NetGrep: Fast network schema searches in interactomes

Eric Banks, Elena Nabieva, Ryan Peterson, Mona Singh

Research output: Contribution to journalArticlepeer-review

26 Scopus citations

Abstract

NetGrep (http://genomics.princeton.edu/singhlab/netgrep/) is a system for searching protein interaction networks for matches to user-supplied 'network schemas'. Each schema consists of descriptions of proteins (for example, their molecular functions or putative domains) along with the desired topology and types of interactions among them. Schemas can thus describe domain-domain interactions, signaling and regulatory pathways, or more complex network patterns. NetGrep provides an advanced graphical interface for specifying schemas and fast algorithms for extracting their matches.

Original languageEnglish (US)
Article numberR138
JournalGenome biology
Volume9
Issue number9
DOIs
StatePublished - Sep 18 2008

All Science Journal Classification (ASJC) codes

  • Ecology, Evolution, Behavior and Systematics
  • Genetics
  • Cell Biology

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