2008) Human NK cells kill resting but not activated microglia via NKG2D- and NKp46-mediated recognition, J Immunol. 181(9):6170-7

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P.Y. Jotta, M.A. Ganazza, A. Silva, M.B. Viana, M.J. da Silva, L.J.G. Zambaldi, J.T. Barata, S.R. Brandalise, J.A. Yunes (2010). Negative prognostic impact of PTEN mutation in pediatric T-cell acute lymphoblastic leukemia. Leukemia 24 (1): 239-42.

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Abaitua, F., R. N. Souto, H. Browne, T. Daikoku, and P. O'Hare. 2009. Characterization of the herpes simplex virus (HSV)-1 tegument protein VP1-2 during infection with the HSV temperature-sensitive mutant tsB7. J Gen Virol. 90(Pt 10): 2353–2363.

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Proliferation and survival molecules implicated in the inhibition of BRAF pathway in thyroid cancer cells harbouring different genetic mutations.
BMC Cancer
Preto A, Gonçalves J, Rebocho AP, Figueiredo J, Meireles AM, Rocha AS, Vasconcelos HM, Seca H, Seruca R, Soares P, Sobrinho-Simões M

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Maffini et al., Motor-Independent Targeting of CLASPs to Kinetochores by CENP-E Promotes
Microtubule Turnover and Poleward Flux, Current Biology (2009).

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Pires SS, Hughes S, Peirson SN, Zheng L, Lucas RJ, Foster RG, Hankins MW, Halford S. (2009) Differential expression of two distinct functional isoforms of melanopsin (Opn4) in the mammalian retina. Journal of Neurosciences; 29(39):12332-42.

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Ann Neurol. 2009 Sep;66(3):343-54.
Human neural stem cells ameliorate autoimmune encephalomyelitis in non-human primates.
Pluchino S, Gritti A, Blezer E, Amadio S, Brambilla E, Borsellino G, Cossetti C, Del Carro U, Comi G, 't Hart B, Vescovi A, Martino G.

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Silva J#, Nichols J, Theunissen TW, Guo G, van Oosten AL, Barrandon O, Wray J, Yamanaka S, Chambers I, Smith A#. Nanog is the gateway to the pluripotent ground state. Cell. 2009 Aug 21;138(4):722-37.
(#joint corresponding authors)

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Silva J, Nichols J, Roode M, Smith A. Suppression of Erk signaling promotes ground state pluripotency in the mouse embryo. Development. 2009 doi:10.1242/dev.038893.

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Banito A, Rashid ST, Acosta JC, Li S, Pereira CF, Geti I, Pinho S, Silva JC, Azuara V, Walsh M, Vallier L, Gil J. Senescence impairs successful reprogramming to pluripotent stem cells. Genes Dev. 2009 doi:10.1101/gad.1811609

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Contribution of functional variation in the IL13 gene to allergy, hay fever and asthma in the NSHD longitudinal 1946 birth cohort.Black S, Teixeira AS, Loh AX, Vinall L, Holloway JW, Hardy R, Swallow DM.Allergy. 2009 Aug;64(8):1172-8

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Banito A., Rashid S.T., Acosta J.C., Li S., Pereira C.F., Geti I., Pinho S., Silva J.C., Azuara V., Walsh M., Vallier L., Gil J. Senescence impairs successful reprogramming to pluripotent stem cells. Genes Dev. 2009 Sep 15;23(18):2134-9. Epub 2009 Aug 20

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Encinar JA, Fernandez-Ballester G, Sánchez IE, Hurtado-Gomez E, Stricher F, Beltrao P, Serrano L. “ADAN: a database for prediction of protein-protein interaction of modular domains mediated by linear motifs” Bioinformatics. 2009 Sep 15;25(18):2418-24

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Miller et al,. Golgi-derived CLASP-dependent microtubules control Golgi organization and polarized trafficking in motile cells, Nat Cell Biol (2009).

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Gonçalves CM, Castro MAA, Henriques T, Oliveira MI, Pinheiro HC, Oliveira C, Sreenu VB, Evans EJ, Davis SJ, Moreira A, Carmo AM (2009) Molecular cloning and analysis of SSc5D, a new member of the scavenger receptor cysteine-rich superfamily. Mol. Immunol. 46:2585-2596.

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Pires SS, Halford S, Peirson SN, García-Fernández JM, Hankins MW, Foster RG (2009) VA opsin-based photoreceptors in the hypothalamus of birds. Current Biology;19(16):1396-402.

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S Frazao Pinheiro. Mainstreaming HIV in Early Recovery. July 2009. Bureau for Development Policy. United Nations Development Programme.

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A mitotic recombination map proximal to the APC locus on chromosome 5q and assessment of influences on colorectal cancer risk.Howarth K, Ranta S, Winter E, Teixeira A, Schaschl H, Harvey JJ, Rowan A, Jones A, Spain S, Clark S, Guenther T, Stewart A, Silver A, Tomlinson I.BMC Med Genet. 2009 Jun 10;10:54.

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de Pater E, Clijsters L, Marques SR, Lin YF, Garavito-Aguilar ZV, Yelon D, Bakkers J.
Distinct phases of cardiomyocyte differentiation regulate growth of the zebrafish heart.
Development. 2009 May;136(10):1633-41.

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Microtubule cytoskeleton remodeling by acentriolar microtubule-organizing centers at the entry and exit from mitosis in Drosophila somatic cells. Moutinho-Pereira S, Debec A, Maiato H. Mol Biol Cell. 2009 Jun;20(11):2796-808. Epub 2009 Apr 15.

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Beltrao P, Trinidad JC, Fiedler D, Roguev A, Lim WA, Shokat KM, Burlingame AL, Krogan NJ “Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species” PLoS Biol. 2009 Jun 16;7(6):e1000134

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Soares MJ, Pinto M, Henrique R, Vieira J, Cerveira N, Peixoto A, Martins A, Oliveira J, Jerónimo C, Teixeira MR. CSF1R copy number changes, point mutations and RNA and protein overexpression in renal cell carcinomas. Mod Pathol 22:744-752, 2009.

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Albuquerque SS, Carret C, Grosso AR, Tarun AS, Peng X, Kappe SH, Prudêncio M, Mota MM. (2009) Host cell transcriptional profiling during malaria liver stage infection reveals a coordinated and sequential set of biological events. BMC Genomics Jun 17;10:270

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Oliveira, C., Sousa, S., Pinheiro, H., Karam, R., Carriço, R., Senz, J., Kaurah, P., Carvalho, J., Pereira, R., Gusmão, L., Xiaogang, W., Yokota, J., Carneiro, F., Huntsman, D., Seruca, R. Quantification of epigenetic and genetic second hits in CDH1 during hereditary diffuse gastric cancer syndrome progression. Gastroenterology 2009; 136: 2137-2148.

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PLoS One. 2009 Jun 19;4(6):e5959.
Immune regulatory neural stem/precursor cells protect from central nervous system autoimmunity by restraining dendritic cell function.
Pluchino S, Zanotti L, Brambilla E, Rovere-Querini P, Capobianco A, Alfaro-Cervello C, Salani G, Cossetti C, Borsellino G, Battistini L, Ponzoni M, Doglioni C, Garcia-Verdugo JM, Comi G, Manfredi AA, Martino G.

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Vicoso B, Charlesworth B. The Deficit of Male-Biased Genes on the D. melanogaster X Chromosome Is Expression-Dependent: A Consequence of Dosage Compensation? J Mol Evol. 2009

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Vicoso, B., Charlesworth, B. EFFECTIVE POPULATION SIZE AND THE FASTER-X EFFECT: AN EXTENDED MODEL. Evolution 2009

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Correia, M.P., Cardoso, E.M., Pereira, C.F., Neves, R., Uhrberg, M., Arosa, F.A. (2009). Hepatocytes and IL-15: a favorable microenvironment for T cell survival and CD8+ T cell differentiation. J Immunol. 182, 6149-59.

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D.V. Correia, F. d’Orey, B.A. Cardoso, T. Lança, A.R. Grosso, A. deBarros, L.R. Martins, J.T. Barata, B. Silva-Santos (2009). Highly active microbial phosphoantigen induces rapid yet sustained MEK/Erk- and PI-3K/Akt-mediated signal transduction in anti-tumor human γδ T-cells. PLoS ONE 4 (5): e5657.

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Ferreira C, Singh Y, Wong SF, Garden OA, Dyson J. NOD Mice Select a Low Diversity Repertoire of Naïve Regulatory T Cells. Proc. Natl. Acad. Sci. U.S.A. 2009 May 19;106 (20):8320-5.

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Pereira, C.F., Fisher, A.G. (2009) Heterokaryon-based reprogramming for pluripotency. Curr. Protoc. Stem Cell Biol. Chapter 4:Unit 4B.1.

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Marques SR, Yelon D.
Differential requirement for BMP signaling in atrial and ventricular lineages establishes cardiac chamber proportionality.
Dev Biol. 2009 Apr 15;328(2):472-82.

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Cavaleiro R, Baptista AP, Foxall RB, Victorino RM, Sousa AE. Dendritic cell differentiation and maturation in the presence of HIV type 2 envelope. AIDS Res Hum Retroviruses. 2009 Apr;25(4):425-31.

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Meta-analysis of age-related gene expression profiles identifies common signatures of aging.

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RM Silva, et al. (2009). The Yeast PNC1 Longevity Gene Is Up-Regulated by mRNA Mistranslation. PLoS ONE. 4(4): e5212.

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Tonkin CJ, Carret CK, Duraisingh MT, Voss TS, Ralph SA, Hommel M, Duffy MF, Mancio-Silva L, Scherf A, Ivens A, Speed TP, Beeson JG, Cowman AF.
Sir2 paralogues cooperate to regulate virulence genes and antigenic variation in Plasmodium falciparum.
PLoS Biol. 2009 Apr 14;7(4):e84.

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Mateus AR, Simoes-Correia J, Figueiredo J, Heindl S, Alves CC, et al. (2009) E-cadherin mutations and cell motility: a genotype-phenotype correlation. Exp Cell Res 315: 1393-1402.

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What is the most sensitive measure of water maze probe test performance? Maei HR, Zaslavsky K, Teixeira CM, Frankland PW. Front Integr Neurosci.;3:4.

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Jorgensen, H.F., Terry, A., Beretta, C., Pereira, C.F., Leleu, M., Chen,Z.F., Kelly, C., Merkenschlager, M., Fisher, A.G. (2009). REST selectively represses a subset of RE1-containing neuronal genes in mouse embryonic stem cells. Development. 136, 715-721.

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Vale PF, Little TJ. (2009) Measuring parasite fitness under genetic and thermal variation. Heredity (2009) 103, 102–109

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Pérez-Toledo K, Rojas-Meza AP, Mancio-Silva L, Hernández-Cuevas NA, Delgadillo DM, Vargas M, Martínez-Calvillo S, Scherf A, Hernandez-Rivas R.
Plasmodium falciparum heterochromatin protein 1 binds to tri-methylated histone 3 lysine 9 and is linked to mutually exclusive expression of var genes.
Nucleic Acids Res. 2009 Mar 6.

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Development and validation of a sensitive entropy-based measure for the water maze. Maei HR, Zaslavsky K, Wang AH, Yiu AP, Teixeira CM, Josselyn SA, Frankland PW. Front Integr Neurosci.3:33.

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Vicoso, B. and Bachtrog, D. Progress and prospects toward our understanding of the evolution of dosage compensation. CHROMOSOME RESEARCH 17: 585-602, 2009

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Fernandez-Ballester G, Beltrao P, Gonzalez JM, Song YH, Wilmanns M, Valencia A, Serrano L. “Structure-based prediction of the Saccharomyces cerevisiae SH3-ligand interactions” J Mol Biol. 2009 May 15;388(4):902-16. Epub 2009 Mar 24

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The dynamic DNA methylomes of double-stranded DNA viruses associated with human cancer. Genome Research
Fernandez AF, Rosales C, Lopez-Nieva P, Graña O, Ballestar E, Ropero S, Espada J, Melo SA, Lujambio A, Fraga MF, Pino I, Javierre B, Carmona FJ, Acquadro F, Steenbergen RD, Snijders PJ, Meijer CJ, Pineau P, Dejean A, Lloveras B, Capella G, Quer J, Buti M, Esteban JI, Allende H, Rodriguez-Frias F, Castellsague X, Minarovits J, Ponce J, Capello D, Gaidano G, Cigudosa JC, Gomez-Lopez G, Pisano DG, Valencia A, Piris MA, Bosch FX, Cahir-McFarland E, Kieff E, Esteller M.

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Issar N, Ralph SA, Mancio-Silva L, Keeling C, Scherf A.
Differential sub-nuclear localisation of repressive and activating histone methyl modifications in P. falciparum.
Microbes Infect. 2009 Mar;11(3):403-7. Epub 2008 Dec 27.

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Vicoso, B., Charlesworth, B. (2009) Recombination Rates May Affect the Ratio of X to Autosomal Non-coding Polymorphism in African Populations of Drosophila melanogaster. Genetics 10.1534/genetics.108.098004.

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Lopez-Rubio JJ*, Mancio-Silva L*, Scherf A.
Genome-wide analysis of heterochromatin associates clonally variant gene regulation with perinuclear repressive centers in malaria parasites.
Cell Host Microbe. 2009 Feb 19;5(2):179-90. *co-first authors

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The precision of remote context memories does not require the hippocampus. Wang SH, Teixeira CM, Wheeler A, Frankland PW. Nature Neuroscience. 2009 Feb 1, Epub ahead of print.

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A TARBP2 mutation in human cancer impairs microRNA processing and DICER1 function. Nature Genetics
Sonia A Melo, Santiago Ropero, Catia Moutinho, Lauri A Aaltonen, Hiroyuki Yamamoto, George A Calin, Simona Rossi, Agustin F Fernandez, Fatima Carneiro, Carla Oliveira, Bibiana Ferreira, Chang-Gong Liu, Alberto Villanueva, Gabriel Capella, Simo Schwartz Jr, Ramin Shiekhattar & Manel Esteller

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Teotónio H, Chelo IM, Bradić M, Rose MR, Long AD.
Experimental evolution reveals natural selection on standing genetic variation. Nat Genet. 2009 Feb;41(2):251-7. doi: 10.1038/ng.289. .

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F. Ferreira, M.M.Santos, L. Filipe C. Castro, M.A. Reis-Henriques , D. Lima, M.N.Vieira & N.M. Monteiro (2009). Vitellogenin gene expression in the intertidal blenny Lipophrys pholis: a new sentinel species for estrogenic chemical pollution monitoring in the European Atlantic coast? Comparative Biochemistry and Physiology Part C: Toxicology and Pharmacology, 149: 58-64.

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K. Silva, V.C. Almada, MN Vieira & N.M. Monteiro (2009). Female reproductive tactics in a sex-role reversed pipefish: Screenning for male quality and number. Behaviour Ecology 20: 768-772.

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Ratkai C, Quinteira S, Grosso F, Monteiro N, Nagy E & Peixe L., 2009. Controlling for false positives: interpreting MBL E-test and MBL combined disk-test for the detection of metallo-β-lactamases. Journal of Antimicrobial Chemotherapy 64(3): 657-659.

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Soares J, Coimbra AM,, Reis Henriques MA, Monteiro NM, Vieira MN, Oliveira JMA, Guedes-Dias P, Fontaínhas Fernandes, Silva Parra S, Carvalho AP, Filipe C Castro L, Santos MM, 2009. Disruption of zebrafish (Danio rerio) embryonic development after full life-cycle parental exposure to low levels of ethinylestradiol. Aquatic Toxicology 95: 330-338.

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Oliveira-Maia AJ*, Stapleton-Kotloski JR*, Lyall V, Phan TH, Mummalaneni S, Melone P, Desimone JA, Nicolelis MA, Simon SA. Nicotine activates TRPM5-dependent and independent taste pathways. Proc Natl Acad Sci U S A. 2009 Jan 21. [Epub ahead of print] (*equally contributing authors)

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Mahadevaiah SK, Costa Y, Turner JM. (2009) Using RNA FISH to study gene expression during mammalian meiosis. Methods Mol Biol. 558:433-44.

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In search of the Pre- and Post-Neolithic Genetic Substrates in Iberia: Evidence from Y-Chromosome in Pyrenean Populations

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Tsolou A, Passos JF, Nelson G, Arai Y and von Zglinicki T. ssDNA fragments induce cell senescence by telomere uncapping. Exp Gerontol. 2008 Aug 22.

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Buehr M, Meek S, Blair K, Yang J, Ure J, Silva J, McLay R, Hall J, Ying Q, Smith A. Capture of Authentic Embryonic Stem Cells from Rat Blastocysts. Cell. 2008 Dec 26;135(7):1287-98.

