Stuart JM - Search Results

1

The NIH BD2K center for big data in translational genomics.

Paten B, Diekhans M, Druker BJ, Friend S, Guinney J, Gassner N, Guttman M, Kent WJ, Mantey P, Margolin AA, Massie M, Novak AM, Nothaft F, Pachter L, Patterson D, Smuga-Otto M, Stuart JM, Van't Veer L, Wold B, Haussler D. Paten B, et al. Among authors: stuart jm. J Am Med Inform Assoc. 2015 Nov;22(6):1143-7. doi: 10.1093/jamia/ocv047. Epub 2015 Jul 13. J Am Med Inform Assoc. 2015. PMID: 26174866 Free PMC article.

2

HALO384: a halo-based potency prediction algorithm for high-throughput detection of antimicrobial agents.

Woehrmann MH, Gassner NC, Bray WM, Stuart JM, Lokey S. Woehrmann MH, et al. Among authors: stuart jm. J Biomol Screen. 2010 Feb;15(2):196-205. doi: 10.1177/1087057109355060. Epub 2010 Jan 19. J Biomol Screen. 2010. PMID: 20086209

3

Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM.

Vaske CJ, Benz SC, Sanborn JZ, Earl D, Szeto C, Zhu J, Haussler D, Stuart JM. Vaske CJ, et al. Among authors: stuart jm. Bioinformatics. 2010 Jun 15;26(12):i237-45. doi: 10.1093/bioinformatics/btq182. Bioinformatics. 2010. PMID: 20529912 Free PMC article.

4

The UCSC Cancer Genomics Browser: update 2011.

Sanborn JZ, Benz SC, Craft B, Szeto C, Kober KM, Meyer L, Vaske CJ, Goldman M, Smith KE, Kuhn RM, Karolchik D, Kent WJ, Stuart JM, Haussler D, Zhu J. Sanborn JZ, et al. Among authors: stuart jm. Nucleic Acids Res. 2011 Jan;39(Database issue):D951-9. doi: 10.1093/nar/gkq1113. Epub 2010 Nov 8. Nucleic Acids Res. 2011. PMID: 21059681 Free PMC article.

5

PARADIGM-SHIFT predicts the function of mutations in multiple cancers using pathway impact analysis.

Ng S, Collisson EA, Sokolov A, Goldstein T, Gonzalez-Perez A, Lopez-Bigas N, Benz C, Haussler D, Stuart JM. Ng S, et al. Among authors: stuart jm. Bioinformatics. 2012 Sep 15;28(18):i640-i646. doi: 10.1093/bioinformatics/bts402. Bioinformatics. 2012. PMID: 22962493 Free PMC article.

6

The UCSC Cancer Genomics Browser: update 2013.

Goldman M, Craft B, Swatloski T, Ellrott K, Cline M, Diekhans M, Ma S, Wilks C, Stuart J, Haussler D, Zhu J. Goldman M, et al. Nucleic Acids Res. 2013 Jan;41(Database issue):D949-54. doi: 10.1093/nar/gks1008. Epub 2012 Oct 29. Nucleic Acids Res. 2013. PMID: 23109555 Free PMC article.

7

The UCSC Interaction Browser: multidimensional data views in pathway context.

Wong CK, Vaske CJ, Ng S, Sanborn JZ, Benz SC, Haussler D, Stuart JM. Wong CK, et al. Among authors: stuart jm. Nucleic Acids Res. 2013 Jul;41(Web Server issue):W218-24. doi: 10.1093/nar/gkt473. Epub 2013 Jun 8. Nucleic Acids Res. 2013. PMID: 23748957 Free PMC article.

8

Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE).

Paull EO, Carlin DE, Niepel M, Sorger PK, Haussler D, Stuart JM. Paull EO, et al. Among authors: stuart jm. Bioinformatics. 2013 Nov 1;29(21):2757-64. doi: 10.1093/bioinformatics/btt471. Epub 2013 Aug 27. Bioinformatics. 2013. PMID: 23986566 Free PMC article.

9

Enabling transparent and collaborative computational analysis of 12 tumor types within The Cancer Genome Atlas.

Omberg L, Ellrott K, Yuan Y, Kandoth C, Wong C, Kellen MR, Friend SH, Stuart J, Liang H, Margolin AA. Omberg L, et al. Nat Genet. 2013 Oct;45(10):1121-6. doi: 10.1038/ng.2761. Nat Genet. 2013. PMID: 24071850 Free PMC article.

10

Global optimization of somatic variant identification in cancer genomes with a global community challenge.

Boutros PC, Ewing AD, Ellrott K, Norman TC, Dang KK, Hu Y, Kellen MR, Suver C, Bare JC, Stein LD, Spellman PT, Stolovitzky G, Friend SH, Margolin AA, Stuart JM. Boutros PC, et al. Among authors: stuart jm. Nat Genet. 2014 Apr;46(4):318-319. doi: 10.1038/ng.2932. Nat Genet. 2014. PMID: 24675517 Free PMC article. No abstract available.

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