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Items: 1 to 20 of 146

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.

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.

7.

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.

8.

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
9.

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
10.

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

Smith P.

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

PMID:
11669609
11.

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.

12.

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.

13.

Convergent perturbation of the human domain-resolved interactome by viruses and mutations inducing similar disease phenotypes.

Chen YF, Xia Y.

PLoS Comput Biol. 2019 Feb 13;15(2):e1006762. doi: 10.1371/journal.pcbi.1006762. eCollection 2019 Feb.

14.

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.

15.

Our changing view of the genomic landscape of cancer.

Bell DW.

J Pathol. 2010 Jan;220(2):231-43. doi: 10.1002/path.2645. Review.

16.

Systematic Prioritization of Druggable Mutations in ∼5000 Genomes Across 16 Cancer Types Using a Structural Genomics-based Approach.

Zhao J, Cheng F, Wang Y, Arteaga CL, Zhao Z.

Mol Cell Proteomics. 2016 Feb;15(2):642-56. doi: 10.1074/mcp.M115.053199. Epub 2015 Dec 9.

17.

Identification of coding and non-coding mutational hotspots in cancer genomes.

Piraino SW, Furney SJ.

BMC Genomics. 2017 Jan 5;18(1):17. doi: 10.1186/s12864-016-3420-9.

18.

Integrative identification of Epstein-Barr virus-associated mutations and epigenetic alterations in gastric cancer.

Liang Q, Yao X, Tang S, Zhang J, Yau TO, Li X, Tang CM, Kang W, Lung RW, Li JW, Chan TF, Xing R, Lu Y, Lo KW, Wong N, To KF, Yu C, Chan FK, Sung JJ, Yu J.

Gastroenterology. 2014 Dec;147(6):1350-62.e4. doi: 10.1053/j.gastro.2014.08.036. Epub 2014 Aug 28.

19.

The tumor virus landscape of AIDS-related lymphomas.

Arvey A, Ojesina AI, Pedamallu CS, Ballon G, Jung J, Duke F, Leoncini L, De Falco G, Bressman E, Tam W, Chadburn A, Meyerson M, Cesarman E.

Blood. 2015 May 14;125(20):e14-22. doi: 10.1182/blood-2014-11-599951. Epub 2015 Mar 31.

20.

Viral immune modulators perturb the human molecular network by common and unique strategies.

Pichlmair A, Kandasamy K, Alvisi G, Mulhern O, Sacco R, Habjan M, Binder M, Stefanovic A, Eberle CA, Goncalves A, Bürckstümmer T, Müller AC, Fauster A, Holze C, Lindsten K, Goodbourn S, Kochs G, Weber F, Bartenschlager R, Bowie AG, Bennett KL, Colinge J, Superti-Furga G.

Nature. 2012 Jul 26;487(7408):486-90. doi: 10.1038/nature11289.

PMID:
22810585

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