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Meta-analysis of genome-wide association data identifies four new susceptibility loci for colorectal cancer.Houlston RS, Webb E, Broderick P, Pittman AM, Di Bernardo MC, Lubbe S, Chandler I, Vijayakrishnan J, Sullivan K, Penegar S; Colorectal Cancer Association Study Consortium, Carvajal-Carmona L, Howarth K, Jaeger E, Spain SL, Walther A, Barclay E, Martin L, Gorman M, Domingo E, Teixeira AS; CoRGI Consortium, Kerr D, Cazier JB, Niittymäki I, Tuupanen S, Karhu A, Aaltonen LA, Tomlinson IP, Farrington SM, Tenesa A, Prendergast JG, Barnetson RA, Cetnarskyj R, Porteous ME, Pharoah PD, Koessler T, Hampe J, Buch S, Schafmayer C, Tepel J, Schreiber S, Völzke H, Chang-Claude J, Hoffmeister M, Brenner H, Zanke BW, Montpetit A, Hudson TJ, Gallinger S; International Colorectal Cancer Genetic Association Consortium, Campbell H, Dunlop MG.Nat Genet. 2008 Dec;40(12):1426-35.

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Ferreira F, Santos MM, Castro LF, Reis-Henriques MA, Lima D, Vieira MN, Monteiro NM. 2008. Vitellogenin gene expression in the intertidal blenny Lipophrys pholis: A new sentinel species for estrogenic chemical pollution monitoring in the European Atlantic coast? Comp Biochem Physiol C Toxicol Pharmacol. In press.

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Fidalgo-Carvalho I, Craigo JK, Barnes S, Costa-Ramos C and Montelaro RC. Characterization of an Equine macrophage cell line: application to studies of EIAV infection.Vet Microbiol. 2009 Apr 14;136(1-2):8-19. Epub 2008 Nov 1.

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Oliveira-Maia, A.J., Simon, S.A. and Nicolelis, M.A.L. Gustation. In: Encyclopedia of Neuroscience; Binder, M.D., Hirokawa, N. and Windhorst, U., editors. Springer-Verlag, New York (2008).

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Cunha C, Angelucci A, D’Antoni A, Dobrossy MD, Dunnett SB, Berardi N, Brambilla R. Brain-Derived Neurotrophic Factor (BDNF) overexpression in the forebrain results in learning and memory impairments. Neurobiology of Disease. 2009 Mar;33(3):358-68. doi: 10.1016/j.nbd.2008.11.004

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Improved expression of halorhodopsin for light-induced silencing of neuronal activity: S. ZHAO1, C. CUNHA1, F. ZHANG3, Q. LIU2, B. GLOSS2, K. DEISSEROTH3, G. AUGUSTINE1, *G. FENG1; 2008-S-112358-SfN

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Lopes PC, Sucena É, Santos ME, Magalhães S 2008 Rapid Experimental Evolution of Pesticide Resistance in C. elegans Entails No Costs and Affects the Mating System. PLoS ONE 3(11)

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R.I. Azevedo, M.V.D. Soares, J.T. Barata, R. Tendeiro, A. Serra-Caetano, R.M.M. Victorino and A.E. Sousa (2009). IL-7 sustains CD31 expression in human naive CD4+ T cells and preferentially expands the CD31+ subset in a PI3K-dependent manner. Blood 113 (13): 2999-3007.

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Silva J*, Barrandon O, Nichols J, Theunissen TW, Kawaguchi J, Smith A*. Promotion of Reprogramming to Ground State Pluripotency by Signal Inhibition. PLoS Biology. 2008 doi:10.1371/journal.pbio.0060253.
(* joint corresponding authors)

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A. Silva, J.A. Yunes, B.A. Cardoso, L.R. Martins, P.Y. Jotta, M. Abecasis, A.E. Nowill, N.R. Leslie, A.A. Cardoso, J.T. Barata (2008). PTEN Posttranslational Inactivation and Hyperactivation of the PI3K/Akt Pathway Sustain Primary T Cell Leukemia Viability. Journal of Clinical Investigation 118 (11): 3762-3774.

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Macedo MF, de Sousa M.
Transferrin and the transferrin receptor: of magic bullets and other concerns.
Inflamm Allergy Drug Targets. 2008;7:41-52.

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Trond M. Kortner, Eduardo Rocha, Paula Silva, L. Filipe C. Castro, Augustine Arukwe (2008). Genomic approach in evaluating the role of androgens on the growth of Atlantic cod (Gadus morhua) previtellogenic oocytes. Comparative Biochemistry and Physiology Part D, 3, 205-218.

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Batista-Pinto, C, Rocha, E, Castro, LFC, Rodrigues, P, and, Lobo-da-Cunha, A (2008). Seasonal and gender variation of peroxisome proliferator activated receptors expression in the liver of brown trout. General Comparative Endocrinology accepted

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Frederico Aires da Silva , Sofia Corte-Real and Joao Goncalves.
Recombinant antibodies as therapeutic agents. Pathways for modelling new biodrugs.
Biodrugs 2008;22(5):1

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Neutralization of the membrane protein Nogo-A enhances growth and reactive sprouting in established organotypic hippocampal slice cultures

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Birket MJ, Passos JF, von Zglinicki T and Birch-Machin M The relationship between the ageing- and photo-dependent T414G mitochondrial DNA mutation with cellular senescence and reactive oxygen species production in cultured skin fibroblasts JID in Press

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Vicoso, B., Haddrill, P.R., Charlesworth, B. (2008) A multi-species approach for comparing sequence evolution of X-linked and autosomal sites in Drosophila. Genetics Research, 90(5): 421-31.

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Bajpai S, Correia J, Feng Y, Figueiredo J, Sun SX, et al. (2008) {alpha}-Catenin mediates initial E-cadherin-dependent cell-cell recognition and subsequent bond strengthening. Proc Natl Acad Sci U S A 105: 18331-18336.

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Improved expression of halorhodopsin for light-induced silencing of neuronal activity.

Zhao S, Cunha C, Zhang F, Liu Q, Gloss B, Deisseroth K, Augustine GJ, Feng G.

Brain Cell Biol. 2008 Aug;36(1-4):141-54. Epub 2008 Oct 17.

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McDougall C., Hui J., Monteiro A., Takahashi T and Ferrier D.E.K. (2008). Annelids in evolutionary developmental biology and comparative genomics. Parasite. 15: 321-328. (Review)

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The kinases MSK1 and MSK2 act as negative regulators of Toll-like receptor signaling. (2008)
Ananieva O, Darragh J, Johansen C, Carr JM, McIlrath J, Park JM, Wingate A, Monk CE, Toth R, Santos SG, Iversen L, Arthur JS.
Nat Immunol, 9:1028-36

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Barros TP, Reynolds H, Clarke S, Roach A, Alderton W, Berghmans S.

Zebrafish: An automated high content screening platform for safety pharmacology.

J Pharmacol Toxicol Methods. 2008 September - October;58(2):150.

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Berghmans S, Barros T, Golder Z, Gardner I, Butler P, Hill A, Fleming A, Alderton W, Roach A.

Zebrafish: The future of in vivo safety pharmacology screening.

J Pharmacol Toxicol Methods. 2008 September - October;58(2):177-178.

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Pereira, C.F., Terranova, R., Ryan, N.K., Santos, J., Morris, K.M., Cui, W., Merkenschlager, M., Fisher, A.G. (2008). Heterokaryon-based reprogramming of human B lymphocytes for pluripotency requires Oct4 but not Sox2. PLoS Genet 4, e1000170.

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Marques SR, Lee Y, Poss KD, Yelon D.
Reiterative roles for FGF signaling in the establishment of size and proportion of the zebrafish heart.
Dev Biol. 2008 Sep 15;321(2):397-406

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Corvelo A, Eyras E. Exon creation and establishment in human genes. Genome Biol. 2008 Sep 23;9(9):R141.

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Simoes-Correia, J., et al., Endoplasmic reticulum quality control: a new mechanism of E-cadherin regulation and its implication in cancer. Hum Mol Genet, 2008. 17(22): p. 3566-76.

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Pinto M, Vieira J, Ribeiro FR, Soares MJ, Henrique R, Oliveira J, Jerónimo C,Teixeira MR. Overexpression of the mitotic checkpoint genes BUB1 and BUBR1 is associated with genomic complexity in clear cell kidney carcinomas. Cell Oncol 30(5):389-95, 2008.

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Pires SS (2008) Characterisation of the vertebrate inner-retinal photopigments melanopsin (Opn4) and vertebrate ancient (VA) opsin. University of Oxford

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Mycobacterium tuberculosis glucosyl-3-phosphoglycerate synthase:
structure of a key enzyme in methylglucose lipopolysaccharide biosynthesis

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Ng W, Loh AX, Teixeira AS, Pereira SP, Swallow DM. (2008) Genetic regulation of MUC1 alternative splicing in human tissues. Br J Cancer. 2008 Aug 26 [Epub ahead of print]

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Induction of HLA-B27 heavy chain homodimer formation after activation in dendritic cells. (2008)
Santos SG, Lynch S, Campbell EC, Antoniou AN, Powis SJ.
Arthritis Res Ther, 10:R100. [Epub ahead of print]

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Barros TP, Alderton WK, Reynolds HM, Roach AG, Berghmans S.

Zebrafish: an emerging technology for in vivo pharmacological assessment to identify potential safety liabilities in early drug discovery.

Br J Pharmacol. 2008 Aug;154(7):1400-13. Epub 2008 Jun 16.

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Dual role of topoisomerase II in centromere resolution and aurora B activity. Coelho PA, Queiroz-Machado J, Carmo AM, Moutinho-Pereira S, Maiato H, Sunkel CE. PLoS Biol. 2008 Aug 26;6(8):e207

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Pinto JP, Ribeiro S, Pontes H, Thowfeequ S, Tosh D, Carvalho F, Porto G. Erythropoietin mediates hepcidin expression in hepatocytes through EPOR signaling and regulation of C/EBPalpha. Blood. 2008 Jun 15;111(12):5727-33

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Coelho PA, Queiroz-Machado J, Carmo AM, Moutinho-Pereira S, Maiato H, Sunkel CE (2008) Dual role of Topoisomerase II in centromere resolution and Aurora B activity. PLoS Biol. 6:1758-1777.

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B.A. Cardoso, L.R. Martins, C.I. Santos, L.M. Nadler, V.A. Boussiotis, A.A. Cardoso, J.T. Barata (2009). Interleukin-4 stimulates proliferation and growth of T-cell acute lymphoblastic leukemia cells by activating mTOR signaling. Leukemia 23 (1): 206-208.

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Karam, R., Carvalho, J., Bruno, I., Graziadio, C., Senz, J., Huntsman, D., Carneiro, F., Seruca, R., Wilkinson, M.F., Oliveira, C. (2008) The NMD mRNA surveillance pathway downregulates aberrant E-cadherin transcripts in gastric cancer cells and in CDH1 mutation carriers. Oncogene (27) , 4255-4260.

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Azevedo M, Eriksson S, Mendes N, Serpa J, Figueiredo C, Resende LP, Ruvoèn-Clouet N, Haas R, Borén T, Le Pendu J, David L. Infection by Helicobacter pylori expressing the BabA adhesin is influenced by the secretor phenotype. J Pathol 215 308-316 (2008)

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Crystallization and preliminary crystallographic analysis of mannosyl-3-phosphoglycerate synthase from
Rubrobacter xylanophilus

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Passos JF Portugal gets ready to embrace ageing research Jun;9(3):209-11. Biogerontology 2008

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Mancio-Silva L, Rojas-Meza AP, Vargas M, Scherf A, Hernandez-Rivas R.
Differential association of Orc1 and Sir2 proteins to telomeric domains in Plasmodium falciparum.
J Cell Sci. 2008 Jun 15;121(Pt 12):2046-53.

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Vale, PF, Stjernman, M, Little, TJ. (2008) Temperature dependent costs of parasitism and maintenance of polymorphism under genotype by environment interactions. Journal of Evolutionary Biology. doi:10.1111/j.1420-9101.2008.01555.x

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Emerson, J.J.*, Cardoso-Moreira, M.*, Borevitz, J. and Long M. Natural selection shapes genome-wide patterns of copy number polymorphism in Drosophila melanogaster. Science. 320, 1629-1631 (2008).
* Equally contributing authors

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Marcos NT, Magalhães A, Ferreira B, Oliveira MJ, Carvalho AS, Mendes N, Gilmartin T, Head SR, Figueiredo C, David L, Santos-Silva F, Reis CA. Helicobacter pylori induces beta3GnT5 in human gastric cell lines, modulating expression of the SabA ligand sialyl-Lewis x. J Clin Invest (2008) Jun;118(6):2325-36.

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Liu J-W, Nagpal J, Sun W, Lee J, Kim M, Ostrow K, Zhou S, Jeronimo C, Henrique R, van Criekinge W, Moon C, Califano J, Trink B, Sidransky D. SSBP2 is frequently hypermethylated and suppresses cell growth in human prostate cancer. Clin Cancer Res 14(12):3754-60, 2008.

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Identification of mating type genes in the bipolar basidiomycetous yeast Rhodosporidium toruloides: first insight into the MAT locus structure of the Sporidiobolales

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B.A. Cardoso, A. Gírio, C. Henriques, L.R. Martins, C. Santos, A. Silva, J.T. Barata (2008). Common Aberrant signaling in T-cell acute lymphoblastic leukemia: biological and therapeutic implications. Brazilian Journal of Medical and Biological Research 41 (5): 344-350.

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Jerónimo C, Monteiro P, Henrique R, Dinis-Ribeiro M, Costa I, Costa VL, Filipe L, Carvalho AL, Hoque MO, Pais I, Leal C, Teixeira MR, Sidransky D. Quantitative hypermethylation of a small panel of genes augments the diagnostic accuracy in fine-needle aspirate washings of breast lesions. Breast Cancer Res Treat 109(1):27-34, 2008.

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Gaspar MM, Cruz A, Fraga AG, Castro AG, Cruz MEM, Pedrosa J. Developments on drug delivery systems for the treatment of mycobacterial infections. Curr. Topics Med. Chem. 2008, 8(7):579-91, Review

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Inactivation of the anterior cingulate cortex blocks expression of remote, but not recent, conditioned taste aversion memory. Ding HK, Teixeira CM, Frankland PW. Learn Mem. 2008 Apr 25;15(5):290-3. Print 2008.

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Blood level of brain-derived neurotrophic factor mRNA is progressively reduced in rodent models of Huntingtons disease: Restoration by the neuroprotective compound CEP-1347.
Conforti P, Ramos C, Apostol BL, Simmons DA, Nguyen HP, Riess O, Thompson LM, Zuccato C, Cattaneo E.
Mol Cell Neurosci. 2008 May 10

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Epiphanio S, Mikolajczak SA, Gonçalves LA, Pamplona A, Portugal S, Albuquerque S, Goldberg M, Rebelo S, Anderson DG, Akinc A, Vornlocher HP, Kappe SH, Soares MP, Mota MM. (2008) Heme oxygenase-1 is an anti-inflammatory host factor that promotes murine plasmodium liver infection. Cell Host Microbe May 15;3(5):331-8

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Santos C., Wanderley H.Y.C., Vedolin L., Pena S.D.J. Jardim L., Sequeiros J. 2008. Huntington disease-like-2 (HDL2): The first patient with apparent European ancestry. Clinical Genetics 73 (5):480}6485

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Hoque MO, Begum S, Brait M, Jeronimo C, Henrique R, Wisman GB, van der Zee AG Sidransky D. Genome-wide promoter analysis uncovers portions of the cancer methylome. Cancer Res 68(8):2661-70, 2008.

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Alves NL, Ester M.M. van Leeuwen, Ingrid A.M. Derks and René A.W. van Lier. Differential regulation of human IL-7 receptor alpha expression by IL-7 and TCR signaling .
J Immunol. 2008 Apr 15;180(8):5201-10

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Sánchez IE, Beltrao P, Stricher F, Schymkowitz J, Ferkinghoff-Borg J, Rousseau F, Serrano L.Genome-wide prediction of SH2 domain targets using structural information and the FoldX algorithm. PLoS Comput Biol. 2008 Apr 4;4(4):e1000052.

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Isalan M, Lemerle C, Michalodimitrakis K, Horn C, Beltrao P, Raineri E, Garriga-Canut M, Serrano L.Evolvability and hierarchy in rewired bacterial gene networks. Nature. 2008 Apr 17;452(7189):840-5.

