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Items: 1 to 20 of 177

1.

Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins.

Rozenblatt-Rosen O, Deo RC, Padi M, Adelmant G, Calderwood MA, Rolland T, Grace M, Dricot A, Askenazi M, Tavares M, Pevzner SJ, Abderazzaq F, Byrdsong D, Carvunis AR, Chen AA, Cheng J, Correll M, Duarte M, Fan C, Feltkamp MC, Ficarro SB, Franchi R, Garg BK, Gulbahce N, Hao T, Holthaus AM, James R, Korkhin A, Litovchick L, Mar JC, Pak TR, Rabello S, Rubio R, Shen Y, Singh S, Spangle JM, Tasan M, Wanamaker S, Webber JT, Roecklein-Canfield J, Johannsen E, Barabási AL, Beroukhim R, Kieff E, Cusick ME, Hill DE, Münger K, Marto JA, Quackenbush J, Roth FP, DeCaprio JA, Vidal M.

Nature. 2012 Jul 26;487(7408):491-5. doi: 10.1038/nature11288.

2.

[Are tumors caused by DNA viruses?].

Hirt B.

Pathol Microbiol (Basel). 1973;39(1):24-31. German. No abstract available.

PMID:
4349815
3.

Viral perturbations of host networks reflect disease etiology.

Gulbahce N, Yan H, Dricot A, Padi M, Byrdsong D, Franchi R, Lee DS, Rozenblatt-Rosen O, Mar JC, Calderwood MA, Baldwin A, Zhao B, Santhanam B, Braun P, Simonis N, Huh KW, Hellner K, Grace M, Chen A, Rubio R, Marto JA, Christakis NA, Kieff E, Roth FP, Roecklein-Canfield J, Decaprio JA, Cusick ME, Quackenbush J, Hill DE, Münger K, Vidal M, Barabási AL.

PLoS Comput Biol. 2012;8(6):e1002531. doi: 10.1371/journal.pcbi.1002531. Epub 2012 Jun 28.

4.

The landscape of viral expression and host gene fusion and adaptation in human cancer.

Tang KW, Alaei-Mahabadi B, Samuelsson T, Lindh M, Larsson E.

Nat Commun. 2013;4:2513. doi: 10.1038/ncomms3513.

5.

Virus-human cell interactomes.

Tafforeau L, Rabourdin-Combe C, Lotteau V.

Methods Mol Biol. 2012;812:103-20. doi: 10.1007/978-1-61779-455-1_6.

PMID:
22218856
6.

Characterizing genomic alterations in cancer by complementary functional associations.

Kim JW, Botvinnik OB, Abudayyeh O, Birger C, Rosenbluh J, Shrestha Y, Abazeed ME, Hammerman PS, DiCara D, Konieczkowski DJ, Johannessen CM, Liberzon A, Alizad-Rahvar AR, Alexe G, Aguirre A, Ghandi M, Greulich H, Vazquez F, Weir BA, Van Allen EM, Tsherniak A, Shao DD, Zack TI, Noble M, Getz G, Beroukhim R, Garraway LA, Ardakani M, Romualdi C, Sales G, Barbie DA, Boehm JS, Hahn WC, Mesirov JP, Tamayo P.

Nat Biotechnol. 2016 May;34(5):539-46. doi: 10.1038/nbt.3527. Epub 2016 Apr 18.

7.

Germline fitness-based scoring of cancer mutations.

Fischer A, Greenman C, Mustonen V.

Genetics. 2011 Jun;188(2):383-93. doi: 10.1534/genetics.111.127480. Epub 2011 Mar 24.

8.

Network analysis of genomic alteration profiles reveals co-altered functional modules and driver genes for glioblastoma.

Gu Y, Wang H, Qin Y, Zhang Y, Zhao W, Qi L, Zhang Y, Wang C, Guo Z.

Mol Biosyst. 2013 Mar;9(3):467-77. doi: 10.1039/c2mb25528f. Epub 2013 Jan 23.

PMID:
23344900
9.

Exploration of panviral proteome: high-throughput cloning and functional implications in virus-host interactions.

