UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions
The Universal PBM Resource for Oligonucleotide-Binding Evaluation (UniPROBE) database is a centralized repository of information on the DNA-binding preferences of proteins as determined by universal protein-binding microarray (PBM) technology. Each entry for a protein (or protein complex) in UniPROB...
| Main Authors: | , |
|---|---|
| Other Authors: | |
| Format: | Article |
| Language: | en_US |
| Published: |
Oxford University Press (OUP)
2012
|
| Online Access: | http://hdl.handle.net/1721.1/70988 |
| _version_ | 1826192468352172032 |
|---|---|
| author | Bulyk, Martha L. Robasky, Kimberly |
| author2 | Harvard University--MIT Division of Health Sciences and Technology |
| author_facet | Harvard University--MIT Division of Health Sciences and Technology Bulyk, Martha L. Robasky, Kimberly |
| author_sort | Bulyk, Martha L. |
| collection | MIT |
| description | The Universal PBM Resource for Oligonucleotide-Binding Evaluation (UniPROBE) database is a centralized repository of information on the DNA-binding preferences of proteins as determined by universal protein-binding microarray (PBM) technology. Each entry for a protein (or protein complex) in UniPROBE provides the quantitative preferences for all possible nucleotide 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 this update, we describe >130% expansion of the database content, incorporation of a protein BLAST (blastp) tool for finding protein sequence matches in UniPROBE, the introduction of UniPROBE accession numbers and additional database enhancements. The UniPROBE database is available at http://uniprobe.org. |
| first_indexed | 2024-09-23T09:14:52Z |
| format | Article |
| id | mit-1721.1/70988 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T09:14:52Z |
| publishDate | 2012 |
| publisher | Oxford University Press (OUP) |
| record_format | dspace |
| spelling | mit-1721.1/709882022-09-26T11:07:28Z UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions Bulyk, Martha L. Robasky, Kimberly Harvard University--MIT Division of Health Sciences and Technology Bulyk, Martha L. Bulyk, Martha L. The Universal PBM Resource for Oligonucleotide-Binding Evaluation (UniPROBE) database is a centralized repository of information on the DNA-binding preferences of proteins as determined by universal protein-binding microarray (PBM) technology. Each entry for a protein (or protein complex) in UniPROBE provides the quantitative preferences for all possible nucleotide 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 this update, we describe >130% expansion of the database content, incorporation of a protein BLAST (blastp) tool for finding protein sequence matches in UniPROBE, the introduction of UniPROBE accession numbers and additional database enhancements. The UniPROBE database is available at http://uniprobe.org. National Institutes of Health (U.S.) (grant number R01 HG003985) 2012-06-01T17:56:13Z 2012-06-01T17:56:13Z 2010-10 2010-09 Article http://purl.org/eprint/type/JournalArticle 0305-1048 1362-4962 http://hdl.handle.net/1721.1/70988 Robasky, K., and M. L. Bulyk. “UniPROBE, Update 2011: Expanded Content and Search Tools in the Online Database of Protein-binding Microarray Data on protein-DNA Interactions.” Nucleic Acids Research 39.Database (2010): D124–D128. Web. 1 June 2012. en_US http://dx.doi.org/10.1093/nar/gkq992 Nucleic Acids Research Creative Commons Attribution Non-Commercial http://creativecommons.org/licenses/by-nc/2.5 application/pdf Oxford University Press (OUP) Oxford |
| spellingShingle | Bulyk, Martha L. Robasky, Kimberly UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions |
| title | UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions |
| title_full | UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions |
| title_fullStr | UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions |
| title_full_unstemmed | UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions |
| title_short | UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein–DNA interactions |
| title_sort | uniprobe update 2011 expanded content and search tools in the online database of protein binding microarray data on protein dna interactions |
| url | http://hdl.handle.net/1721.1/70988 |
| work_keys_str_mv | AT bulykmarthal uniprobeupdate2011expandedcontentandsearchtoolsintheonlinedatabaseofproteinbindingmicroarraydataonproteindnainteractions AT robaskykimberly uniprobeupdate2011expandedcontentandsearchtoolsintheonlinedatabaseofproteinbindingmicroarraydataonproteindnainteractions |