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CEP-1347 reduces mutant huntingtin-associated neurotoxicity and restores BDNF levels in R6/2 mice.
Apostol BL, Simmons DA, Zuccato C, Illes K, Pallos J, Casale M, Conforti P, Ramos C, Roarke M, Kathuria S, Cattaneo E, Marsh JL, Thompson LM.
Mol Cell Neurosci. 2008 Apr 24

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Panseri S, Cunha C, Lowery J, Del Carro U, Taraballi F, Amadio S, Vescovi A, Gelain F. Electrospun micro- and nanofiber tubes for functional nervous regeneration in sciatic nerve transections. BMC Biotechnology. 2008 Apr 11;8(1):39. doi: 10.1186/1472-6750-8-39

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Paredes J*, Correia AL*, Ribeiro AS, Milanezi F, Cameselle‐Teijeiro J, and Schmitt F. (2008). Breast carcinomas that co‐express E‐ and P‐cadherin are associated with p120‐catenin cytoplasmic localization and poor patient survival. J Clin Pathol, 61: 856‐62.

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Surface alpha 2-3- and alpha 2-6-sialylation of human monocytes and derived dendritic cells and its influence on endocytosis.

Videira PA, Amado IF, Crespo HJ, Algueró MC, Dall'Olio F, Cabral MG, Trindade H.

Several glycoconjugates are involved in the immune response. Sialic acid is frequently the glycan terminal sugar and it may modulate immune interactions. Dendritic cells (DCs) are antigen-presenting cells with high endocytic capacity and a central role in immune regulation. On this basis, DCs derived from monocytes (mo-DC) are utilised in immunotherapy, though many features are ignored and their use is still limited. We analyzed the surface sialylated glycans expressed during human mo-DC generation. This was monitored by lectin binding and analysis of sialyltransferases (ST) at the mRNA level and by specific enzymatic assays. We showed that alpha 2-3-sialylated O-glycans and alpha 2-6- and alpha 2-3-sialylated N-glycans are present in monocytes and their expression increases during mo-DC differentiation. Three main ST genes are committed with this rearrangement: ST6Gal1 is specifically involved in the augmented alpha 2-6-sialylated N-glycans; ST3Gal1 contributes for the alpha2-3-sialylation of O-glycans, particularly T antigens; and ST3Gal4 may contribute for the increased alpha2-3-sialylated N-glycans. Upon mo-DC maturation, ST6Gal1 and ST3Gal4 are downregulated and ST3Gal1 is altered in a stimulus-dependent manner. We also observed that removing surface sialic acid of immature mo-DC by neuraminidase significantly decreased its endocytic capacity, while it increased in monocytes. Our results indicate the STs expression modulates the increased expression of surface sialylated structures during mo-DC generation, which is probably related with changes in cell mechanisms. The ST downregulation after mo-DC maturation probably results in a decreased sialylation or sialylated glycoconjugates involved in the endocytosis, contributing to the downregulation of one or more antigen-uptake mechanisms specific of mo-DC.

Glycoconj J. 2008 Apr;25(3):259-68. Epub 2007 Dec 13.

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Liu JW, Nagpal JK, Jeronimo C, Lee JE, Henrique R, Kim MS, Ostrow KL, Yamashita K, van Criekinge V, Wu G, Moon CS, Trink B, Sidransky D. Hypermethylation of MCAM gene is associated with advanced tumor stage in prostate cancer. Prostate 68(4):418-26, 2008.

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Zheng X-F.*, Linke S.*, Dias J.M*, Zheng X-W., Gradin K., Wallis T.P., Hamilton B.R., Gustafsson M., Ruas J.L., Wilkins S., Bilton R.L., Brismar K., Whitelaw M.L., Pereira T., Gorman J.J., Ericson J., Peet D.J., Lendahl U. and Poellinger L. (2008). Interaction with factor-inhibiting HIF-1 defines an additional mode of cross-coupling between the Notch and hypoxia signaling pathways. Proc. Natl. Acad. Sci. USA, 105(9), 3368-3373.

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de Araujo, I.E.*, Oliveira-Maia, A.J.*, T.D., Gainetdinov, R.R., Caron, M.G., Nicolelis, M.A.L. and Simon, S.A. Food reward in the absence of taste receptor signaling. Neuron 2008 Mar 27;57(6):930-41. (*equally contributing authors)

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Ahmed S, Passos JF, Birket MJ, Beckmann T, Brings S, Peters H, Birch-Machin MA, von Zglinicki T, Saretzki G.
Telomerase does not counteract telomere shortening but protects mitochondrial function under oxidative stress. J Cell Sci. 2008

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Pacheco CC, Passos JF, Castro AR, Moradas-Ferreira P and De Marco P Role of respiration and glutathione in Cd-induced oxidative stress in Escherichia coli K-12 Arch Microbiol. 2008 Mar;189(3):271-8

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Passos JF and von Zglinicki T, Retrograde response, oxidative stress and cellular senescence book chapter on Oxidative stress in aging editors: F. Muller, S. Miwa, K. Beckman, Humana Press (2008)

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Passos JF and Kirkwood TB Biological and physiological aspects of aging Textbook of Geriatric Dentistry editors: Poul Holm-Pedersen, Angus Walls and Jonathan Ship Blackwell publishing

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Simões-Correia J, Mateus AR, Seruca R, Suriano G (2008) Experimental Gastric Cancer. In Management of Gastric Cancer: Recent Advances, Degiuli M (ed), Part II: Molecular Biology and Genetics, pp 37-44. Turin: Edizioni Minerva Medica

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Costa NR, Mendes N, Marcos NT, Reis CA, Caffrey T, Hollingsworth MA, Santos-Silva F. Relevance of MUC1 mucin variable number of tandem repeats polymorphism in H pylori adhesion to gastric epithelial cells. World J Gastroenterol (2008) Mar 7;14(9):1411-4.

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Goder V, Carvalho P, Rapoport TA.
The ER-associated degradation component Der1p and its homolog Dfm1p are contained in complexes with distinct cofactors of the ATPase Cdc48p. FEBS Lett; 2008: 582 (11) 1575 - 1580

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Silva J, Smith A. Capturing pluripotency. Cell, 2008 February 22; 132(4):532-6.

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Pires de Miranda, M., Alenquer M., Marques, S., Rodrigues, L., Lopes, Bustelo, X.R., Simas, J.P. (2008) The gammaherpesvirus M2 protein manipulates the Fyn/Vav pathway through a multidocking mechanism of assembly. PLoS ONE 3(2): e1654 doi:10.1371/journal.pone.0001654.

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Comparative analysis of genetic modifiers in Drosophila points to common and distinct mechanisms of pathogenesis among polyglutamine diseases

Joana Branco1,2, Ismael Al-Ramahi1, Lubna Ukani1, Alma M. Pérez1, Pedro Fernandez-Funez1, Diego Rincón-Limas1, and Juan Botas1,*

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Saretzki G, Walter T, Atkinson S, Passos JF, Bareth B, Keith WN, Stewart R, Hoare S, Stojkovic M, Armstrong L, von Zglinicki T, Lako M Downregulation of multiple stress defense mechanisms during differentiation of human embryonic stem cells.Stem Cells. 2008 Feb;26(2):455-64

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Ksiazek K, Passos JF, Olijslagers S and T von Zglinicki. Mitochondrial dysfunction is a possible cause of accelerated senescence of mesothelial cells exposed to high glucose. Biochem Biophys Res Commun.2008 Feb 15;366(3):793-9

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Vale, PF, Salvaudon, L, Kaltz, O, Fellous, S (2008) The role of the environment in the evolutionary ecology of host-parasite interactions. Infection, Genetics and Evolution 8(3):302-305.

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Pereira-Santos MC, Baptista AP, Melo A, Alves RR, Soares RS, Pedro E, Pereira-Barbosa M, Victorino RM, Sousa AE. Expansion of circulating Foxp3+CD25bright CD4+ T cells during specific venom immunotherapy. Clin Exp Allergy. 2008 Feb;38(2):291-7.

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Carvalho AL, Jeronimo C, Kim MM, Henrique R, Zhang Z, Hoque MO, Chang S, Brait M, Nayak CS, Jiang WW, Claybourne Q, Tokumaru Y, Lee J, Goldenberg D, Garrett-Mayer E, Goodman S, Moon CS, Koch W, Westra WH, Sidransky D, Califano JA. Evaluation of promoter hypermethylation detection in body fluids as a screening/diagnosis tool for head and neck squamous cell carcinoma. Clin Cancer Res 14(1):97-107, 2008.

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Public T cell receptor beta-chains are not advantaged during positive selection.

Furmanski AL, Ferreira C, Bartok I, Dimakou S, Rice J, Stevenson FK, Millrain MM, Simpson E, Dyson J.

J Immunol. 2008 Jan 15;180(2):1029-39.

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Santos MM, Reis-Henriques MA, Guillot R, Lima D, Franco-Duarte R, Mendes I, Queirós S, Castro LF. (2008). Anti-androgenic effects of sewage treatment plant effluents in the prosobranch gastropod Nucella lapillus. Comp Biochem Physiol C Toxicol Pharmacol., 148, 87-93.

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S. Corte-Real , L.Fonseca and J. Gonçalves.
KSHV latency in transformed B- cells: The role of LANA1 as a therapeutic target.
Virology: Research and Treatment 2008:1; Review 1-6

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K. Silva, MN Vieira, V.C. Almada & N.M. Monteiro, 2008. Can the limited marsupium space be a limiting factor for Syngnathus abaster females? Insights from a population with size assortative mating. Journal of Animal Ecology, 77: 390-394.

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Manuel Lima-Rodrigues, Ana Valle-Fernandes, Nuno Lamas, Andrea Cruz, Fátima Baltazar, Fernanda Milanezi, Rui Nunes, Rui M Reis, António G Castro, Armando Almeida. A New Model of Laryngitis: neuropeptide, COX and cytokine profile. The Laryngoscope, 118 (1) 78-86

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M. M. Gaspar, A. Cruz, A.F. Penha, J. Reymão, A. C. Sousa, C. V. Eleutério, S. A. Domingues, A. G. Fraga, A. Longatto Filho, M. E. M.Cruz, J. Pedrosa. Rifabutin encapsulated in liposomes exhibits increased therapeutic activity in a model of disseminated tuberculosis. International Journal of Antimicrobial Agents, 1:37-45

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Rita S. Patarrão, W. Wayne Lautt, Maria P. Guarino, Ricardo A. Afonso, Rogério T. Ribeiro, Ana B. Fernandes, José M. Boavida and M. Paula Macedo, Meal-induced insulin sensitisation and its parasympathetic regulation in humans. Can J Physiol Pharmacol, 86: 880-888 (2008).

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Jacinto FV, Ballestar E, Esteller M.
Methyl-DNA immunoprecipitation (MeDIP): hunting down the DNA methylome.Biotechniques. 2008 Jan;44(1):35, 37, 39

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Prudêncio M, Rodrigues CD, Ataíde R, Mota MM.
Dissecting in vitro host cell infection by Plasmodium sporozoites using flow cytometry.
Cell Microbiol. 2008 Jan;10(1):218-24. Epub 2007 Aug 14.
PMID: 17697130 [PubMed - indexed for MEDLINE]

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Nunes RJ, Castro MAA, Gonçalves C, Bamberger M, Pereira CF, Bismuth G, Carmo AM (2008) Protein interactions between CD2 and Lck are required for the lipid raft distribution of CD2. J. Immunol. 180:988-997.

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Carneiro F, Oliveira C, Suriano G, Seruca R: Molecular pathology of familial gastric cancer, with an emphasis on Hereditary Diffuse Gastric Cancer (HDGC).

J Clin Pathol 61:25-30, 2008. DOI:10.1136jcp.2006.043679.

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“Dissecting in vitro host cell infection by Plasmodium sporozoites using flow cytometry”. Prudencio M, Rodrigues CD, Ataide R, Mota MM. Cellular microbiology. 2008 Jan;10(1):218-24).

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Nunes RJ, Castro MAA, Gonçalves CM, Bamberger M, Pereira CF, Bismuth G, Carmo AM (2008) Protein interactions between CD2 and Lck are required for the lipid raft distribution of CD2. J. Immunol. 180:988-997.

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dAtaxin-2 Mediates Expanded Ataxin-1-Induced Neurodegeneration in a Drosophila Model of SCA1

Ismael Al-Ramahi 1 ,2, Alma M. Pérez 1 , Janghoo Lim 1 , Minghang Zhang 1 , Rie Sorensen 1 , Maria de Haro 1 , Joana Branco 1 , Stefan M. Pulst 3 , Huda Y. Zoghbi 1 ,4,5, Juan Botas 1 *

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Jacinto FV, Ballestar E, Ropero S, Esteller M.
Discovery of epigenetically silenced genes by methylated DNA immunoprecipitation in colon cancer cells.Cancer Res. 2007 Dec 15;67(24):11481-6.

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Little, TJ, Birch, J, Vale, P and Tseng, M (2007) Parasite transgenerational effects on infection. Evolutionary Ecology Research 9(3):459-469.

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The thymus as a target for mycobacterial infections
C. Nobrega, P.-J. Cardona, S. Roquea, P. Pinto do Ó, R. Appelberg, M. Correia-Neves
Microbes and Infection, 2007, 9 (14-15): 1521

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Chambers I, Silva J, Colby D, Nichols J, Robertson M, Nijmeijer B, Vrana J, Grotewold L, Smith A. Nanog safeguards pluripotency and mediates germline development. Nature. 2007 Dec 20;450(7173):1230-4.

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Human uroporphyrinogen III synthase: NMR-based mapping of the active site

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Alves PM, Viatte S, Fagerberg T, Michielin O, Bricard G, Bouzourene H, Vuilleumier H, Kruger T, Givel JC, Levy F, Speiser DE, Cerottini JC, Romero P.
Immunogenicity of the carcinoembryonic antigen derived peptide 694 in HLA-A2 healthy donors and colorectal carcinoma patients.
Cancer Immunol Immunother. 2007 Nov;56(11):1795-805

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Castro LF, Lima D, Machado A, Melo C, Hiromori Y, Nishikawa J, Nakanishi T, Reis-Henriques MA, Santos MM. (2007). Imposex induction is mediated through the Retinoid X Receptor signalling pathway in the neogastropod Nucella lapillus.
Aquatic Toxicology, 85, 57-66.

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Castro LF, Melo C, Guillot R, Mendes I, Queirós S, Lima D, Reis-Henriques MA, Santos MM.(2007). The estrogen receptor of the gastropod Nucella lapillus: modulation following exposure to an estrogenic effluent? Aquatic Toxicology, 84, 465-468.

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Broderick P, Carvajal-Carmona L, Pittman AM, Webb E, Howarth K, Rowan A, Lubbe S, Spain S, Sullivan K, Fielding S, Jaeger E, Vijayakrishnan J, Kemp Z, Gorman M, Chandler I, Papaemmanuil E, Penegar S, Wood W, Sellick G, Qureshi M, Teixeira A, Domingo E, Barclay E, Martin L, Sieber O; CORGI Consortium, Kerr D, Gray R, Peto J, Cazier JB, Tomlinson I, Houlston RS. (2007) A genome-wide association study shows that common alleles of SMAD7 influence colorectal cancer risk. Nat Genet 39(11):1315-7

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Oliveira-Maia, A.J., Simon, S.A. and Nicolelis, M.A.L. Neural ensemble recordings from central gustatory-reward pathways in awake and behaving animals. In: Methods for Neural Ensemble Recordings, 2cond Edition; Nicolelis, M.A.L., editor. CRC Press, Boca Raton, USA

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Passos JF, Saretzki G, von Zglinicki T. DNA damage in telomeres and mitochondria during cellular senescence: is there a connection? Nucleic Acids Res. 2007;35(22):7505-13.

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Ring1-mediated ubiquitination of H2A restrains poised RNA polymerase II at bivalent genes in mouse ES cells

Julie K. Stock, Sara Giadrossi, Miguel Casanova, Emily Brookes, Miguel Vidal, Haruhiko Koseki, Neil Brockdorff, Amanda G. Fisher & Ana Pombo

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Pires, S.S., Shand, J., Bellingham, J., Arrese, C., Turton, M., Peirson, S., Foster, R.G., and Halford, S. 2007. Isolation and characterization of melanopsin (Opn4) from the Australian marsupial Sminthopsis crassicaudata (fat-tailed dunnart). Proc Biol Sci 274(1627): 2791-2799.

