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Results: 1 to 20 of 83

1.

NF-κB directly mediates epigenetic deregulation of common microRNAs in Epstein-Barr virus-mediated transformation of B-cells and in lymphomas.

Vento-Tormo R, Rodríguez-Ubreva J, Lisio LD, Islam AB, Urquiza JM, Hernando H, López-Bigas N, Shannon-Lowe C, Martínez N, Montes-Moreno S, Piris MA, Ballestar E.

Nucleic Acids Res. 2015 Jan 1;42(17):11025-39. doi: 10.1093/nar/gku826. Epub 2014 Sep 8.

PMID:
25200074
[PubMed - in process]
Free Article
2.

Fast randomization of large genomic datasets while preserving alteration counts.

Gobbi A, Iorio F, Dawson KJ, Wedge DC, Tamborero D, Alexandrov LB, Lopez-Bigas N, Garnett MJ, Jurman G, Saez-Rodriguez J.

Bioinformatics. 2014 Sep 1;30(17):i617-23. doi: 10.1093/bioinformatics/btu474.

PMID:
25161255
[PubMed - in process]
Free PMC Article
3.

OncodriveROLE classifies cancer driver genes in loss of function and activating mode of action.

Schroeder MP, Rubio-Perez C, Tamborero D, Gonzalez-Perez A, Lopez-Bigas N.

Bioinformatics. 2014 Sep 1;30(17):i549-55. doi: 10.1093/bioinformatics/btu467.

PMID:
25161246
[PubMed - in process]
Free PMC Article
4.

Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin.

Hoadley KA, Yau C, Wolf DM, Cherniack AD, Tamborero D, Ng S, Leiserson MD, Niu B, McLellan MD, Uzunangelov V, Zhang J, Kandoth C, Akbani R, Shen H, Omberg L, Chu A, Margolin AA, Van't Veer LJ, Lopez-Bigas N, Laird PW, Raphael BJ, Ding L, Robertson AG, Byers LA, Mills GB, Weinstein JN, Van Waes C, Chen Z, Collisson EA; Cancer Genome Atlas Research Network, Benz CC, Perou CM, Stuart JM.

Cell. 2014 Aug 14;158(4):929-44. doi: 10.1016/j.cell.2014.06.049. Epub 2014 Aug 7.

PMID:
25109877
[PubMed - in process]
5.

An intronic microRNA links Rb/E2F and EGFR signaling.

Truscott M, Islam AB, Lightfoot J, López-Bigas N, Frolov MV.

PLoS Genet. 2014 Jul 24;10(7):e1004493. doi: 10.1371/journal.pgen.1004493. eCollection 2014 Jul.

PMID:
25058496
[PubMed - in process]
Free PMC Article
6.

Regulation of plant stem cell quiescence by a brassinosteroid signaling module.

Vilarrasa-Blasi J, González-García MP, Frigola D, Fàbregas N, Alexiou KG, López-Bigas N, Rivas S, Jauneau A, Lohmann JU, Benfey PN, Ibañes M, Caño-Delgado AI.

Dev Cell. 2014 Jul 14;30(1):36-47. doi: 10.1016/j.devcel.2014.05.020. Epub 2014 Jun 26.

PMID:
24981610
[PubMed - indexed for MEDLINE]
7.

jHeatmap: an interactive heatmap viewer for the web.

Deu-Pons J, Schroeder MP, Lopez-Bigas N.

Bioinformatics. 2014 Jun 15;30(12):1757-8. doi: 10.1093/bioinformatics/btu094. Epub 2014 Feb 23.

PMID:
24567544
[PubMed - indexed for MEDLINE]
8.

EU Pancreas: an integrated European platform for pancreas cancer research--from basic science to clinical and public health interventions for a rare disease.

Milne R, La Vecchia C, Van Steen K, Hahn S, Buchholz M, Costello E, Esposito I, Hoheisel JD, Lange B, Lopez-Bigas N, Michalski CW, Real FX, Brand A, Malats N.

Public Health Genomics. 2013;16(6):305-12. doi: 10.1159/000355937. Epub 2014 Feb 3.

PMID:
24503591
[PubMed - indexed for MEDLINE]
9.

Mapping of six somatic linker histone H1 variants in human breast cancer cells uncovers specific features of H1.2.

Millán-Ariño L, Islam AB, Izquierdo-Bouldstridge A, Mayor R, Terme JM, Luque N, Sancho M, López-Bigas N, Jordan A.

Nucleic Acids Res. 2014 Apr;42(7):4474-93. doi: 10.1093/nar/gku079. Epub 2014 Jan 29.

PMID:
24476918
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Loss of dE2F compromises mitochondrial function.

Ambrus AM, Islam AB, Holmes KB, Moon NS, Lopez-Bigas N, Benevolenskaya EV, Frolov MV.

Dev Cell. 2013 Nov 25;27(4):438-51. doi: 10.1016/j.devcel.2013.10.002.

PMID:
24286825
[PubMed - indexed for MEDLINE]
11.

Transcriptome characterization by RNA sequencing identifies a major molecular and clinical subdivision in chronic lymphocytic leukemia.

