Journal
NATURE METHODS
Volume 10, Issue 12, Pages 1169-1176Publisher
NATURE RESEARCH
DOI: 10.1038/NMETH.2728
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Funding
- US National Institutes of Health [DK068429, GM082971]
- Pew Latin American Fellows Program
- US National Science Foundation [DBI-0953881]
- Direct For Biological Sciences
- Div Of Biological Infrastructure [0953881] Funding Source: National Science Foundation
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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.
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