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Corso G, Roviello F, Paredes J, Pedrazzani C, Novais M, Correia J, Marrelli D, Cirnes L, Seruca R, Oliveira C, Suriano G (2007) Characterization of the P373L E-cadherin germline missense mutation and implication for clinical management. Eur J Surg Oncol 33(9): 1061-1067

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Douradinha B, van Dijk MR, Ataide R, van Gemert GJ, Thompson J, Franetich JF, Mazier D, Luty AJ, Sauerwein R, Janse CJ, Waters AP, Mota MM.
Genetically attenuated P36p-deficient Plasmodium berghei sporozoites confer long-lasting and partial cross-species protection.
Int J Parasitol. 2007 Nov;37(13):1511-9. Epub 2007 May 21.
PMID: 17604034 [PubMed - indexed for MEDLINE]

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Paredes J*, Correia AL*, Ribeiro AS, and Schmitt F. (2007). Expression of p120‐catenin isoforms correlates with genomic and transcriptional phenotype of breast cancer cell lines. Cellular Oncology, 29: 467‐76.

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Gomes-Neves E, Araújo AC, Ramos E, Cardoso CS. 2007. Food handling: comparative analysis of general knowledge and practice in three relevant groups in Portugal. Food control 18:707-712.

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Vieira J, Cardoso CS, Pinto J, Patil K, Brazdil P, Cruz E, Mascarenhas C, Lacerda R, Gartner A, Almeida S, Alves H, Porto G. 2007. A putative gene located at the MHC-class Ii region around the D6S105 marker contributes to the setting of CD8+ T lymphocyte numbers in humans. International Journal of Immunogenetics. 34:359-367.

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Henrique R, Ribeiro FR, Fonseca D, Hoque MO, Carvalho AL , Costa VL, Pinto M, Oliveira J, Teixeira MR, Sidransky D, Jerónimo C. High Promoter methylation levels of APC predict poor prognosis in sextant biopsies from prostate cancer patients. Clin Cancer Res 13:6122 -6129, 2007.

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Pires de Miranda, M. , Carmo Gomes, M., Rebelo de Andrade, H. (2007) Seroprevalence of antibodies to poliovirus in individuals living in Portugal, 2002. EuroSurveillance;12 (6) 12(6)

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Greshock J, Feng B, Nogueira C, Ivanova E, Perna I, Nathanson K, Protopopov A, Weber BL, Chin L. A comparison of DNA copy number profiling platforms. Cancer Res. 2007 Nov 1;67(21):10173-80.

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Filipa Gonçalves, L.Filipe C. Castro, Cristina Pereira-Wilson, João Coimbra and Jonathan Mark Wilson (2007). Is there a compromise between nutrient uptake and gas exchange in the gut of Misgurnus anguillicaudatus, an intestinal air-breathing fish? Comparative Biochemistry and Physiology D, 2, 345-355.

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Raquel M. Silva, et al. (2007). Critical roles for a genetic code alteration in the evolution of the genus Candida. EMBO J. 26(21): 4555-65.

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Ana C. Gomes, Isabel Miranda, Raquel M. Silva, Gabriela R. Moura, Benjamin Thomas, Alexandre Akoulitchev and Manuel A. S. Santos (2007). A Genetic Code Alteration Generates a Proteome of High Diversity in the Human Pathogen Candida albicans. Genome Biol. 8(10): R206.

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Antunes-Martins A, Mizuno K, Irvine EE, Lepicard EM, Giese KP, Sex-dependent up-regulation of two splicing factors, Psf and Srp20, during hippocampal memory formation, Learn Mem. 2007 Oct 1;14(10):693-702.

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Ksiazek K, Passos JF, Olijslagers S, Saretzki G, Martin-Ruiz C and von Zglinicki T. Premature senescence of mesothelial cells is associated with non-telomeric DNA damage. Biochem Biophys Res Commun. 2007 Oct 26;362(3):707-11

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Santos M, Nogueira-Silva C, Baptista MJ, Soares-Fernandes J, Moura RS, Correia-Pinto J. }3Pulmonary epithelial cell differentiation in the nitrofen-induced Congenital Diaphragmatic Hernia}4 J Pediatr Surg 2007 42:1231-1237.

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Santos M, Moura RS, Nogueira-Silva C, Ohlmeier S, Correia-Pinto J. }3Embryonic essential myosin light chain regulates fetal lung development in rats}4 Am J Respir Cell Mol Biol 2007 37: 330-338.

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Galao RP, Scheller N, Alves-Rodrigues I, Breinig T, Meyerhans A, Díez J.

Saccharomyces cerevisiae: a versatile eukaryotic system in virology

Microb Cell Fact. 2007 Oct 10;6:32.

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Paredes J, Correia AL, Ribeiro AS, Albergaria A, Milanezi F, and Schmitt F. (2007). P‐cadherin expression in breast cancer: a review. Breast Cancer Res, 9: 214‐26.

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Hendriksen, W. T., Silva, N., Bootsma, H. J. & other authors (2007). Regulation of gene expression in Streptococcus pneumoniae by response regulator 09 is strain dependent. J Bacteriol 189, 1382-1389.

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Passos JF, von Zglinicki T, Kirkwood TB. Mitochondria and ageing: winning and losing in the numbers game Bioessays. 2007 Sep;29(9):908-17

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Soleimanpour-Lichaei HR, Kühl I, Gaisne M, Passos JF, Wydro M, Rorbach J, Temperley R, Bonnefoy N, Tate W, Lightowlers R, Chrzanowska-Lightowlers Z.The newly identified protein mtRF1a, is a human mitochondrial translation release factor, decoding the major termination codons UAA and UAG Molecular Cell 2007 27(5):745-57.

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S.C. Santos, I. Vala, C. Miguel, J.T. Barata, P. Garcao, P. Agostinho, M. Mendes, A.V. Coelho, A. Calado, C.R. Oliveira, J. Martins E Silva, C. Saldanha (2007). Expression and subcellular localization of a novel nuclear acetylcholinesterase protein. Journal of Biological Chemistry 282(35):25597-25603.

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Freitas R., Zhang G.J. & Cohn M.J. 2007. Biphasic Hoxd gene expression in shark paired fins reveals an ancient origin of the distal limb domain. Plos One. Aug 15;2(1):e754.

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Andrea Cruz, Shabaana A. Khader, Egidio Torrado, Alexandra Fraga, John E. Pearl, Jorge Pedrosa, Andrea M. Cooper, António G. Castro. IFN- regulates the induction and expansion of IL-17-producing CD4 T cells during mycobacterial infection. Cutting Edge. Journal of Immunology, 177:1416-1420.

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Phosphorylated FTY720 promotes astrocyte migration through sphingosine-1-phosphate receptors

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Jacinto FV, Esteller M.
MGMT hypermethylation: a prognostic foe, a predictive friend.DNA Repair (Amst). 2007 Aug 1;6(8):1155-60. Epub 2007 May 7. Review

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Rodrigues A.J., Coppola G., Santos C., Costa M.C., Ailion M., Sequeiros J., Geschwind D.H., and Maciel P. 2007. Functional genomics and biochemical characterization of the C. elegans orthologue of the Machado-Joseph disease protein ataxin-3. FASEBJ. 21(4):1126-36.

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Ribeiro FR, Henrique R, Martins AT, Jerónimo C, Teixeira MR. Relative copy number gain of MYC in diagnostic needle biopsies is an independent prognostic factor in prostate cancer patients. Eur Urol 52(1):116-25, 2007.

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Costa VL, Henrique R, Ribeiro FR, Pinto M, Oliveira J, Lobo F, Teixeira MR, Jerónimo C. Quantitative promoter methylation analysis of multiple cancer-related genes in renal cell tumors. BMC Cancer 7:133, 2007.

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Alves PM, Levy N, Bouzourene H, Viatte S, Bricard G, Ayyoub M, Vuilleumier H, Givel JC, Halkic N, Speiser DE, Romero P, Levy F.
Molecular and immunological evaluation of the expression of cancer/testis gene products in human colorectal cancer.
Cancer Immunol Immunother. 2007 Jun;56(6):839-47

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Costa Y and Cooke HJ. (2007). Genetic approaches to mammalian synaptonemal complex structure and function. Chromosome Research. 15(5):579-589.

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Alves NL, van Leeuwen EM, Remmerswaal EB, Vrisekoop N, Tesselaar K, Roosnek E, Ten Berge IJ, van Lier RA.
A New Subset of Human Naive CD8+ T Cells Defined by Low Expression of IL-7R{alpha}.
J Immunol. 2007 Jul 1;179(1):221-8.

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Jacinto FV, Esteller M.
Mutator pathways unleashed by epigenetic silencing in human cancer.Mutagenesis. 2007 Jul;22(4):247-53. Epub 2007 Apr 4. Review.

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Pinho SS, Matos AJF, Lopes C, Marcos NT, Carvalheira J, Reis CA, Gärtner F. Sialyl Lewis x expression in canine malignant mammary tumours: correlation with clinicopathological features and E-Cadherin expression. BMC Cancer (2007) Jul 6; 7:124

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Maser RS, Choudhury B, Campbell PJ, Feng B, Wong KK, Protopopov A, O%27Neil J, Gutierrez A, Ivanova E, Perna I, Lin E, Mani V, Jiang S, McNamara K, Zaghlul S, Edkins S, Stevens C, Brennan C, Martin ES, Wiedemeyer R, Kabbarah O, Nogueira C, Histen G, Aster J, Mansour M, Duke V, Foroni L, Fielding AK, Goldstone AH, Rowe JM, Wang YA, Look AT, Stratton MR, Chin L, Futreal PA, DePinho RA. Chromosomally unstable mouse tumours have genomic alterations similar to diverse human cancers. Nature. 2007 Jun 21;447(7147):966-71.

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Major histocompatibility complex class I-ERp57-tapasin interactions within the peptide-loading complex. (2007)
Santos SG, Campbell EC, Lynch S, Wong V, Antoniou AN, Powis SJ
J Biol Chem, 282:17587-93

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ERp57 interacts with conserved cysteine residues in the MHC class I peptide-binding groove.
Antoniou AN, Santos SG, Campbell EC, Lynch S, Arosa FA, Powis SJ.
FEBS Lett, 581:1988-92

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Passos JF, Saretzki G, Ahmed S, Nelson G, Richter T, Peters H, Wappler I, Birket MJ, Harold G, Schaeuble K, Birch-Machin MA, Kirkwood TB, von Zglinicki T.
Mitochondrial dysfunction accounts for the stochastic heterogeneity in telomere-dependent senescence.
PLoS Biol. 2007 May;5(5):e110.

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Kiel C, Foglierini M, Kuemmerer N, Beltrao P, Serrano L. A genome-wide Ras-effector interaction network. J Mol Biol. 2007 Jul 27;370(5):1020-32. Epub 2007 May 22.

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Beltrao P, Kiel C, Serrano L.Structures in systems biology. Curr Opin Struct Biol. 2007 Jun;17(3):378-84. Epub 2007 Jun 15

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Imaging activation of adult-generated granule cells in spatial memory. Kee N*, Teixeira CM*, Wang AH, Frankland PW. Nat Protoc. 2007;2(12):3033-44.

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Preferential incorporation of adult-generated granule cells into spatial memory networks in the dentate gyrus. Kee N*, Teixeira CM*, Wang AH, Frankland PW. Nat Neurosci. 2007 Mar;10(3):355-62. Epub 2007 Feb 4.

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Pinho S, Marcos NT, Ferreira B, Carvalho AS, Oliveira MJ, Santos-Silva F, Harduin-Lepers A, Reis CA. Biological significance of cancer-associated sialyl-Tn antigen: modulation of malignant phenotype in gastric carcinoma cells. Cancer Lett. 2007 May 8;249(2):157-70. Epub 2006 Sep 11.

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Kearney A, Avramovic A, Castro MAA, Carmo AM, Davis SJ, van der Merwe PA (2007) CD2 binding to CD58 is accompanied by energetically significant conformational adjustments and is accelerated by electrostatic interactions. J. Biol. Chem. 282:13160-13166.

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- “Genetically Attenuated p36p-deficient Plasmodium berghei sporozoites confer long-lasting protection and partial cross-species immunity” Bruno Douradinha; Melissa R. van Dijk; Ricardo Ataíde; Geert-Jan van Gemert ; Joanne Thompson; Dominique Mazier; Robert Sauerwein; Chris J. Jansen; Andrew P. Waters; Maria M. Mota. Int J Parasitol. 2007 May 21;[Epub ahead of print]; PMID: 17604034

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Pinto M, Soares MJ, Cerveira N, Henrique R, Ribeiro FR, Oliveira J, Jerónimo C, Teixeira MR. Expression changes of the MAD mitotic checkpoint gene family in renal cell carcinomas characterized by numerical chromosome changes. Virchows Arch 450(4):379-85, 2007.

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Alves-Rodrigues I, Mas A, Díez J.

Xenopus Xp54 and human RCK/p54 helicases functionally replace yeast Dhh1p in brome mosaic virus RNA replication.

J Virol. 2007 Apr;81(8):4378-80. Epub 2007 Feb 14.

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IL-10 Underlies Distinct Susceptibility of BALB/c and C57BL/6 Mice to Mycobacterium avium Infection and Influences Efficacy of Antibiotic Therapy
S. Roque, C. Nobrega, R. Appelberg, M. Correia-Neves
The Journal of Immunology, 2007, 178: 8028

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Rodrigues T, Carvalho A, Carmo M, Carrondo MJ, Alves PM, Cruz PE. Scaleable purification process for gene therapy retroviral vectors. J Gene Med. 2007 Apr;9(4):233-43.

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Castro MAA, Oliveira MI, Nunes RJ, Fabre S, Peixoto A, Brown MH, Parnes JR, Bismuth G, Moreira A, Rocha B, Carmo AM (2007) Extracellular isoforms of CD6 generated by alternative splicing regulate targeting of CD6 to the immunological synapse. J. Immunol. 178:4351-4361.

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Castro MAA, Oliveira MI, Nunes RJ, Fabre S, Barbosa R, Peixoto A, Brown MH, Parnes JR, Bismuth G, Moreira A, Rocha B, Carmo AM (2007) Extracellular isoforms of CD6 generated by alternative splicing regulate targeting of CD6 to the immunological synapse. J. Immunol. 178:4351-4361.

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Peixoto, A., Evaristo, C., Munitic, I., Monteiro, M., Charbit, A., Rocha, B. and Veiga-Fernandes, H. (2007). CD8 single-cell co-expression reveals three different effector types present at distinct phases of the immune response. J. Exp. Med. 204, 1193-205.

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Veiga-Fernandes, H., Coles, M.C., Foster, K.E., Patel, A., Williams, A., Natarajan, D., Barlow, A., Pachnis, V. and Kioussis, D. (2007). Tyrosine kinase receptor RET is a key regulator in Peyer?s Patch organogenesis. Nature 446, 547-51.

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Open conformers: the hidden face of MHC-I molecules.
Arosa FA, Santos SG, Powis SJ.
Trends Immunol, 28:115-23

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Passos JF, von Zglinicki T.Methods for cell sorting of young and senescent cells.Methods Mol Biol. 2007;371:33-44

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Passos JF, Nelson G and von Zglinicki T, Telomeres, Senescence, Oxidative stress and heterogeneity book chapter on Telomeres and telomerase in ageing, disease, and cancer editor: KL Rudolph, Springer (2007)

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Michel Perrot, Anne-Laure Guiyesse-Peugeot, Aurélie Massoni, Christelle Espagne, Stéphane Claverol, Raquel M. Silva, Paul Jenö, Manuel A. S. Santos, Marc Bonneu and Hélian Boucherie (2007). Yeast proteome map (update 2006). Proteomics 7(7): 1117.

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Bolcun-Filas E*, Costa Y*, Speed RM, Taggart M, Benavente R, de Rooij DG and Cooke HJ. (2007). SYCE2 is required for synaptonemal complex assembly, double strand break repair and homologous recombination. Journal of Cell Biology. 176(6):741-747. (*co-authorship)

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V. C. Almada, V. S. Domingues, N. M. Monteiro, F. Almada, R. S. Santos, 2007. Molecular data confirm the validity of the Portuguese blenny (Parablennius ruber, Valenciennes, 1836) and its presence in Western Europe. Journal of Fish Biology, 70(B):248-254.

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K. Silva, MN Vieira, V.C. Almada & N.M. Monteiro, 2007. The effect of temperature on mate preferences and female-female interactions in the sex role reversed pipefish, Syngnathus abaster (Pisces; Syngnathidae). Animal Behaviour, 74: 1525-1533.

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Ricardo A. Afonso, Rogério T. Ribeiro, Ana B. Fernandes, Rita S. Patarrão and M. Paula Macedo. Hepatic-dependent and independent insulin action are impaired in the obese Zucker rat model. Obesity, 15: 314-321 (2007).