Yu X, Bian X, Throop A, Song L, Moral LD, Park J, Seiler C, Fiacco M, Steel J, Hunter P, Saul J, Wang J, Qiu J, Pipas JM, LaBaer J.

Theranostics. 2014 Jun 6;4(8):808-22. doi: 10.7150/thno.8255. eCollection 2014.

10.

De novo discovery of mutated driver pathways in cancer.

Vandin F, Upfal E, Raphael BJ.

Genome Res. 2012 Feb;22(2):375-85. doi: 10.1101/gr.120477.111. Epub 2011 Jun 7.

11.

Systems biology of virus-host signaling network interactions.

Xue Q, Miller-Jensen K.

BMB Rep. 2012 Apr;45(4):213-20. Review.

12.

Predictive genomics: a cancer hallmark network framework for predicting tumor clinical phenotypes using genome sequencing data.

Wang E, Zaman N, Mcgee S, Milanese JS, Masoudi-Nejad A, O'Connor-McCourt M.

Semin Cancer Biol. 2015 Feb;30:4-12. doi: 10.1016/j.semcancer.2014.04.002. Epub 2014 Apr 18. Review.

PMID:
24747696
13.

Human tumor-associated viruses and new insights into the molecular mechanisms of cancer.

Martin D, Gutkind JS.

Oncogene. 2008 Dec;27 Suppl 2:S31-42. doi: 10.1038/onc.2009.351. Review.

PMID:
19956178
14.

Epstein-Barr virus complementary strand transcripts (CSTs/BARTs) and cancer.

Smith P.

Semin Cancer Biol. 2001 Dec;11(6):469-76. Review.

PMID:
11669609
15.

Comparative analysis of protein interactome networks prioritizes candidate genes with cancer signatures.

Li Y, Sahni N, Yi S.

Oncotarget. 2016 Nov 29;7(48):78841-78849. doi: 10.18632/oncotarget.12879.

16.

Patterns of somatic mutation in human cancer genomes.

Greenman C, Stephens P, Smith R, Dalgliesh GL, Hunter C, Bignell G, Davies H, Teague J, Butler A, Stevens C, Edkins S, O'Meara S, Vastrik I, Schmidt EE, Avis T, Barthorpe S, Bhamra G, Buck G, Choudhury B, Clements J, Cole J, Dicks E, Forbes S, Gray K, Halliday K, Harrison R, Hills K, Hinton J, Jenkinson A, Jones D, Menzies A, Mironenko T, Perry J, Raine K, Richardson D, Shepherd R, Small A, Tofts C, Varian J, Webb T, West S, Widaa S, Yates A, Cahill DP, Louis DN, Goldstraw P, Nicholson AG, Brasseur F, Looijenga L, Weber BL, Chiew YE, DeFazio A, Greaves MF, Green AR, Campbell P, Birney E, Easton DF, Chenevix-Trench G, Tan MH, Khoo SK, Teh BT, Yuen ST, Leung SY, Wooster R, Futreal PA, Stratton MR.

Nature. 2007 Mar 8;446(7132):153-8.

17.

DrGaP: a powerful tool for identifying driver genes and pathways in cancer sequencing studies.

Hua X, Xu H, Yang Y, Zhu J, Liu P, Lu Y.

Am J Hum Genet. 2013 Sep 5;93(3):439-51. doi: 10.1016/j.ajhg.2013.07.003. Epub 2013 Aug 15.

18.

An integrative multi-dimensional genetic and epigenetic strategy to identify aberrant genes and pathways in cancer.

Chari R, Coe BP, Vucic EA, Lockwood WW, Lam WL.

BMC Syst Biol. 2010 May 17;4:67. doi: 10.1186/1752-0509-4-67.

19.

Poxvirus host range genes.

Werden SJ, Rahman MM, McFadden G.

Adv Virus Res. 2008;71:135-71. doi: 10.1016/S0065-3527(08)00003-1. Review.

PMID:
18585528
20.

Probabilistic model of the human protein-protein interaction network.

Rhodes DR, Tomlins SA, Varambally S, Mahavisno V, Barrette T, Kalyana-Sundaram S, Ghosh D, Pandey A, Chinnaiyan AM.

Nat Biotechnol. 2005 Aug;23(8):951-9.

PMID:
16082366

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