Ferreira PG, Jares P, Rico D, Gómez-López G, Martínez-Trillos A, Villamor N, Ecker S, González-Pérez A, Knowles DG, Monlong J, Johnson R, Quesada V, Djebali S, Papasaikas P, López-Guerra M, Colomer D, Royo C, Cazorla M, Pinyol M, Clot G, Aymerich M, Rozman M, Kulis M, Tamborero D, Gouin A, Blanc J, Gut M, Gut I, Puente XS, Pisano DG, Martin-Subero JI, López-Bigas N, López-Guillermo A, Valencia A, López-Otín C, Campo E, Guigó R.

Genome Res. 2014 Feb;24(2):212-26. doi: 10.1101/gr.152132.112. Epub 2013 Nov 21.

PMID:
24265505
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Comprehensive identification of mutational cancer driver genes across 12 tumor types.

Tamborero D, Gonzalez-Perez A, Perez-Llamas C, Deu-Pons J, Kandoth C, Reimand J, Lawrence MS, Getz G, Bader GD, Ding L, Lopez-Bigas N.

Sci Rep. 2013 Oct 2;3:2650. doi: 10.1038/srep02650.

PMID:
24084849
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

The mutational landscape of chromatin regulatory factors across 4,623 tumor samples.

Gonzalez-Perez A, Jene-Sanz A, Lopez-Bigas N.

Genome Biol. 2013;14(9):r106.

PMID:
24063517
[PubMed - in process]
Free PMC Article
14.

IntOGen-mutations identifies cancer drivers across tumor types.

Gonzalez-Perez A, Perez-Llamas C, Deu-Pons J, Tamborero D, Schroeder MP, Jene-Sanz A, Santos A, Lopez-Bigas N.

Nat Methods. 2013 Nov;10(11):1081-2. doi: 10.1038/nmeth.2642. Epub 2013 Sep 15.

PMID:
24037244
[PubMed - indexed for MEDLINE]
15.

Expression of polycomb targets predicts breast cancer prognosis.

Jene-Sanz A, Váraljai R, Vilkova AV, Khramtsova GF, Khramtsov AI, Olopade OI, Lopez-Bigas N, Benevolenskaya EV.

Mol Cell Biol. 2013 Oct;33(19):3951-61. doi: 10.1128/MCB.00426-13. Epub 2013 Aug 5.

PMID:
23918806
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Computational approaches to identify functional genetic variants in cancer genomes.

Gonzalez-Perez A, Mustonen V, Reva B, Ritchie GR, Creixell P, Karchin R, Vazquez M, Fink JL, Kassahn KS, Pearson JV, Bader GD, Boutros PC, Muthuswamy L, Ouellette BF, Reimand J, Linding R, Shibata T, Valencia A, Butler A, Dronov S, Flicek P, Shannon NB, Carter H, Ding L, Sander C, Stuart JM, Stein LD, Lopez-Bigas N; International Cancer Genome Consortium Mutation Pathways and Consequences Subgroup of the Bioinformatics Analyses Working Group.

Nat Methods. 2013 Aug;10(8):723-9. doi: 10.1038/nmeth.2562.

PMID:
23900255
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

OncodriveCLUST: exploiting the positional clustering of somatic mutations to identify cancer genes.

Tamborero D, Gonzalez-Perez A, Lopez-Bigas N.

Bioinformatics. 2013 Sep 15;29(18):2238-44. doi: 10.1093/bioinformatics/btt395. Epub 2013 Jul 24.

PMID:
23884480
[PubMed - indexed for MEDLINE]
Free Article
18.

Chromatin-bound IκBα regulates a subset of polycomb target genes in differentiation and cancer.

Mulero MC, Ferres-Marco D, Islam A, Margalef P, Pecoraro M, Toll A, Drechsel N, Charneco C, Davis S, Bellora N, Gallardo F, López-Arribillaga E, Asensio-Juan E, Rodilla V, González J, Iglesias M, Shih V, Mar Albà M, Di Croce L, Hoffmann A, Miyamoto S, Villà-Freixa J, López-Bigas N, Keyes WM, Domínguez M, Bigas A, Espinosa L.

Cancer Cell. 2013 Aug 12;24(2):151-66. doi: 10.1016/j.ccr.2013.06.003. Epub 2013 Jul 11.

PMID:
23850221
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Improving data and knowledge management to better integrate health care and research.

Cases M, Furlong LI, Albanell J, Altman RB, Bellazzi R, Boyer S, Brand A, Brookes AJ, Brunak S, Clark TW, Gea J, Ghazal P, Graf N, Guigó R, Klein TE, López-Bigas N, Maojo V, Mons B, Musen M, Oliveira JL, Rowe A, Ruch P, Shabo A, Shortliffe EH, Valencia A, van der Lei J, Mayer MA, Sanz F.

J Intern Med. 2013 Oct;274(4):321-8. doi: 10.1111/joim.12105. Epub 2013 Jul 15. No abstract available.

PMID:
23808970
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

HDAC7 is a repressor of myeloid genes whose downregulation is required for transdifferentiation of pre-B cells into macrophages.

Barneda-Zahonero B, Román-González L, Collazo O, Rafati H, Islam AB, Bussmann LH, di Tullio A, De Andres L, Graf T, López-Bigas N, Mahmoudi T, Parra M.

PLoS Genet. 2013 May;9(5):e1003503. doi: 10.1371/journal.pgen.1003503. Epub 2013 May 16.

PMID:
23696748
[PubMed - indexed for MEDLINE]
Free PMC Article

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