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Rita S. Patarrão, W. Wayne Lautt, Maria P. Guarino, Ricardo A. Afonso, Rogério T. Ribeiro, Ana B. Fernandes, José M. Boavida and M. Paula Macedo, A new technique to assess insulin sensitivity in humans: the rapid insulin sensitivity test (RIST). Proc West Pharmacol Soc, 50: 105-109 (2007).

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Dissecting the Genetic History of São Tomé e Príncipe: A New Window from Y-Chromosome Biallelic Markers

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Alexandrino, P., Faria, R., Linhares, D., Castro, L.F.C., Le Corre, M., Sabatié, R., Baglinière, J.L., and Weiss, S. (2006). Genetic differentiation and structuring of two closely related clupeid species with extensive hybridization, Alosa alosa and Alosa fallax. Journal Fish Biology, 69 (Supplement B), 242}6259.

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Passos JF, Von Zglinicki T Oxygen free radicals in cell senescence: are they signal transducers? Free Radic Res. 2006 Dec;40(12):1277-83

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The ultrastructure of the kinetochore and kinetochore fiber in Drosophila somatic cells. Maiato H, Hergert PJ, Moutinho-Pereira S, Dong Y, Vandenbeldt KJ, Rieder CL, McEwen BF. Chromosoma. 2006 Dec;115(6):469-80. Epub 2006 Aug 15.Click here to read

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James JR, Oliveira MI, Carmo AM, Iaboni A, Davis SJ (2006) A rigorous experimental framework for detecting protein oligomerization using bioluminescence resonance energy transfer. Nat. Methods 3:1001-1006.

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Henrique R, Costa VL, Cerveira N, Carvalho AL, Hoque MO, Ribeiro FR, Oliveira J, Teixeira MR, Sidransky D, Jerónimo C. Hypermethylation of Cyclin D2 is associated with loss of expression and tumor progression in prostate cancer. J Mol Med 84:911-918, 2006.

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Almeida AR, Zaragoza B, Freitas AA.
Competition controls the rate of transition between the peripheral pools of CD4+CD25- and CD4+CD25+ T cells.
Int Immunol. 2006 Nov;18(11):1607-13. Epub 2006 Sep 20.

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In vivo requirement of the small subunit of U2AF for recognition of a weak splice site

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Cardoso CS, Araújo HC, Cruz E, Afonso A, Mascarenhas C, Almeida S, Moutinho J, Lopes C, Medeiros R. 2006. Haemochromatosis gene (HFE) mutations in viral-associated neoplasia: Linkage to cervical cancer. Biochem Biophys Res Commun. 341:232-8.

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Cruz E, Vieira J, Almeida S, Lacerda R, Gartner A, Cardoso CS, Alves H, Porto G. 2006. A study of 82 extended HLA haplotypes in HFE-C282Y homozygous hemochromatosis subjects: relationship to the genetic control of CD8+ T-lymphocyte numbers and severity of iron overload. BMC Med Genet. 7:16 [Epub ahead of print].

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Cerveira N, Ribeiro FR, Peixoto A, Costa VL, Henrique R, Jerónimo C, Teixeira MR. TMPRSS2-ERG gene fusion causing ERG overexpression precedes chromosome copy number changes in prostate carcinomas and paired HGPIN lesions. Neoplasia 8:826-832, 2006.

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Rodrigues, L., Pires de Miranda, M. , Caloca, M.J., Bustelo, X.R., Simas, J.P. (2006) Activation of Vav by the gammaherpesvirus M2 protein contributes to the establishment of viral latency in B lymphocytes. Journal of Virology, 80:6123-6136.

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Monteiro A.S. and Ferrier D.E.K. (2006). Hox genes are not always Colinear. International Journal of Biological Sciences 2(3):95-103. (Review)

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Monteiro A.S., Schierwater B, Dellaporta SL and Holland P.W. H. (2006). A low diversity of ANTP class homeobox genes in Placozoa. Evolution and Development 8(2):174-82.

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Freitas R. & Cohn M.J. 2006. Genomic regulation of Hox collinearity. Developmental Cell. Review. 10(1):8-9.

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Freitas R., Albert J.S., Evans D.H. & Cohn M.J. 2006. Developmental origin of shark electrosensory organs. Evolution & Development. 8:1, 74?80.

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Santos M, Bastos P, Gonzaga S, Roriz JM, Baptista MJ, Nogueira-Silva C, Melo-Rocha G, Henriques-Coelho T, Roncon-Albuquerque R, Leite-Moreira A, de Krijger R, Tibboel D, Rottier R, Correia-Pinto J. }3Ghrelin expression in human and rat fetal lungs and the effect of ghrelin administration in nitrofen induced congenital diaphragmatic hernia}4 Ped Res 2006 59: 531-537.

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Baptista MJ, Recamán M, Melo-Rocha G, Nogueira-Silva C, Roriz JM, Fernandes JS, Gonzaga S, Santos M, Leite-Moreira AF, Areias JC, Correia-Pinto J. }3Myocardium expression of Connexin 43, SERCA2a and myosin heavy chains isoforms are preserved in nitrofen-induced CDH rat model}4 J Pediatr Surg 2006 41:1532-1538.

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Nogueira-Silva C, Santos M, Baptista MJ, Moura RS, Correia-Pinto J. }3IL-6 is constitutively expressed during lung morphogenesis and enhances fetal lung explant branching}4 Ped Res 2006 60: 530-536.

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Carneiro F, Chaves P: Pathologic risk factors for therapy for adenocarcinoma of the gastric cardia and gastroesophageal junction.

Surg Oncol Clin North Am 15(4): 697-714, 2006. DOI: 10.1016j.soc.2006.07.012

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Y-chromosome genetic variation in Rio De Janeiro population

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J.T. Barata*, A. Silva, M. Abecasis, N. Carlesso, A. Cumano, A.A. Cardoso (2006). Molecular and Functional Evidence for Activity of Murine IL-7 on Human Lymphocytes. Experimental Hematology 34 (9): 1132-1141. *corresponding author

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Hoque MO, Feng Q, Toure P, Dem A, Critchlow CW, Hawes SE, Wood T, Jerónimo C, Rosenbaum E, Stern J, Yu M, Trink B, Kiviat NB, Sidransky D. Detection of Aberrant Methylation of Four Genes in Plasma DNA for the Detection of Breast Cancer. J Clin Oncol 24: 24(26): 4262-9, 2006.

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Gupta ML Jr, Carvalho P, Roof DM, Pellman D. Plus end-specific depolymerase activity of Kip3, a kinesin-8 protein, explains its role in positioning the yeast mitotic spindle.
Nat Cell Biol. 2006 Sep;8(9):913-23.

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Silva, N. A., McCluskey, J., Jefferies, J. M., Hinds, J., Smith, A., Clarke, S. C., Mitchell, T. J. & Paterson, G. K. (2006). Genomic diversity between strains of the same serotype and multilocus sequence type among pneumococcal clinical isolates. Infect Immun 74, 3513-3518.

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CHIP Protects from the Neurotoxicity of Expanded and Wild-type Ataxin-1 and Promotes Their Ubiquitination and Degradation*Formula

Ismael Al-Ramahi, Yung C. Lam¶, Hung-Kai Chen, Beatrice de Gouyon, Minghang Zhang, Alma M. Pérez, Joana Branco1, Maria de Haro§, Cam Patterson||, Huda Y. Zoghbi¶**2, and Juan Botas3

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Alves-Rodrigues I, Galão RP, Meyerhans A, Díez J.

Saccharomyces cerevisiae: a useful model host to study fundamental biology of viral replication.
Virus Res. 2006 Sep;120(1-2):49-56. Epub 2006 May 15. Review.
PMID: 16698107 [PubMed - indexed for MEDLINE]

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Pinho S*, Marcos NT*, Ferreira B, Carvalho AS, Oliveira MJ, Silva F, Almeida R, Harduin-Lepers A, Reis CA. Biological significance of cancer-associated Sialyl-Tn antigen: modulation of malignant phenotype in gastric carcinoma cells. Cancer Lett (2007) May 8; 249(2):157-70. Epub (2006) Sep 11. *Equally contributing authors

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Tena JJ, Neto A, de la Calle-Mustienes E, Bras-Pereira C, Casares F, Gómez-Skarmeta Odd-skipped genes encode repressors that control kidney development, Developmental Biology (2006)

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Evans EJ, Castro MAA, O?Brien R, Kearney A, Walsh H, Sparks LM, Tucknott MG, Davies EA, Carmo AM, van der Merwe PA, Stuart DI, Jones EY, Ladbury JE, Ikemizu S, Davis SJ (2006) Crystal structure and binding properties of the CD2 and CD244 (2B4)-binding protein, CD48. J. Biol. Chem. 281:29309-29320.

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Evans EJ, Castro MAA, O’Brien R, Kearney A, Walsh H, Sparks LM, Tucknott MG, Davies EA, Carmo AM, van der Merwe PA, Stuart DI, Jones EY, Ladbury JE, Ikemizu S, Davis SJ (2006) Crystal structure and binding properties of the CD2 and CD244 (2B4)-binding protein, CD48. J. Biol. Chem. 281:29309-29320.

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TCR-alpha CDR3 loop audition regulates positive selection.

Ferreira C, Furmanski A, Millrain M, Bartok I, Guillaume P, Lees R, Simpson E, MacDonald HR, Dyson J.

J Immunol. 2006 Aug 15;177(4):2477-85.

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Castro, L.F.C., Kaltenbach, S., Holland, P.W.H., Holland N.D., and Holland L.Z. (2006). A Gbx homeobox gene in amphioxus: Insights into ancestry of the ANTP class and evolution of the midbrain/hindbrain boundary. Developmental Biology, 295, 40-51.

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Costa Y, Speed RM, Gautier P, Semple CA, Maratou K, Turner JMA, Cooke HJ. (2006). Mouse Maelstrom - the link betweenmeiotic silencing of unsynapsed chromatin and miRNA pathway? Human Molecular Genetics. 15(15):2324-2334.

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Freitas R., Zhang G.J. & Cohn M.J. 2006. Evidence that the mechanisms of fin development evolved in the midline of early vertebrates. Nature. Aug 31; 442(7106): 1033-1037.

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de Araujo, I.E., Gutierrez, R., Oliveira-Maia, A.J., Pereira Jr, A., Nicolelis, M.A.L. and Simon, S.A. Neural ensemble coding of satiety states. Neuron 51(4): 483-94

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Crozet C, Vézilier J, Delfieu V, Nishimura T, Onodera T, Casanova D, Lehmann S, Béranger F. (2006) The truncated 23-230 form of the prion protein localizes to the nuclei of inducible cell lines independently of its nuclear localization signals and is not cytotoxic. Molecular and Cellular Neuroscience 32: 315-23.

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Leptin effect on RANKL and OPG expression in MC3T3-E1 osteoblasts

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Ribeiro FR, Jerónimo C, Henrique R, Fonseca D, Oliveira J, Lothe RA, Teixeira MR. 8q gain is an independent predictor of poor survival in diagnostic needle biopsies from prostate cancer suspects. Clin Cancer Res 12(13):3961-70, 2006.

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Almeida AR, Zaragoza B, Freitas AA.
Indexation as a novel mechanism of lymphocyte homeostasis: the number of CD4+CD25+ regulatory T cells is indexed to the number of IL-2-producing cells.
J Immunol. 2006 Jul 1;177(1):192-200.

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Viatte S, Alves PM, Romero P.
Reverse immunology approach for the identification of CD8 T-cell-defined antigens: advantages and hurdles.
Immunol Cell Biol. 2006 Jun;84(3):318-30

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MBNL1 and CUGBP1 modify expanded CUG-induced toxicity in a Drosophila model of myotonic dystrophy type 1.

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Carvalho P, Goder V, Rapoport TA. Distinct ubiquitin-ligase complexes define convergent pathways for the degradation of ER proteins. Cell. 2006 Jul 28;126(2):361-73.

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Vicoso B, Charlesworth B (2006) Evolution on the X chromosome: unusual patterns and processes. Nat Rev Genet 7: 645?653.

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Polycomb Repressive Complexes Restrain the Expression of Lineage-Specific Regulators in Embryonic Stem Cells

Helle F. Jørgensen, Sara Giadrossi, Miguel Casanova, Mitsuhiro Endoh, Haruhiko Koseki, Neil Brockdorff and Amanda G. Fisher

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Silva J, Chambers I, Pollard S, Smith A. Nanog promotes transfer of pluripotency after cell fusion. Nature. 2006 Jun 22;441(7096):997-1001. Epub 2006 Jun 14.

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Kim M, Gans JD, Nogueira C, Wang A, Paik JH, Feng B, Brennan C, Hahn WC, Cordon-Cardo C, Wagner SN, Flotte TJ, Duncan LM, Granter SR, Chin L. Comparative oncogenomics identifies NEDD9 as a melanoma metastasis gene. Cell. 2006 Jun 30;125(7):1269-81.

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Alves NL, Derks IA, Berk E, Spijker R, van Lier RA, Eldering E. “The Noxa/Mcl-1 axis regulates susceptibility to apoptosis under glucose limitation in dividing T cells”. Immunity 2006 Jun;24(6):703-16.

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Mizuno K*, Antunes-Martins A*, Ris L, Peters M, Godaux E, Giese KP, Calcium/calmodulin kinase kinase beta has a male-specific role in memory formation, Neuroscience. 2007 Mar 16;145(2):393-402. (*equal contribution)

Lepicard EM, Mizuno K, Antunes-Martins A, von Hertzen LS, Giese KP, An endogenous inhibitor of calcium/calmodulin-dependent kinase II is up-regulated during consolidation of fear memory, Eur J Neurosci. 2006 Jun;23(11):3063-70.

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Suriano G, Ferreira P, Mateus AR, Correia J, Henriques L, Seruca R (2006) Genetics of hereditary diffuse gastric cancer: progress and future challenges. Future Oncol 2(3): 363-370

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Rodrigues T, Carvalho A, Roldão A, Carrondo MJ, Alves PM, Cruz PE.
Screening anion-exchange chromatographic matrices for isolation of onco-retroviral vectors.
J Chromatogr B Analyt Technol Biomed Life Sci. 2006 Jun 6;837(1-2):59-68.
PMID: 16697280 [PubMed - indexed for MEDLINE]

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Goonetilleke N, Moore S, Dally L, Winstone N, Cebere I, Mahmoud A, Pinheiro S, Gillespie G, Brown D, Loach V, Roberts J, Guimaraes-Walker A, Hayes P, Loughran K, Smith C, De Bont J, Verlinde C, Vooijs D, Schmidt C, Boaz M, Gilmour J, Fast P, Dorrell L, Hanke T, McMichael AJ. Induction of multifunctional human immunodeficiency virus type 1 (HIV-1)-specific T cells capable of proliferation in healthy subjects by using a prime-boost regimen of DNA- and modified vaccinia virus Ankara-vectored vaccines expressing HIV-1 Gag coupled to CD8+ T-cell epitopes. Journal of Virology. 2006 May; 80(10):4717-28

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MARCO MIGLIACCIO, PEDRO MS ALVES, PEDRO ROMERO, NATHALIE RUFER. Distinct mechanisms control human naive and antigen-experienced CD8+ T lymphocyte proliferation. J Immunol. 2006; 176: 2173-82.

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Bosenberg M, Muthusamy V, Curley DP, Wang Z, Hobbs C, Nelson B, Nogueira C, Horner JW 2nd, Depinho R, Chin L. Characterization of melanocyte-specific inducible Cre recombinase transgenic mice. Genesis. 2006 May;44(5):262-7.

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Muthusamy V, Hobbs C, Nogueira C, Cordon-Cardo C, McKee PH, Chin L, Bosenberg MW. Amplification of CDK4 and MDM2 in malignant melanoma. Genes Chromosomes Cancer. 2006 May;45(5):447-54.

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Beltrao P, Serrano L.Specificity and evolvability in eukaryotic protein interaction networks. PLoS Comput Biol. 2007 Feb 16;3(2):e25. Epub 2006 Dec 28.

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Involvement of the anterior cingulate cortex in the expression of remote spatial memory. Teixeira CM, Pomedli SR, Maei HR, Kee N, Frankland PW. J Neurosci. 2006 Jul 19;26(29):7555-64.

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Terranova, R., Pereira, C. F., Du Roure, C., Merkenschlager, M., and Fisher, A. G. (2006). Acquisition and extinction of gene expression programs are separable events in heterokaryon reprogramming. J Cell Sci 119, 2065-2072.

