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Items: 1 to 20 of 22

1.

Systematic Functional Interrogation of Rare Cancer Variants Identifies Oncogenic Alleles.

Kim E, Ilic N, Shrestha Y, Zou L, Kamburov A, Zhu C, Yang X, Lubonja R, Tran N, Nguyen C, Lawrence MS, Piccioni F, Bagul M, Doench JG, Chouinard CR, Wu X, Hogstrom L, Natoli T, Tamayo P, Horn H, Corsello SM, Lage K, Root DE, Subramanian A, Golub TR, Getz G, Boehm JS, Hahn WC.

Cancer Discov. 2016 Jul;6(7):714-26. doi: 10.1158/2159-8290.CD-16-0160. Epub 2016 May 4.

PMID:
27147599
2.

Somatic ERCC2 mutations are associated with a distinct genomic signature in urothelial tumors.

Kim J, Mouw KW, Polak P, Braunstein LZ, Kamburov A, Tiao G, Kwiatkowski DJ, Rosenberg JE, Van Allen EM, D'Andrea AD, Getz G.

Nat Genet. 2016 Jun;48(6):600-6. doi: 10.1038/ng.3557. Epub 2016 Apr 25.

PMID:
27111033
3.

ToxDB: pathway-level interpretation of drug-treatment data.

Hardt C, Beber ME, Rasche A, Kamburov A, Hebels DG, Kleinjans JC, Herwig R.

Database (Oxford). 2016 Apr 13;2016. pii: baw052. doi: 10.1093/database/baw052. Print 2016.

4.

Mutational Strand Asymmetries in Cancer Genomes Reveal Mechanisms of DNA Damage and Repair.

Haradhvala NJ, Polak P, Stojanov P, Covington KR, Shinbrot E, Hess JM, Rheinbay E, Kim J, Maruvka YE, Braunstein LZ, Kamburov A, Hanawalt PC, Wheeler DA, Koren A, Lawrence MS, Getz G.

Cell. 2016 Jan 28;164(3):538-49. doi: 10.1016/j.cell.2015.12.050. Epub 2016 Jan 21.

PMID:
26806129
5.

Comprehensive assessment of cancer missense mutation clustering in protein structures.

Kamburov A, Lawrence MS, Polak P, Leshchiner I, Lage K, Golub TR, Lander ES, Getz G.

Proc Natl Acad Sci U S A. 2015 Oct 6;112(40):E5486-95. doi: 10.1073/pnas.1516373112. Epub 2015 Sep 21.

6.

Widespread macromolecular interaction perturbations in human genetic disorders.

Sahni N, Yi S, Taipale M, Fuxman Bass JI, Coulombe-Huntington J, Yang F, Peng J, Weile J, Karras GI, Wang Y, Kovács IA, Kamburov A, Krykbaeva I, Lam MH, Tucker G, Khurana V, Sharma A, Liu YY, Yachie N, Zhong Q, Shen Y, Palagi A, San-Miguel A, Fan C, Balcha D, Dricot A, Jordan DM, Walsh JM, Shah AA, Yang X, Stoyanova AK, Leighton A, Calderwood MA, Jacob Y, Cusick ME, Salehi-Ashtiani K, Whitesell LJ, Sunyaev S, Berger B, Barabási AL, Charloteaux B, Hill DE, Hao T, Roth FP, Xia Y, Walhout AJ, Lindquist S, Vidal M.

Cell. 2015 Apr 23;161(3):647-60. doi: 10.1016/j.cell.2015.04.013.

7.

A proteome-scale map of the human interactome network.

Rolland T, Taşan M, Charloteaux B, Pevzner SJ, Zhong Q, Sahni N, Yi S, Lemmens I, Fontanillo C, Mosca R, Kamburov A, Ghiassian SD, Yang X, Ghamsari L, Balcha D, Begg BE, Braun P, Brehme M, Broly MP, Carvunis AR, Convery-Zupan D, Corominas R, Coulombe-Huntington J, Dann E, Dreze M, Dricot A, Fan C, Franzosa E, Gebreab F, Gutierrez BJ, Hardy MF, Jin M, Kang S, Kiros R, Lin GN, Luck K, MacWilliams A, Menche J, Murray RR, Palagi A, Poulin MM, Rambout X, Rasla J, Reichert P, Romero V, Ruyssinck E, Sahalie JM, Scholz A, Shah AA, Sharma A, Shen Y, Spirohn K, Tam S, Tejeda AO, Trigg SA, Twizere JC, Vega K, Walsh J, Cusick ME, Xia Y, Barabási AL, Iakoucheva LM, Aloy P, De Las Rivas J, Tavernier J, Calderwood MA, Hill DE, Hao T, Roth FP, Vidal M.

Cell. 2014 Nov 20;159(5):1212-26. doi: 10.1016/j.cell.2014.10.050.

8.

Dual coordination of post translational modifications in human protein networks.

Woodsmith J, Kamburov A, Stelzl U.

