iRefIndex Citations

Some studies making use of iRefIndex

2010

Choi H, Larsen B, Lin ZY, Breitkreutz A, Mellacheruvu D, Fermin D, Qin ZS, Tyers M, Gingras AC, Nesvizhskii AI: SAINT: probabilistic scoring of affinity purification-mass spectrometry data. Nat Methods, 8(1):70-73.

Jain S, Bader GD: An improved method for scoring protein-protein interactions using semantic similarity within the gene ontology. BMC Bioinformatics, 11:562.

Turinsky AL, Turner B, Borja RC, Gleeson JA, Heath M, Pu S, Switzer T, Dong D, Gong Y, On T et al: DAnCER: Disease-Annotated Chromatin Epigenetics Resource. Nucleic Acids Res.

Croft D, O'Kelly G, Wu G, Haw R, Gillespie M, Matthews L, Caudy M, Garapati P, Gopinath G, Jassal B et al: Reactome: a database of reactions, pathways and biological processes. Nucleic Acids Res, 39(Database issue):D691-697.

2011

Valsesia A, Rimoldi D, Martinet D, Ibberson M, Benaglio P, Quadroni M, Waridel P, Gaillard M, Pidoux M, Rapin B, Rivolta C, Xenarios I, Simpson AJ, Antonarakis SE, Beckmann JS, Jongeneel CV, Iseli C, Stevenson BJ. Network-Guided Analysis of Genes with Altered Somatic Copy Number and Gene Expression Reveals Pathways Commonly Perturbed in Metastatic Melanoma. PLoS One. 2011 Apr 8;6(4):e18369. PubMed PMID 21494657.

Zhang KX, Ouellette BF. CAERUS: Predicting CAncER oUtcomeS Using Relationship between Protein Structural Information, Protein Networks, Gene Expression Data, and Mutation Data. PLoS Comput Biol. 2011 Mar;7(3):e1001114. Epub 2011 Mar 31. PubMed PMID 21483478

Gillis J, Pavlidis P. The role of indirect connections in gene networks in predicting function. Bioinformatics. 2011 May 6. [Epub ahead of print] PubMed PMID 21551147

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