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Ferreira B, Marcos NT, David L, Nakayama J, Reis CA. Terminal alpha1,4-linked N-acetylglucosamine in Helicobacter pylori-associated intestinal metaplasia of the human stomach and gastric carcinoma cell lines. J Histochem Cytochem (2006) May; 54(5):585-91

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Morais-de-Sá E., Neto-Silva RM, Pereira PJ, Saraiva MJ and Damas AM (2006) “The binding of 2,4-dinitrophenol to wild-type and amyloidogenic transthyretin” Acta Crystallogr D Biol Crystallogr. 62, 512-519

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Pereira et al,. Mammalian CLASP1 and CLASP2 cooperate to ensure mitotic fidelity by regulating spindle and kinetochore function, Mol Biol Cell (2006).

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Ribas, RC.; Taylor, J.E.; McCorquodale, C.; Maurício, A.C.; Sousa, M.; Wilmut, I. (2006). ?Effect of zona pellucida removal on DNA methylation in early mouse embryos? Biol. Reprod, 74 (2): 307-313.

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Ribas, R.; Oback, B.; Ritchie, W.; Chebotareva, T.; Taylor, J.; Mauricio, A.C.; Sousa, M.; Wilmut, I. (2006). ?Modifications to improve the efficiency of zona-free mouse nuclear transfer.?. Cloning and Stem Cells, 8 (1): 10-15.

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Lack of tyrosine 320 impairs spontaneous endocytosis and enhances release of HLA-B27 molecules. (2006)
Santos SG, Antoniou AN, Sampaio P, Powis SJ, Arosa FA.
J Immunol, 176:2942-9.

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Passos JF, von Zglinicki T, Saretzki G Mitochondrial dysfunction and cell senescence: cause or consequence? Rejuvenation Res. 2006 Spring;9(1):64-8

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Naldinho-Souto, R., H. Browne, and T. Minson. 2006. Herpes simplex virus tegument protein VP16 is a component of primary enveloped virions. J. Virol. 80:2582-2584.

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Chromatin signatures of pluripotent cell lines

Véronique Azuara, Pascale Perry, Stephan Sauer, Mikhail Spivakov, Helle F. Jørgensen, Rosalind M. John, Mina Gouti, Miguel Casanova, Gary Warnes, Matthias Merkenschlager & Amanda G. Fisher

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Isabel Miranda, Raquel Silva and Manuel A. S. Santos (2006). Evolution of the genetic code in yeasts. Yeast 23:203.

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Getliffe KM, Martin-Ruiz C, Passos JF, von Zglinicki T and Nwokolo CU Extended lifespan and long telomeres in rectal fibroblasts from late-onset ulcerative colitis patients. European Journal of Gastroenterology & Hepatology. 18(2):133-141, February 2006

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Frebourg T, Oliveira C, Hochain P, Karam R, Manouvrier S, Graziadio C, Vekemans M, Hartmann A, Baert-Desurmont S, Alexandre C, Lejeune Dumoulin S, Marroni C, Martin C, Castedo S, Lovett M, Winston J, Machado JC, Attie T, Jabs EW, Cai J, Pellerin P, Triboulet JP, Scotte M, Le Pessot F, Hedouin A, Carneiro F, Blayau M, Seruca R. Cleft lip/palate and CDH1/E-cadherin mutations in families with hereditary diffuse gastric cancer. J Med Genet. 2006;43: 138-142

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Henrique R*, Jerónimo C*, Teixeira MR, Hoque MO, Carvalho AL, Pais I, Ribeiro FR, Oliveira J, Lopes C, Sidransky D. Epigenetic heterogeneity of high-grade prostatic intraepithelial neoplasia: clues for clonal progression in prostate carcinogenesis. Mol Cancer Res 4(1):1-8, 2006.

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K. Silva, N.M. Monteiro, M.N. Vieira & V.C. Almada, 2006. Reproductive behaviour of the black-striped pipefish, Syngnathus abaster (Pisces; Syngnathidae). Journal of Fish Biology, 69: 1860-1869.

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N.M. Monteiro, A. Berglund, M. N. Vieira and V. C. Almada, 2006. Reproductive migrations of the sex role reversed pipefish Nerophis lumbriciformis (Pisces; Syngnathidae). Journal of Fish Biology, 69: 66-74.

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K. Silva, N.M. Monteiro, V.C. Almada & M.N. Vieira, 2006. Early life history of Syngnathus abaster (Pisces; Syngnathidae). Journal of Fish Biology, 68(1): 80-86.

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K. Silva, N.M. Monteiro, V.C. Almada & MN Vieira, 2006. Development and early life history behaviour of aquarium reared Syngnathus acus (Pisces: Syngnathidae). Journal of the Marine Biological Association of the UK, 86: 1469-1472.

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Celina Santos, Ricardo A. Afonso, Maria P. Guarino, Rita S. Patarrão, Ana B. Fernandes, Maria P. Macedo and Jorge Caldeira, In vitro nitrosation of insulin A and B-chains. Eur J Mass Spectrom, 12: 331-338 (2006).

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Mas A, Alves-Rodrigues I, Noueiry A, Ahlquist P, Díez J.

Host deadenylation-dependent mRNA decapping factors are required for a key step in brome mosaic virus RNA replication

J Virol. 2006 Jan;80(1):246-51.

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Corte-Real S, Collins C, Aires da Silva F, Simas JP, Barbas CF 3rd, Chang Y, Moore P, Goncalves J.

Intrabodies targeting the Kaposi sarcoma-associated herpesvirus latency antigen inhibit viral persistence in lymphoma cells.
Blood. 2005 Dec 1;106(12):3797-802. Epub 2005 Aug 9.

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Andrade, GR and Jansen RP (2005). Moving with Muscleblind. Nature Cell Biology 7 (12), 1055-6.

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De Almeida SF, Carvalho IF, Cardoso CS, Cordeiro VC, Azevedo JE, Neefjes J, de Sousa M. 2005. HFE crosstalks with the MHC-class I antigen presentation pathway. Blood 106:971-977.

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Basto D, Trovisco V, Lopes JM, Martins A, Pardal F, Soares P, Reis RM. Mutation analysis of B-RAF gene in human gliomas. Acta Neuropathologica, 2005, 109(2):207-10.

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Macedo MF, Cruz E, Lacerda R, Porto G, de Sousa M.
Low serum transferrin levels in HFE C282Y homozygous subjects are associated with low CD8(+) T lymphocyte numbers.
Blood Cells Mol Dis. 2005;35:319-25

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Barros TP, Kinoshita K, Hyman AA, Raff JW.

Aurora A activates D-TACC-Msps complexes exclusively at centrosomes to stabilize centrosomal microtubules

J Cell Biol. 2005 Sep 26;170(7):1039-46.

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Leirião P, Albuquerque SS, Corso S, van Gemert GJ, Sauerwein RW, Rodriguez A, Giordano S, Mota MM. 2005. HGF/MET signalling protects Plasmodium-infected host cells from apoptosis. Cell Microbiol. 7:603-9.

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Ibrahim, Y. M., Kerr, A. R., Silva, N. A. & Mitchell, T. J. (2005). Contribution of the ATP-dependent protease ClpCP to the autolysis and virulence of Streptococcus pneumoniae. Infect Immun 73, 730-740.

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Castro, L.F.C., Miguel M. Santos and Maria A. Reis-Henriques (2005). The genomic environment around the Aromatase gene: evolutionary insights. BMC Evolutionary Biology 5, 43.

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Progressive loss of BDNF in a mouse model of Huntingtons disease and rescue by BDNF delivery.
Zuccato C, Liber D, Ramos C, Tarditi A, Rigamonti D, Tartari M, Valenza M, Cattaneo E.
Pharmacol Res. 2005 Aug

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Silles et al., Micromolar HgCl2 concentrations transitorily duplicate the ATP level in Saccharomyces cerevisiae cells, FEBS Letters (2005).

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Santos, M. M., Castro, L.F.C., Vieira, M.N., Micael, J., Morabito, R., Massanisso, P., and Reis-Henriques, M.A. (2005). New insights into the mechanism of imposex induction in the dogwhelk Nucella lapillus. Comp Biochem Physiol C Toxicol Pharmacol 141, 101-9.

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Alves NL, Arosa FA and van Lier RA. }3IL-21 Sustains CD28 Expression on IL-15-Activated Human Naive CD8+ T Cells}4.
J Immunol. 2005 Jul 15;175(2):755-62.

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Beltrao P, Serrano L. Comparative genomics and disorder prediction identify biologically relevant SH3 protein interactions. PLoS Comput Biol. 2005 Aug;1(3):e26. Epub 2005 Aug 12.

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Almeida AR, Rocha B, Freitas AA, Tanchot C.
Homeostasis of T cell numbers: from thymus production to peripheral compartmentalization and the indexation of regulatory T cells.
Semin Immunol. 2005 Jun;17(3):239-49. Review.

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Costa Y, Speed R, Öllinger R, Alsheimer M, Semple CA, Gautier P, Maratou K, Novak I, Hoog C, Benavente R and Cooke HJ. (2005). Two novel proteins recruited by SYCP1 are at the centre of meiosis. Journal of Cell Science. 118(12):2755-2762.

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Pinheiro S, Gillespie GM, Sayeid-Al-Jamee M, Alabi A, Kaye S, Sabally S, Sarge-Njie R, Njai H, Joof K, Jaye A, Whittle H, Rowland-Jones S, Dorrell L.CD8+ T cell responses to human immunodeficiency viruses type 2 (HIV-2) and type 1 (HIV-1) gag proteins are distinguishable by magnitude and breadth but not cellular phenotype. European Journal of Immunology. 2005 May; 35(5):1445-53. Co-authorship paper.

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PEDRO MS ALVES, OLIVIER FAURE, STEPHANIE GRAFF-DUBOIS, SEBASTIEN CORNET, IRENA BOLONAKIS, DAVID-ALEXANDRE GROSS, ISABELLE MICONNET, SALEM CHOUAIB, FRANCOIS A LEMONNIER, KOSTAS KOSMATOPOULOS. STEAP, an overexpressed tumor antigen of prostate, can be target of human CD8+ T cells. Cancer Immunology Immunotherapy, in press.

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Michielin O, Blanchet JS, Fagerberg T, Valmori D, Rubio-Godoy V, Speiser D, Ayyoub M, Alves P, Luescher I, Gairin JE, Cerottini JC, Romero P. Tinkering with nature: the tale of optimizing peptide based cancer vaccines. Cancer Treat Res. 2005;123:267-91. Review.

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de Almeida SF, Carvalho IF, Cardoso CS, Cordeiro JV, Azevedo JE, Neefjes J, de Sousa M.HFE cross-talks with the MHC class I antigen presentation pathway.Blood. 2005 Aug 1;106(3):971-7. Epub 2005 Apr 19.

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J.T. Barata*, A.A. Cardoso, V.A. Boussiotis (2005). Interleukin-7 in T-cell acute lymphoblastic leukemia: an extrinsic factor supporting leukemogenesis? Leukemia and lymphoma 46 (4): 483-495. *corresponding author

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Pereira L, Cunha C, Alves C, Amorim A. African female heritage in Iberia: a reassessment of mtDNA lineage distribution in present times. Human Biology. 2005 Apr;77(2):213-29. doi: 10.1353/hub.2005.0041

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Freitas-Junior LH, Hernandez-Rivas R, Ralph SA, Montiel-Condado D, Ruvalcaba-Salazar OK, Rojas-Meza AP, Mancio-Silva L, Leal-Silvestre RJ, Gontijo AM, Shorte S, Scherf A.
Telomeric heterochromatin propagation and histone acetylation control mutually exclusive expression of antigenic variation genes in malaria parasites.
Cell. 2005 Apr 8;121(1):25-36.

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Ribas, R.; Oback, B.; Ritchie, W.; Chebotareva, T.; Ferrier, T.; Clarke, C.; Taylor, J.; Gallangher, E.J.; Mauricio, A.C.; Sousa, M.; Wilmut, I. (2005). ?Development of a zona-free method of nuclear transfer in the mouse?. Cloning and Stem Cells, 7 (2): 125-137

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Passos JF and von Zglinicki T Mitochondria, telomeres and cell senescence Mini Review Exp Gerontology 40, 466-472 (2005)

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A pain in the ACC. Frankland PW, Teixeira CM. Mol Pain. 2005 Mar 31;1:14.

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Henrique R*, Jerónimo C*, Hoque MO, Carvalho AL, Costa VL, Oliveira J, Teixeira MR, Lopes C, Sidransky D. MT1G hypermethylation is associated with higher tumor stage in prostate cancer. Cancer Epidemiol Biomarkers Prev 14(5): 1274-1278, 2005.

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Moura G., Pinheiro M., Silva R., Miranda I., Afreixo V., Dias G., Freitas A., Oliveira J.L. and Santos M.A.S. Comparative context analysis of codon pairs on an ORFeome scale (2005). Genome Biol. 6(3):R28.

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Aires da Silva F, Costa MJ, Corte-Real S, Goncalves J.

Cell type-specific targeting with sindbis pseudotyped lentiviral vectors displaying anti-CCR5 single-chain antibodies.
Hum Gene Ther. 2005 Feb;16(2):223-34.

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Identification of Putative New Splicing Targets for ETR-3 Using Sequences Identified by Systematic Evolution of Ligands by Exponential Enrichment

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Figueiredo LM, Rocha EP, Mancio-Silva L, Prevost C, Hernandez-Verdun D, Scherf A.
The unusually large Plasmodium telomerase reverse-transcriptase localizes in a discrete compartment associated with the nucleolus.
Nucleic Acids Res. 2005 Feb 18;33(3):1111-22.

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Osorio et al., Influence of chronological aging on the survival and nucleotide content of Saccharomyces cerevisiae cells grown in different conditions: occurrence of a high concentration of UDP-N-acetylglucosamine in stationary cells grown in 2% glucose, FEMS Yeast Res (2005).

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Minguillón, C., Gardenyes, J., Serra, E., Castro, L.F.C., Hill-Force, A., Holland, P.W.H., Amemiya, C.T., and Garcia-Fernàndez, J. (2005). No more than 14: the end of the amphioxus Hox cluster. International Journal Biological Sciences 1, 19-23.

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N.M. Monteiro, V. C. Almada, and M. N. Vieira, 2005. Temporal patterns of breeding and recruitment in Nerophis lumbriciformis (Pisces; Syngnathidae) related to seawater temperatures. Journal of Fish Biology, 67(5):1475-1480.

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N.M. Monteiro, V. C. Almada, and M. N. Vieira, 2005. Implications of different brood pouch structures in syngnathid reproduction. Journal of the Marine Biological Association of the UK, 85: 1235-1241.

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Monteiro, N.M., Almada, V.C., & Vieira, M.N, 2005. Homing behaviour and individual identification of the pipefish Nerophis lumbriciformis (Pisces; Syngnathidae): a true intertidal resident? Estuarine, Coastal and Shelf Science,63: 93-99.

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Monteiro, N.M., Vieira, N & Almada, V. (2005). Diet preference reflects the ontogenetic shift in microhabitat use in Lipophrys pholis (Pisces; Blenniidae). Journal of Fish Biology, 66, 1-12.

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Ricardo A. Afonso, Rita S. Patarrão, M. Paula Macedo and M. Mota Carmo, Carvedilol action is dependent on endogenous production of nitric oxide. Am J Hyper, 19: 419-425 (2005).

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J.T. Barata, T.D. Keenan, A. Silva, L.M. Nadler, V.A. Boussiotis, A.A. Cardoso (2004). Common Gamma Chain-Signaling Cytokines Promote Proliferation of T-Cell Acute Lymphoblastic Leukemia. Haematologica 89 (12): 1459-1467.

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Jerónimo C*, Henrique R*, Hoque MO, Mambo E, Ribeiro FR, Varzim G, Oliveira J, Teixeira MR, Lopes C, Sidransky D. A quantitative promoter methylation profile of prostate cancer. Clin Cancer Res 10(24): 8472-8478, 2004

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Castro, L.F.C., Furlong, R., and Holland, P.W.H. (2004). An antecedent of human MHC-linked paralogy regions in amphioxus. Immunogenetics, 55, 782-84.

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de Napoles M, Mermoud JE, Wakao R, Tang YA, Endoh M, Appanah R, Nesterova TB, Silva J, Otte AP, Vidal M, Koseki H, Brockdorff N. Polycomb group proteins Ring1A/B link ubiquitylation of histone H2A to heritable gene silencing and X inactivation. Developmental Cell. 2004 Nov;7(5):663-76.

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Missale G, Papagno L, Penna A, Pilli M, Zerbini A, Vitali P, Pieroni G, Urbani S, Uggeri J, Pinheiro S, Rowland-Jones S, Ferrari C. Parenteral exposure to high HIV viremia leads to virus-specific T cell priming without evidence of infection. European Journal of Immunology. 2004 Nov; 34(11):3208-15.

