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Items: 1 to 20 of 76

1.

Pathprinting: An integrative approach to understand the functional basis of disease.

Altschuler GM, Hofmann O, Kalatskaya I, Payne R, Ho Sui SJ, Saxena U, Krivtsov AV, Armstrong SA, Cai T, Stein L, Hide WA.

Genome Med. 2013 Jul 26;5(7):68. doi: 10.1186/gm472. eCollection 2013.

2.

Statistical Test of Expression Pattern (STEPath): a new strategy to integrate gene expression data with genomic information in individual and meta-analysis studies.

Martini P, Risso D, Sales G, Romualdi C, Lanfranchi G, Cagnin S.

BMC Bioinformatics. 2011 Apr 11;12:92. doi: 10.1186/1471-2105-12-92.

3.

Large-scale integrative network-based analysis identifies common pathways disrupted by copy number alterations across cancers.

Hwang TH, Atluri G, Kuang R, Kumar V, Starr T, Silverstein KA, Haverty PM, Zhang Z, Liu J.

BMC Genomics. 2013 Jul 3;14:440. doi: 10.1186/1471-2164-14-440.

4.

Understanding cellular function and disease with comparative pathway analysis.

Davis MJ, Ragan MA.

Genome Med. 2013 Jul 26;5(7):64. doi: 10.1186/gm468. eCollection 2013.

5.

IntPath--an integrated pathway gene relationship database for model organisms and important pathogens.

Zhou H, Jin J, Zhang H, Yi B, Wozniak M, Wong L.

BMC Syst Biol. 2012;6 Suppl 2:S2. doi: 10.1186/1752-0509-6-S2-S2. Epub 2012 Dec 12.

6.
7.

Integrative analysis of RUNX1 downstream pathways and target genes.

Michaud J, Simpson KM, Escher R, Buchet-Poyau K, Beissbarth T, Carmichael C, Ritchie ME, Sch├╝tz F, Cannon P, Liu M, Shen X, Ito Y, Raskind WH, Horwitz MS, Osato M, Turner DR, Speed TP, Kavallaris M, Smyth GK, Scott HS.

BMC Genomics. 2008 Jul 31;9:363. doi: 10.1186/1471-2164-9-363.

8.

Detailing regulatory networks through large scale data integration.

Huttenhower C, Mutungu KT, Indik N, Yang W, Schroeder M, Forman JJ, Troyanskaya OG, Coller HA.

Bioinformatics. 2009 Dec 15;25(24):3267-74. doi: 10.1093/bioinformatics/btp588. Epub 2009 Oct 13.

9.

Cross-species and cross-platform gene expression studies with the Bioconductor-compliant R package 'annotationTools'.

Kuhn A, Luthi-Carter R, Delorenzi M.

BMC Bioinformatics. 2008 Jan 17;9:26. doi: 10.1186/1471-2105-9-26.

10.

STARNET 2: a web-based tool for accelerating discovery of gene regulatory networks using microarray co-expression data.

Jupiter D, Chen H, VanBuren V.

BMC Bioinformatics. 2009 Oct 14;10:332. doi: 10.1186/1471-2105-10-332.

11.

Gene Expression Browser: large-scale and cross-experiment microarray data integration, management, search & visualization.

Zhang M, Zhang Y, Liu L, Yu L, Tsang S, Tan J, Yao W, Kang MS, An Y, Fan X.

BMC Bioinformatics. 2010 Aug 20;11:433. doi: 10.1186/1471-2105-11-433.

12.

Network legos: building blocks of cellular wiring diagrams.

Murali TM, Rivera CG.

J Comput Biol. 2008 Sep;15(7):829-44. doi: 10.1089/cmb.2007.0139.

PMID:
18707557
13.

FNTM: a server for predicting functional networks of tissues in mouse.

Goya J, Wong AK, Yao V, Krishnan A, Homilius M, Troyanskaya OG.

Nucleic Acids Res. 2015 Jul 1;43(W1):W182-7. doi: 10.1093/nar/gkv443. Epub 2015 May 4.

14.

Integrative approaches for finding modular structure in biological networks.

Mitra K, Carvunis AR, Ramesh SK, Ideker T.

Nat Rev Genet. 2013 Oct;14(10):719-32. doi: 10.1038/nrg3552. Review.

15.

Functional annotation from predicted protein interaction networks.

McDermott J, Bumgarner R, Samudrala R.

Bioinformatics. 2005 Aug 1;21(15):3217-26. Epub 2005 May 26.

PMID:
15919725
16.

Integrative meta-analysis of differential gene expression in acute myeloid leukemia.

Miller BG, Stamatoyannopoulos JA.

PLoS One. 2010 Mar 1;5(3):e9466. doi: 10.1371/journal.pone.0009466.

17.

Matching experiments across species using expression values and textual information.

Wise A, Oltvai ZN, Bar-Joseph Z.

Bioinformatics. 2012 Jun 15;28(12):i258-64. doi: 10.1093/bioinformatics/bts205.

18.

Semi-supervised analysis of gene expression profiles for lineage-specific development in the Caenorhabditis elegans embryo.

Qi Y, Missiuro PE, Kapoor A, Hunter CP, Jaakkola TS, Gifford DK, Ge H.

Bioinformatics. 2006 Jul 15;22(14):e417-23.

PMID:
16873502
19.

iBAG: integrative Bayesian analysis of high-dimensional multiplatform genomics data.

Wang W, Baladandayuthapani V, Morris JS, Broom BM, Manyam G, Do KA.

Bioinformatics. 2013 Jan 15;29(2):149-59. doi: 10.1093/bioinformatics/bts655. Epub 2012 Nov 9.

20.

The relative resistance of children to sepsis mortality: from pathways to drug candidates.

Joachim RB, Altschuler GM, Hutchinson JN, Wong HR, Hide WA, Kobzik L.

Mol Syst Biol. 2018 May 17;14(5):e7998. doi: 10.15252/msb.20177998.

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