UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein–DNA interactions
Identifieur interne : 001A31 ( Main/Exploration ); précédent : 001A30; suivant : 001A32UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein–DNA interactions
Auteurs : Maxwell A. Hume [États-Unis] ; Luis A. Barrera [États-Unis] ; Stephen S. Gisselbrecht [États-Unis] ; Martha L. Bulyk [États-Unis]Source :
- Nucleic Acids Research [ 0305-1048 ] ; 2014.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , chemistry : DNA.
- chemical , metabolism : DNA, DNA-Binding Proteins, Transcription Factors.
- Algorithms, Databases, Protein, Internet, Nucleotide Motifs, Protein Array Analysis, Software.
Abstract
The Universal PBM Resource for Oligonucleotide Binding Evaluation (UniPROBE) serves as a convenient source of information on published data generated using universal protein-binding microarray (PBM) technology, which provides
Url:
DOI: 10.1093/nar/gku1045
PubMed: 25378322
PubMed Central: 4383892
Affiliations:
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Le document en format XML
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<term>Analyse par réseau de protéines</term>
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<front><div type="abstract" xml:lang="en"><p>The Universal PBM Resource for Oligonucleotide Binding Evaluation (UniPROBE) serves as a convenient source of information on published data generated using universal protein-binding microarray (PBM) technology, which provides <italic>in vitro</italic>
data about the relative DNA-binding preferences of transcription factors for all possible sequence variants of a length <italic>k</italic>
(‘<italic>k</italic>
-mers’). The database displays important information about the proteins and displays their DNA-binding specificity data in terms of <italic>k</italic>
-mers, position weight matrices and graphical sequence logos. This update to the database documents the growth of UniPROBE since the last update 4 years ago, and introduces a variety of new features and tools, including a new streamlined pipeline that facilitates data deposition by universal PBM data generators in the research community, a tool that generates putative nonbinding (i.e. negative control) DNA sequences for one or more proteins and novel motifs obtained by analyzing the PBM data using the BEEML-PBM algorithm for motif inference. The UniPROBE database is available at <ext-link ext-link-type="uri" xlink:href="http://uniprobe.org">http://uniprobe.org</ext-link>
.</p>
</div>
</front>
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