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Macedo MF, de Sousa M, Ned RM, Mascarenhas C, Andrews NC, Correia-Neves M.
Transferrin is required for early T-cell differentiation.
Immunology. 2004;112:543-9.

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Freitas R. & Cohn M.J. 2004. Analyses of EphA4 in the lesser spotted catshark identifies a primitive gnathostome expression pattern and reveals co-option during evolution of shark-specific morphology. Development Genes and Evolution. 214:466-472.

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Marcos NT, Pinho S, Grandela C, Cruz A, Samyn-Petit B, Harduin-Lepers A, Almeida R, Silva F, Morais V, Costa J, Kihlberg J, Clausen H, Reis CA., Role of the human ST6GalNAc-I and ST6GalNAc-II in the synthesis of the cancer-associated sialyl-Tn antigen. Cancer Res. 2004 Oct 1;64(19):7050-7.

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Misfolding of major histocompatibility complex class I molecules in activated T cells allows cis-interactions with receptors and signaling molecules and is associated with tyrosine phosphorylation. (2004)
Santos SG, Powis SJ, Arosa FA.
J Biol Chem, 279:53062-70

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Leirião P, Rodrigues CD, Albuquerque SS, Mota MM. 2004. Survival of protozoan intracellular parasites in host cells. EMBO Rep. 5:1142-7.

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Castro H, Sousa C, Novais M, Santos M, Budde H, Cordeiro-da-Silva A, Flohe L, Tomas AM. }3Two linked genes of Leishmania infantum encode tryparedoxins localised to cytosol and mitochondrion}4 Mol Biochem Parasitol 2004 136: 137-147.

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Morais-de-Sá E, Pereira PJ, Saraiva MJ, Damas AM.
The crystal structure of transthyretin in complex with diethylstilbestrol: a promising template for the design of amyloid inhibitors.
J Biol Chem. 2004 Dec 17;279(51):53483-90

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Marcos NT, Pinho S, Grandela C, Cruz A, Samyn-Petit B, Harduin-Lepers A, Almeida R, Silva F, Morais V, Costa J, Kihlberg J, Clausen H, Reis CA. Role of the human ST6GalNAc-I and ST6GalNAc-II in the synthesis of the cancer-associated Sialyl-Tn antigen. Cancer Res (2004) Oct 1; 64(19):7050-7.

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Marcos NT, Pinho S, Grandela C, Cruz A, Samyn-Petit B, Harduin-Lepers A, Almeida R, Silva F, Morais V, Costa J, Kihlberg J, Clausen H, Reis CA. Role of the human ST6GalNAc-I and ST6GalNAc-II in the synthesis of the cancer-associated sialyl-Tn antigen.
Cancer Res. 2004 Oct 1;64(19):7050-7.

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J.T. Barata, A. Silva, J.G. Brandão, L.M. Nadler, A.A. Cardoso, V.A. Boussiotis (2004). Activation of PI3K is Indispensable for Interleukin 7-Mediated Viability, Proliferation, Glucose Use, and Growth of T Cell Acute Lymphoblastic Leukemia Cells. Journal of Experimental Medicine 200 (5): 659-669.

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Carvalho P, Pellman D. Mitotic spindle: laser microsurgery in yeast cells. Curr Biol. 2004 Sep 21;14(18):R748-50.

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Damin, A.P.S., Karam, R., Zettler C.G., Alexandre, C.O.P. Evidence for an association of Human Papillomavirus and Breast Carcinomas. Breast Cancer Research and Treatment, 2004;84: 131-137.

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Hoque MO, Begum S, Topaloglu O, Jerónimo C, Mambo E, Westra WH, Califano III JA, Sidransky D. Detection of promoter hypermethylation of multiple genes in the tumor, urine and serum of patients with renal cancer. Cancer Res 64(15): 5511-7, 2004

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HAINING WN, ANDERSON DG, LITTLE SR, VON BERWELT-BAILDON MS, CARDOSO AA, ALVES P, KOSMATOPOULOS K, NADLER LM, LANGER R, Kohane DS. pH-triggered microparticles for peptide vaccination. J Immunol. 2004 Aug 15;173(4):2578-85.

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Henrique R, Jerónimo C. Molecular detection of prostate cancer: a role for GSTP1 hypermethylation. Eur Urol 46(5): 660-669, 2004

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Jerónimo C*, Henrique R*, Hoque MO, Ribeiro FR, Oliveira J, Fonseca D, Teixeira MR, Lopes C, Sidransky D. Quantitative RARβ2 hypermethylation: a promising prostate cancer marker. Clin Cancer Research 10: 4010-4014, 2004

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Carvalho P, Gupta Jr ML, Hoyt MA, Pellman D. Cell cycle control of kinesin-mediated transport of Bik1 (CLIP-170) regulates microtubule stability and dynein activation. Dev Cell. 2004 Jun;6(6):815-29.

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Ander M, Beltrao P, Di Ventura B, Ferkinghoff-Borg J, Foglierini M, Kaplan A, Lemerle C, Tomás-Oliveira I, Serrano L.
Abstract SmartCell, a framework to simulate cellular processes that combines stochastic approximation with diffusion and localisation: analysis of simple networks. Syst Biol (Stevenage). 2004 Jun;1(1):129-38.

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Pereira L, Cunha C, Amorim A. Predicting sampling saturation of mtDNA haplotypes: an application to an enlarged Portuguese database. International Journal of Legal Medicine. 2004 Jun;118(3):132-6. doi: 10.1007/s00414-003-0424-1

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Carneiro F, Huntsman D, Smyrk T, Owen DA, Seruca R, Pharoah P, Caldas C, Manuel Soinho-Simões M: Model of early development of diffuse gastric cancer in E-cadherin mutation carriers and its implications for patient screening.

J Pathol 203: 681-687, 2004. DOI: 10.1002path.1564

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Reis CA, Teixeira A, David L (2004) Role of mucins in Helicobacter pylori adhesion to the gastric mucosa. Helicobacter 9(2):181 (letter to the editor)

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Logarinho E, Bousbaa H, Dias JM, Lopes C, Amorim I, Antunes-Martins A, Sunkel CE, Different spindle checkpoint proteins monitor microtubule attachment and tension at kinetochores in Drosophila cells, J Cell Sci. 2004 Apr 1;117(Pt 9):1757-71.

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Veiga-Fernandes, H. and Rocha, B. (2004). High expression of active CDK6 in the cytoplasm of CD8 memory cells favors rapid division. Nature Immunol. 5, 31-37.

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J.T. Barata, V.A. Boussiotis, J.A. Yunes, A.A. Ferrando, L.A. Moreau, J.P. Veiga, S.E. Sallan, A.T. Look, L.M. Nadler, A.A. Cardoso (2004). IL-7-dependent human leukemia T-cell line as a valuable tool for drug discovery in T-ALL. Blood 103 (5): 1891-1900.

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FAURE O, GRAFF-DUBOIS S, BRETAUDEAU L, DERRE L, GROSS DA, ALVES PM, CORNET S, DUFFOUR MT, CHOUAIB S, MICONNET I, GREGOIRE M, JOTEREAU F, LEMONNIER FA, ABASTADO JP, KOSMATOPOULOS K. Inducible Hsp70 as target of anticancer immunotherapy: Identification of HLA-A*0201-restricted epitopes. Int J Cancer. 2004 Mar 1;108(6):863-70.

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Oliveira C, de Bruin J, Nabais S, Ligtenberg M, Moutinho C, Nagengast FM, Seruca R, van Krieken H, Carneiro F:
Intragenic deletion of CDH1 as the inactivating mechanism of the wild-type allele in a HDGC tumour.

Oncogene 23:2236-2240, 2004. DOI: 10.1038sj.onc.1207335

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GROSS DA, GRAFF-DUBOIS S, OPOLON P, CORNET S S, ALVES P, BENNACEUR-GRISCELLI A, FAURE O, GUILLAUME P, FIRAT H H, CHOUAIB S, LEMONNIER FA, DAVOUST J, MICONNET I, VONDERHEIDE RH, KOSMATOPOULOS K. High vaccination efficiency of low-affinity epitopes in anti-tumor immunotherapy. J Clin Invest. 2004 Feb;113(3):425-33.

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GROSS DA, GRAFF-DUBOIS S, OPOLON P, CORNET S, ALVES P, BENNACEUR-GRISCELLY A, FAURE O, GUILLAUME P, FIRAT H, CHOUAIB S, LEMONNIER FA, DAVOUST J, MICONNET I, VONDERHEIDE RH, KOSMATOPOULOS K. High vaccination efficiency of low-affinity epitopes in antitumor immunotherapy. J Clin Invest. 2004 Feb;113(3):425-33.

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Forster T, Costa Y, Cooke HJ, Roy D, Maratou K. (2004). Triple-dye microarray experiments: a novel experimental strategy. BMC Genomics 5(1):13

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Maratou K, Forster T, Costa Y, Taggart M, Speed RM, Ireland J, Teague P, Roy D, Cooke HJ. (2004). Expression profiling of the developing testis in Wild Type and Dazl Knockout mice. Molecular Reproduction and Development 67(1):26-54

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ALVES PM, FAURE O, GRAFF-DUBOIS S, GROSS DA, CORNET S, CHOUAIB S, MICONNET I, LEMONNIER FA, KOSMATOPOULOS K. EphA2 as target of anticancer immunotherapy: identification of HLA-A*0201-restricted epitopes. Cancer Res. 2003 Dec 1;63(23):8476-80.

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Luke, G.N., Castro, L.F.C., McLay, K., Bird, C., Coulson, A. and Holland, P.W.H. (2003) Dispersal of NK homeobox gene clusters in amphioxus and humans. Proceedings of the National Academy of Sciences, USA, 100, 5292-5295.

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Fowler JC, Teixeira AS, Vinall LE, Swallow DM (2003) Hypervariability of the membrane-associated mucin and cancer marker MUC1. Hum Genet 113(6):473-9

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Cardoso CS, de Sousa M. 2003. HFE, the MHC and Hemochromatosis. Paradigm for an extended function for MHC class I. Tissue Antigens. 61:263-275.

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Pires de Miranda, M. , Reading, P.C., Tscharke, D.C., Murphy, B.J., Smith, G.L. (2003). The vaccinia virus kelch-like protein C2L affects calcium-independent adhesion to the extracellular matrix and inflammation in a murine intradermal model. Journal of General Virology 84:2459-2471

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Cabral, H.N., Castro, F., Linhares, D., and Alexandrino, P. (2003). Genetic differentiation of Solea solea (Linnaeus, 1758) and Solea senegalensis Kaup, 1858, (Pisces: Pleuronectiformes) from several estuarine systems of the Portuguese coast. Scientia Marina, 67, 43-52.

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Pacheco CC, Passos JF, Moradas-Ferreira P, De Marco P 2003 Strain PM2, a novel methylotrophic fluorescent Pseudomonas sp. FEMS Microbiol Lett. 2003 Oct 24;227(2):279-85

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Oliveira, M.; Andrade, G.; Guerra, M. e Bernardo, F. (2003). Development of a Fluorescent In Situ Hybridization protocol for the rapid detection and enumeration of Listeria monocytogenes in milk. RPCV (2003) 98 (547) 119-124.

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Jerónimo C, Costa I, Martins MC, Monteiro P, Lisboa S, Sousa CP, Henrique R, Teixeira MR, Lopes C. Detection of gene promoter hypermethylation in fine needle washings from breast lesions. Clin Cancer Res 9: 3413-3417, 2003

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SCARDINO A, CORREALE P, FIRAT H, PELLEGRINI M, KOSMATOPOULOS K, OPOLON P, ALVES P, ZURBRIGGEN R, GLUCK R, LEMONNIER FA, FRANCINI G, CUSI MG. In vivo study of the GC90/IRIV vaccine for immune response and autoimmunity into a novel humanised transgenic mouse. Br J Cancer. 2003 Jul 7;89(1):199-205.

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Panda, S., Provencio, I., Tu, D.C., Pires, S.S., Rollag, M.D., Castrucci, A.M., Pletcher, M.T., Sato, T.K., Wiltshire, T., Andahazy, M., Kay, S.A., Van Gelder, R.N., and Hogenesch, J.B. (2003). Melanopsin Is Required for Non-Image-Forming Photic Responses in Blind Mice. Science 301, 525-527.

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Alves NL, Hooibrink B, Arosa FA, van Lier RA. Blood. 2003 Oct 1;102(7):2541-6. Epub 2003 Jun 12. }3IL-15 induces antigen-independent expansion and differentiation of human naive CD8+ T cells in vitro.}4

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Marcos N., Cruz A., Silva F., Almeida R., David L., Mandel U., Clausen H., Mensdorff-Pouilly S., Reis C., (2003) Polypeptide GalNAc-transferase, ST6GalNAc-transferase I, and ST3Gal-transferase I Expression in Gastric Carcinoma Cell Lines. The Journal of Histochemistry & Cytochemistry, Jun: 51(6) : 761-71

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Marcos NT, Cruz A, Silva F, Almeida R, David L, Mandel U, Clausen H, Von Mensdorff-Pouilly S, Reis CA. Polypeptide GalNAc-transferases, ST6GalNAc-transferase I, and ST3Gal-transferase I Expression in Gastric Carcinoma Cell Lines. J Histochem Cytochem (2003) Jun; 51(6):761-71.

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Silva F, Carvalho F, Peixoto A, Teixeira A, Almeida R, Reis C, Bravo LE, Realpe L, Correa P, David L (2003) MUC1 polymorphism confers increased risk for intestinal metaplasia in a Colombian population with chronic gastritis. Eur J Hum Genet 11(5):380-4

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Carvalho P, Tirnauer JS, Pellman D. Surfing on microtubule ends. Trends Cell
Biol. 2003 May;13(5):229-37.

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Silva J, Mak W, Zvetkova I, Appanah R, Nesterova TB, Webster Z, Peters AH, Jenuwein T, Otte AP, Brockdorff N. Establishment of histone H3 methylation on the inactive X chromosome requires transient recruitment of Eed-Enx1 polycomb group complexes. Developmental Cell. 2003 Apr;4(4):481-95.

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Castro, L.F.C. and Holland, P.W.H. (2003) Chromosomal mapping of ANTP class homeobox genes in amphioxus: piecing together ancestral genomes. Evolution and Development, 5, 459-465.

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Massey SE, Moura G, Beltrão P, Almeida R, Garey JR, Tuite MF, Santos MA. Comparative evolutionary genomics unveils the molecular mechanism of reassignment of the CTG codon in Candida spp. Genome Res. 2003 Apr;13(4):544-57.

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Pattyn A, Vallstedt A, Dias JM, Samad OA, Krumlauf R, Rijli FM, Brunet JF, Ericson J.(2003)%22Coordinated temporal and spatial control of motor neuron and serotonergic neuron generation from a common pool of CNS progenitors%22Gen&Dev,17(6):729-37

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Sheeman B, Carvalho P, Sagot I, Geiser J, Kho D, Hoyt MA, Pellman D. Determinants of S. cerevisiae Dynein Localization and Activation: Implications for the Mechanism of Spindle Positioning. Curr Biol. 2003 Mar 4;13(5):364-72.

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Pre-mRNA splicing and human disease.

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Jerónimo C, Henrique R, Campos PF, Oliveira J, Caballero OL, Lopes C, Sidransky D. Endothelin B receptor gene hypermethylation in prostate adenocarcinoma. J Clin Pathol 56: 52-55, 2003

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Castro, M., Santos, M.M , Monteiro, N.M. & Vieira, M. N (2003). Measuring lysosomal stability as an effective tool for marine coastal environmental monitoring. Marine Environmental Research, 58(2-5):741-745.

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Monteiro, N.M., Almada, V.C., & Vieira, M.N (2003). Early life history of the pipefish Nerophis lumbriciformis (Pisces: Syngnathidae). Journal of the Marine Biological Association of the UK, 83(5): 1179-1182.

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Almeida AR, Legrand N, Papiernik M, Freitas AA.
Homeostasis of peripheral CD4+ T cells: IL-2R alpha and IL-2 shape a population of regulatory cells that controls CD4+ T cell numbers.
J Immunol. 2002 Nov 1;169(9):4850-60.

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Castro, L.F.C. and Holland, P.W.H. (2002) Fluorescent in situ hybridization to amphioxus chromosomes. Zoological Science, 19, 1349-1353.

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Cardoso CS, Alves H, Mascarenhas M, Gonçalves R, Oliveira P, Rodrigues P, Cruz E, de Sousa M, Porto G. 2002. Co-selection of the H63D mutation and the HLA-A29 allele: a new paradigm of linkage disequilibrium? Immunogenetics. 53:1002-8.

