Genome surveyor 2.0: Cis-regulatory analysis in Drosophila

Majid Kazemian, Michael H. Brodsky, Saurabh Sinha

Research output: Contribution to journalArticlepeer-review

Abstract

Genome Surveyor 2.0 is a web-based tool for discovery and analysis of cis-regulatory elements in Drosophila, built on top of the GBrowse genome browser for convenient visualization. Genome Surveyor was developed as a tool for predicting transcription factor (TF) binding targets and cis-regulatory modules (CRMs/enhancers), based on motifs representing experimentally determined DNA binding specificities. Since its first publication, we have added substantial new functionality (e.g. phylogenetic averaging of motif scores from multiple species, and a novel CRM discovery technique), increased the number of supported motifs about 4-fold (from ∼100 to ∼400), added provisions for evolutionary comparison across many more Drosophila species (from 2 to 12), and improved the user-interface. The server is free and open to all users, and there is no login requirement. Address: http://veda.cs.uiuc.edu/gs.

Original languageEnglish (US)
Pages (from-to)W79-W85
JournalNucleic acids research
Volume39
Issue numberSUPPL. 2
DOIs
StatePublished - Jul 1 2011

ASJC Scopus subject areas

  • Genetics

Fingerprint Dive into the research topics of 'Genome surveyor 2.0: Cis-regulatory analysis in Drosophila'. Together they form a unique fingerprint.

Cite this