Title

Using networks to measure similarity between genes: association index selection

UMMS Affiliation

Program in Systems Biology; Program in Molecular Medicine

Date

11-26-2013

Document Type

Article

Disciplines

Computational Biology | Genetics and Genomics | Systems Biology

Abstract

Biological networks can be used to functionally annotate genes on the basis of interaction-profile similarities. Metrics known as association indices can be used to quantify interaction-profile similarity. We provide an overview of commonly used association indices, including the Jaccard index and the Pearson correlation coefficient, and compare their performance in different types of analyses of biological networks. We introduce the Guide for Association Index for Networks (GAIN), a web tool for calculating and comparing interaction-profile similarities and defining modules of genes with similar profiles.

Rights and Permissions

Citation: Fuxman Bass JI, Diallo A, Nelson J, Soto JM, Myers CL, Walhout AJ. Using networks to measure similarity between genes: association index selection. Nat Methods. 2013 Nov 26;10(12):1169-76. doi: 10.1038/nmeth.2728. Link to article on publisher's site

Related Resources

Link to Article in PubMed

Journal Title

Nature methods

PubMed ID

24296474