UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein-DNA interactions
Author(s)Barrera, Luis Alberto; Bulyk, Martha L.; Hume, Maxwell A.; Gisselbrecht, Stephen S.
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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 in vitro data about the relative DNA-binding preferences of transcription factors for all possible sequence variants of a length k (‘k-mers’). The database displays important information about the proteins and displays their DNA-binding specificity data in terms of k-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 http://uniprobe.org.
DepartmentHarvard University--MIT Division of Health Sciences and Technology
Nucleic Acids Research
Oxford University Press
Hume, Maxwell A., Luis A. Barrera, Stephen S. Gisselbrecht, and Martha L. Bulyk. “UniPROBE, Update 2015: New Tools and Content for the Online Database of Protein-Binding Microarray Data on Protein-DNA Interactions.” Nucleic Acids Research (November 5, 2014).
Final published version