PLoS Comput Biol. 2013;9(3):e1002933. doi: 10.1371/journal.pcbi.1002933. Epub 2013 Mar 7.

9.

The ConsensusPathDB interaction database: 2013 update.

Kamburov A, Stelzl U, Lehrach H, Herwig R.

Nucleic Acids Res. 2013 Jan;41(Database issue):D793-800. doi: 10.1093/nar/gks1055. Epub 2012 Nov 11.

10.

Cluster-based assessment of protein-protein interaction confidence.

Kamburov A, Grossmann A, Herwig R, Stelzl U.

BMC Bioinformatics. 2012 Oct 10;13:262. doi: 10.1186/1471-2105-13-262.

11.

IntScore: a web tool for confidence scoring of biological interactions.

Kamburov A, Stelzl U, Herwig R.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W140-6. doi: 10.1093/nar/gks492. Epub 2012 May 30.

12.

DIPSBC--data integration platform for systems biology collaborations.

Dreher F, Kreitler T, Hardt C, Kamburov A, Yildirimman R, Schellander K, Lehrach H, Lange BM, Herwig R.

BMC Bioinformatics. 2012 May 8;13:85. doi: 10.1186/1471-2105-13-85.

13.

Dynamic protein-protein interaction wiring of the human spliceosome.

Hegele A, Kamburov A, Grossmann A, Sourlis C, Wowro S, Weimann M, Will CL, Pena V, Lührmann R, Stelzl U.

Mol Cell. 2012 Feb 24;45(4):567-80. doi: 10.1016/j.molcel.2011.12.034.

14.

Construction of a pig physical interactome using sequence homology and a comprehensive reference human interactome.

Dreher F, Kamburov A, Herwig R.

Evol Bioinform Online. 2012;8:119-26. doi: 10.4137/EBO.S8552. Epub 2012 Jan 24.

15.

Integrated pathway-level analysis of transcriptomics and metabolomics data with IMPaLA.

Kamburov A, Cavill R, Ebbels TM, Herwig R, Keun HC.

Bioinformatics. 2011 Oct 15;27(20):2917-8. doi: 10.1093/bioinformatics/btr499. Epub 2011 Sep 4.

16.

Human embryonic stem cell derived hepatocyte-like cells as a tool for in vitro hazard assessment of chemical carcinogenicity.

Yildirimman R, Brolén G, Vilardell M, Eriksson G, Synnergren J, Gmuender H, Kamburov A, Ingelman-Sundberg M, Castell J, Lahoz A, Kleinjans J, van Delft J, Björquist P, Herwig R.

Toxicol Sci. 2011 Dec;124(2):278-90. doi: 10.1093/toxsci/kfr225. Epub 2011 Aug 27.

17.

Consensus-phenotype integration of transcriptomic and metabolomic data implies a role for metabolism in the chemosensitivity of tumour cells.

Cavill R, Kamburov A, Ellis JK, Athersuch TJ, Blagrove MS, Herwig R, Ebbels TM, Keun HC.

PLoS Comput Biol. 2011 Mar;7(3):e1001113. doi: 10.1371/journal.pcbi.1001113. Epub 2011 Mar 31.

18.

ConsensusPathDB: toward a more complete picture of cell biology.

Kamburov A, Pentchev K, Galicka H, Wierling C, Lehrach H, Herwig R.

Nucleic Acids Res. 2011 Jan;39(Database issue):D712-7. doi: 10.1093/nar/gkq1156. Epub 2010 Nov 11.

19.

Evidence mining and novelty assessment of protein-protein interactions with the ConsensusPathDB plugin for Cytoscape.

Pentchev K, Ono K, Herwig R, Ideker T, Kamburov A.

Bioinformatics. 2010 Nov 1;26(21):2796-7. doi: 10.1093/bioinformatics/btq522. Epub 2010 Sep 16.

20.

An atlas of combinatorial transcriptional regulation in mouse and man.

Ravasi T, Suzuki H, Cannistraci CV, Katayama S, Bajic VB, Tan K, Akalin A, Schmeier S, Kanamori-Katayama M, Bertin N, Carninci P, Daub CO, Forrest AR, Gough J, Grimmond S, Han JH, Hashimoto T, Hide W, Hofmann O, Kamburov A, Kaur M, Kawaji H, Kubosaki A, Lassmann T, van Nimwegen E, MacPherson CR, Ogawa C, Radovanovic A, Schwartz A, Teasdale RD, Tegnér J, Lenhard B, Teichmann SA, Arakawa T, Ninomiya N, Murakami K, Tagami M, Fukuda S, Imamura K, Kai C, Ishihara R, Kitazume Y, Kawai J, Hume DA, Ideker T, Hayashizaki Y.

Cell. 2010 Mar 5;140(5):744-52. doi: 10.1016/j.cell.2010.01.044. Erratum in: Cell. 2010 Apr 16;141(2):369. Kamburov, Atanas [added]; Kaur, Mandeep [added]; MacPherson, Cameron Ross [added]; Radovanovic, Aleksandar [added]; Schwartz, Ariel [added].

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