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Monteiro, A.S., Okamura, B. and Holland, P.W.H. (2002). Orphan worm finds a home: Buddenbrockia is a myxozoan. Molecular Biology and Evolution 19, 968-971.

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Castro H, Sousa C, Santos M, Cordeiro-da-Silva A, Flohé L, Tomás AM. }3Complementary antioxidant defence by cytoplasmic and mitochondrial peroxiredoxins in Leishmania infantum}4 Free Radic Biol Med 2002 33: 1552-1562.

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Jerónimo C, Usadel H, Henrique R, Silva C, Oliveira J, Lopes C, Sidransky D. Quantitative GSTP1 hypermethylation in bodily fluids of prostate cancer patients. Urology 60: 1131-1135, 2002

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Congenital erythropoietic porphyria: identification and expression of eight novel mutations in the uroporphyrinogen III synthase gene

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SCARDINO A, GROSS DA, ALVES P, SCHULTZE JL, GRAFF-DUBOIS S, FAURE O, TOURDOT S, CHOUAIB S, NADLER LM, LEMONNIER FA, VONDERHEIDE RH, CARDOSO AA, KOSMATOPOULOS K. HER-2/neu and hTERT cryptic epitopes as novel targets for broad spectrum tumor immunotherapy. J Immunol. 2002 Jun 1;168(11):5900-6.

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Mak W, Baxter J, Silva J, Newall AE, Otte AP, Brockdorff N. Mitotically stable association of polycomb group proteins eed and enx1 with the inactive x chromosome in trophoblast stem cells. Curr Biol. 2002 Jun 25;12(12):1016-20.

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Jerónimo C, Varzim G, Henrique R, Oliveira J, Bento MJ, Silva C, Lopes C, Sidransky D. I105V polymorphism and promoter methylation of GSTP1 gene in prostate adenocarcinoma. Cancer Epidemiol Biomark Prev 11(5): 445-50, 2002.

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Teixeira A, David L, Reis CA, Costa J, Sobrinho-Simoes M (2002) Expression of mucins (MUC1, MUC2, MUC5AC, and MUC6) and type 1 Lewis antigens in cases with and without Helicobacter pylori colonization in metaplastic glands of the human stomach. J Pathol 197(1):37-43

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Silva E, Teixeira A, David L, Carneiro F, Reis CA, Sobrinho-Simoes J, Serpa J, Veerman E, Bolscher J, Sobrinho-Simoes M (2002) Mucins as key molecules for the classification of intestinal metaplasia of the stomach. Virchows Arch 440(3):311-7

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Monteiro, N.M., Vieira, N & Almada, V. (2002). Activity rhythms and cyclical changes of microhabitat preferences in the intertidal pipefish Nerophis lumbriciformis (Pisces; Syngnathidae). Acta ethologica, 5: 39-43.

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Monteiro, N.M., Vieira, M.N. & Almada, V.C. (2002). The courtship behaviour in the pipefish Nerophis lumbriciformis. Reflections of an adaptation to intertidal life. Acta ethologica, 4: 109-111.

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Lin H, Carvalho P, Kho D, Tai C, Pierre P, Fink GR, Pellman D. Polyploids Require Bik1p for Kinetochore-Microtubule Attachment. J Cell Biol. 2001 Dec 24;155(7):1173-84;  equal contribution.

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Jerónimo C, Usadel H, Henrique R, Oliveira J, Lopes C, Nelson WG, Sidransky D. Quantitation of GSTP1 methylation in non-neoplastic prostatic tissue and organ confined prostate adenocarcinoma. J Natl Cancer Inst 93(22): 1747-52, 2001.

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Rowland-Jones SL, Pinheiro S, Kaul R, Hansasuta P, Gillespie G, Dong T, Plummer FA, Bwayo JB, Fidler S, Weber J, McMichael A, Appay V. How important is the quality of the cytotoxic T lymphocyte (CTL) response in protection against HIV infection? Immunology Letters. 2001 Nov 1; 79(1-2):15-20. Co-authorship paper.

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SCARDINO A., ALVES P., GROSS D.A., TOURDOT S., GRAFF-DUBOIS, S., CHOUAIB S., LEMMONIER F., NADLER L.M., CARDOSO A.A., KOSMATOPOULOS K. Identification of Novel HER-2/neu immunogenic epitopes presented by renal cell carcinoma and other epithelial tumors. Eur. J. Immunol. 2001 Nov;31(11):3261-70.

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Cardoso C, Porto G, Lacerda R, Resende D, Rodrigues P, Bravo F, Oliveira JC, Justica B, de Sousa M. 2001. T-cell receptor repertoire in hereditary hemochromatosis: a study of 32 hemochromatosis patients and 274 healthy subjects. Hum Immunol 62:488-99.

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Porto G, Cardoso CS, Gordeuk V, Cruz E, Fraga J, Areias J, Oliveira JC, Bravo F, Gangaidzo IT, MacPhail AP, Gomo ZAR, Moyo VM, Melo G, Silva C, Justiça B, de Sousa M. 2001. Clinical and genetic heterogeneity in hereditary hemochromatosis: association between lymphocyte counts and expression of iron overload. Eur J Haematol 67:110-118.

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Cardoso CS, Oliveira P, Porto G, Oberkanins C, Mascarenhas M, Rodrigues P, Kury F, De Sousa M. 2001. Comparative study of the two more frequent HFE mutations (C282Y and H63D): significant different allelic frequencies between the North and South of Portugal. Eur J Hum Genet 9:843-848.

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Maciel P., Costa M.C., Ferro A., Rousseau M., Santos C., Gaspar C., Barros J., Rouleau G., Coutinho P., Sequeiros J. 2001. Improvement in the molecular diagnosis of Machado-Joseph disease. Archives of Neurology 58 (11):1821-1827

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Velders MP, Macedo MF, Provenzano M, Elmishad AG, Holzhütter HG, Carbone M,
Kast WM.
Human T cell responses to endogenously presented HLA-A*0201 restricted peptides of Simian virus 40 large T antigen.
J Cell Biochem. 2001 2-27;82:155-62.

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J.T. Barata, A.A. Cardoso, L.M. Nadler, V.A. Boussiotis (2001). Interleukin-7 promotes survival and cell cycle progression of T-cell acute lymphoblastic leukemia cells by down-regulating the cyclin-dependent kinase inhibitor p27kip1. Blood 98 (5): 1524-1531.

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Almeida AR, Borghans JA, Freitas AA.
T cell homeostasis: thymus regeneration and peripheral T cell restoration in mice with a reduced fraction of competent precursors.
J Exp Med. 2001 Sep 3;194(5):591-9.

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Huntsman DG, Carneiro F, Lewis FR, MacLeod PM, Hayashi A, Monaghan KG, Maung R, Seruca R, Jackson CE, Caldas C: Early gastric cancer in young, asymptomatic carriers of germ-line E-cadherin mutations.

N Engl J Med 344:1904-1909, 2001.

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Jerónimo C, Nomoto S, Caballero O, Usadel H, Henrique R, Varzim G, Oliveira J, Lopes C, Fliss M, Sidransky D. Mitochondrial mutations in early stage prostate cancer and bodily fluids. Oncogene 20: 5195-5198, 2001.

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Vieira M, Pissarra J, Verissimo P, Castanheira P, Costa Y, Pires E, Faro C. (2001). Molecular cloning and characterization of cDNA encoding cardosin B, an aspartic proteinase accumulating extracellularly in the transmitting tissue of Cynara cardunculus L. Plant Mol Biol 45(5):529-39.

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Rowland-Jones S, Pinheiro S, Kaul R. New insights into host factors in HIV-1 pathogenesis. Cell. 2001 Feb 23; 104(4):473-6. Review. Co-authorship paper.

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Monteiro, N.M., Almada, V.C. & Vieira, M.N. (2001). The breeding season of the pipefish Nerophis lumbriciformis and its relation to latitude and water temperature. Journal of the Marine Biological Association of the UK, 81: 1031-1033.

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Patarrão, R. S., Macedo, M. P. and Mota Carmo, M., Hepatic metabolic effects of norepinephrine are potentiated by nitric oxide. Proc West Pharmacol Soc, 44: 23 (2001).

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Arosa FA, Porto G, Cabeda JM, Lacerda R, Resende D, Cruz E, Cardoso C, Fonseca M, Simões C, Rodrigues P, Bravo F, Oliveira JC, Alves H, Fraga J, Justiça B, De Sousa M. 2000. Expansions of CD8+CD28- and CD8+TcRVb5.2+ T cells in peripheral blood of heavy alcohol drinkers. Alcoholism: Clinical and Experimental Research 24:519-527.

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Reis RM, Könü-Lebleblicioglu D, Lopes JM, Kleihues P, Ohgaki H. Genetic profile of the gliosarcoma. American Journal Pathology, 2000, 156:425-432.

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Silveira I., Alonso I., Guimarães L., Mendonça P., Santos C., Maciel P., Costa M., Barbot C., Barros J. Coutinho P., Sequeiros J. 2000. High germinal instability of the (CTG)n repeat at the SCA8 locus with expansions of normal alleles. American Journal of Human Genetics 66: 830-840

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Differential survival of naive CD4 and CD8 T cells.

Ferreira C, Barthlott T, Garcia S, Zamoyska R, Stockinger B.

J Immunol. 2000 Oct 1;165(7):3689-94

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Carvalho IF, Ferrand N. (2000). A diversidade do Garrano. In Associação dos Criadores de Equinos de Raça Garrana (eds.), Os Milénios do Garrano, Vieira do Minho, Portugal

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Acute intermittent porphyria: novel missense mutations in the human hydroxymethylbilane synthase gene.

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Veiga-Fernandes, H., Walter, U., Bourgeois, C., McLean, A. and Rocha, B. (2000). Response of naive and memory CD8+ T cells to antigen stimulation in vivo. Nature Immunol. 1, 47-53.

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Tascon,RE, Soares,CS, Ragno,S, Stravopoulos,E, Hirst,EM and Colston MJ. Mycobacterium tuberculosis- activated dendritic cells induce protective immunity in mice. Immunology, 2000, 99: 473-480

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Castro, F., Linhares, D. and Alexandrino, P. (1999). Acid Phosphatase polymorphism in European Shad (Fish: Clupeid). Biochemical Genetics, 37, 251-256.

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CARVALHO F, DAVID L, AUBERT JP, LOPEZ-FERRER A, DE BOLOS C, REIS CA, GARTNER F, PEIXOTO A, ALVES P, SOBRINHO-SIMOES M.Mucins and mucin-associated carbohydrate antigens expression in gastric carcinoma cell lines.Virchows Arch. 1999 Nov;435(5):479-85.

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Viveiros M, Pinheiro S, Moreira P, Pacheco T, Brum L. Evaluation of a commercial ligase chain reaction assay for the diagnosis of pulmonary and extra-pulmonary tuberculosis. Int J Tuberc Lung Dis. 1999 Jun;3(6):508-14.

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P ALVES, P SOARES, E FONSECA, M SOBRINHO-SIMOES. Papillary thyroid carcinoma overexpressed fully and underglycosylated mucins together with native and sialylated simple mucins antigens and histoblood group antigens. Endocrine Pathology. 1999; 10: 315 -324

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P ALVES, P SOARES, S ROSSI, E FONSECA, M SOBRINHO-SIMOES. Clinicopathologic and prognostic significance in the expression of mucins, simple mucins antigens and histoblood group antigens in papillary thyroid carcinoma. Endocrine Pathology. 1999; 10: 305 -314.

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Le Corre, M., Linhares, D., Castro, F., Alexandrino, P., Sabatié, R. & Bagliniere, J.L. (1998). Premiers éléments de caractérisation génétique de l}2alose du Rhône (Alosa fallax rhodanensis Roule, 1924). Bullettin Français de la Pêche et de la Pisciculture, 350-351, 635-645.

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Macedo MF, Velders MP, Nieland JD, Rudolf MP, Weijzen S, Da Silva DM, Franke
A, Holt G, Loviscek K, Carbone M, Kast WM.
Cellular immunity and immunotherapy against deoxyribonucleic acid virus-induced tumors.
Monaldi Arch Chest Dis. 1998 ;53:211-8.

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Velders MP, Nieland JD, Rudolf MP, Loviscek K, Weijzen S, de Visser KE, Macedo
MF, Carbone M, Kast WM.
Identification of peptides for immunotherapy of cancer. It is worth the effort.
Crit Rev Immunol. 1998;18:7-27.

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}5%09da Rocha S.T., Charalambous M., Lin, S.P., Gutteridge I., Ito Y., Dean W. and Ferguson-Smith A. C. Dosage effects of Dlk1/Pref1 in pre-natal mouse development: implications for control by genomic imprinting. EMBO Journal, under revision.

}5%09Rocha S.T., Edwards C., Ito, M. Ogata T. and Ferguson-Smith, A.C. Genomic imprinting at the mammalian Dlk1-Dio3 domain. Trends in Genetics, 24(6): 306-316 (2008) Review

}5%09da Rocha S.T., Tevendale M., Knowles, E., Takada S., Watkins M. and Ferguson-Smith A. C. Restricted co-expression of Dlk1 and the reciprocally imprinted non-coding RNA, Gtl2: Implications for cis-acting regional control. Developmental Biology, 306 (2): 810-823 (2007)

}5%09Charalambous M., da Rocha S.T. and Ferguson-Smith A.C. Genomic imprinting, growth control and the allocation of nutritional resources: consequences for postnatal life. Current Opinion in Endocrinology, Diabetes & Obesity 14:3-12 (2007) Review

}5%09Lin S. P., Coan P., da Rocha S.T., Seitz H., Cavaille J., Tseng, P.W., Takada S., Ferguson-Smith. Differential regulation of imprinting in the murine embryo and placenta by the Dlk1-Dio3 imprinting control region. Development, 134(2): 417-426 (2007)

}5%09da Rocha S.T. and Ferguson-Smith A.C. Genomic Imprinting. Current Biology, 14(16): R646-9 (2004) Review

}5%09dos Matos Granja N., Soares R., Rocha S., Paredes J., Longatto Filho A., Alves V.A., Wiley E., Schmitt F.C., Bedrossian C. Evaluation of breast cancer metastases in pleural effusions by molecular biology techniques. Diagnostic Cytopathology 27(4): 210-3 (2002)

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Dkk3 is required for TGF-β signalling during Xenopus mesoderm induction. Sónia Pinho and Christ of Niehrs Differentiation. 2007 Dec;75(10):957-67

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Molecular and genotypic characterization of human thyroid follicular cell carcinoma-derived cell lines.
Thyroid
Meireles AM, Preto A, Rocha AS, Rebocho AP, Máximo V, Pereira-Castro I, Moreira S, Feijão T, Botelho T, Marques R, Trovisco V, Cirnes L, Alves C, Velho S, Soares P, Sobrinho-Simões M.

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A subset of colorectal carcinomas express c-KIT protein independently of BRAF and/or KRAS activation.
Virchows Arch.
Preto A, Moutinho C, Velho S, Oliveira C, Rebocho AP, Figueiredo J, Soares P, Lopes JM, Seruca R.

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Deletion of a single allele of the Dkk1 gene leads to an increase in bone formation and bone mass. Morvan F, Boulukos K, Clement-Lacroix P, Roman Roman S, Suc-Royer I, Vayssiere B, Ammann P,
Martin P, Pinho S, Pognonec P, Mollat P, Niehrs C, Baron R, Rawadi G. J Bone Miner Res. 2006, Jun; 21:934-45

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An Ancient Wnt-Dickkopf Antagonism in Hydra. Corina Guder, Sonia Pinho, Tanju Nacak, Bert Hobmayer, Christof Niehrs and Thomas W. Holstein. Development 2006; 133 901-911

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PAX8-PPARgamma rearrangement is frequently detected in the follicular variant of papillary thyroid carcinoma.
J Clin Endocrinol Metab.
Castro P, Rebocho AP, Soares RJ, Magalhães J, Roque L, Trovisco V, Vieira de Castro I, Cardoso-de-Oliveira M, Fonseca E, Soares P, Sobrinho-Simões M.

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BRAF mutations typical of papillary thyroid carcinoma are more frequently detected in undifferentiated than in insular and insular-like poorly differentiated carcinomas.
Virchows Arch.
Soares P, Trovisco V, Rocha AS, Feijão T, Rebocho AP, Fonseca E, Vieira de Castro I, Cameselle-Teijeiro J, Cardoso-Oliveira M, Sobrinho-Simões M.

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INSTITUTIONS INVOLVED

Program financially supported by
the National Foundation for
Science and Technology