UniPROBE: An Online Database of Protein Binding Microarray Data on Protein–DNA Interactions

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UniPROBE: An Online Database of Protein Binding Microarray Data on Protein–DNA Interactions

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dc.contributor.author Newburger, Daniel E.
dc.contributor.author Bulyk, Martha Leonia
dc.date.accessioned 2011-04-27T03:39:33Z
dc.date.issued 2009
dc.identifier.citation Newburger, Daniel E. and Martha L. Bulyk. 2009. UniPROBE: an online database of protein binding microarray data on protein-DNA interactions. Nucleic Acids Research 37: D77-D82. en_US
dc.identifier.issn 0305-1048 en_US
dc.identifier.uri http://nrs.harvard.edu/urn-3:HUL.InstRepos:4878080
dc.description.abstract The UniPROBE (Universal PBM Resource for Oligonucleotide Binding Evaluation) database hosts data generated by universal protein binding microarray (PBM) technology on the in vitro DNA-binding specificities of proteins. This initial release of the UniPROBE database provides a centralized resource for accessing comprehensive PBM data on the preferences of proteins for all possible sequence variants (‘words’) of length k (‘k-mers’), as well as position weight matrix (PWM) and graphical sequence logo representations of the k-mer data. In total, the database hosts DNA-binding data for over 175 nonredundant proteins from a diverse collection of organisms, including the prokaryote Vibrio harveyi, the eukaryotic malarial parasite Plasmodium falciparum, the parasitic Apicomplexan Cryptosporidium parvum, the yeast Saccharomyces cerevisiae, the worm Caenorhabditis elegans, mouse and human. Current web tools include a text-based search, a function for assessing motif similarity between user-entered data and database PWMs, and a function for locating putative binding sites along user-entered nucleotide sequences. The UniPROBE database is available at http://thebrain.bwh.harvard.edu/uniprobe/. en_US
dc.language.iso en_US en_US
dc.publisher Oxford University Press en_US
dc.relation.isversionof doi:10.1093/nar/gkn660 en_US
dc.relation.hasversion http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686578/pdf/ en_US
dash.license LAA
dc.title UniPROBE: An Online Database of Protein Binding Microarray Data on Protein–DNA Interactions en_US
dc.type Journal Article en_US
dc.description.version Version of Record en_US
dc.relation.journal Nucleic Acids Research en_US
dash.depositing.author Bulyk, Martha Leonia
dc.date.available 2011-04-27T03:39:33Z
dash.affiliation.other HMS^Pathology en_US
dash.affiliation.other HMS^Medicine-Brigham and Women's Hospital en_US

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