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    Genome surveyor 2.0: cis-regulatory analysis in Drosophila

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    Nucl._Acids_Res._2011_Kazemian ...
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    Authors
    Kazemian, Majid
    Brodsky, Michael H.
    Sinha, Saurabh
    UMass Chan Affiliations
    Program in Molecular Medicine
    Program in Gene Function and Expression
    Document Type
    Journal Article
    Publication Date
    2011-07-01
    Keywords
    Transcription Factors
    Enhancer Elements, Genetic
    Drosophila Proteins
    Regulatory Elements, Transcriptionals
    Genetics and Genomics
    
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    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 approximately 100 to approximately 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.
    Source
    Nucleic Acids Res. 2011 Jul;39(Web Server issue):W79-85. Epub 2011 May 18. Link to article on publisher's site
    DOI
    10.1093/nar/gkr291
    Permanent Link to this Item
    http://hdl.handle.net/20.500.14038/43940
    PubMed ID
    21593125
    Related Resources
    Link to Article in PubMed
    Rights
    © The Author(s) 2011. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
    ae974a485f413a2113503eed53cd6c53
    10.1093/nar/gkr291
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