AlignACE: Difference between revisions
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The [http://arep.med.harvard.edu/ecoli_matrices {{PAGENAME}}] website has a collection of predicted transcription factor binding sites based on running [[scanACE]], an algorithm published<ref>PMID:9813115</ref> by the Church lab against the MG1655 genome. | The [http://arep.med.harvard.edu/ecoli_matrices {{PAGENAME}}] website has a collection of predicted transcription factor binding sites based on running [[scanACE]], an algorithm published<ref>PMID:9813115</ref> by the Church lab against the MG1655 genome. | ||
Revision as of 23:57, 31 July 2007
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| Who: |
Abigail Manson McGuire Genetics Dept. Harvard Medical School |
|---|---|
| What: | |
| Link/URL: | |
| Updates: |
in 1998? |
| Upcoming events: |
none |
| Web Services: | |
| edit table | |
See Help:Database_table for how to add or edit information in this section of EcoliWiki.
About AlignACE
The AlignACE website has a collection of predicted transcription factor binding sites based on running scanACE, an algorithm published[1] by the Church lab against the MG1655 genome.
Content
AlignACE has a table with links from the 59 DNA-binding proteins for which they have predicted binding sites by extrapolation from footprinting data. There are also summary tables and the code for scanACE and alignACE can be downloaded via a link to a Church lab website. These programs implement the approach of Berg and von Hippel [2][3]
Using AlignACE
Browsing
Searching
Usage examples
Add links to additional pages describing success stories here.
Technology
Web Services/API
Discussion
References
- ↑ Robison, K et al. (1998) A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete Escherichia coli K-12 genome. J. Mol. Biol. 284 241-54 PubMed
- ↑ Berg, OG & von Hippel, PH (1988) Selection of DNA binding sites by regulatory proteins. II. The binding specificity of cyclic AMP receptor protein to recognition sites. J Mol Biol 200 709-23 PubMed
- ↑ Berg, OG & von Hippel, PH (1987) Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters. J. Mol. Biol. 193 723-50 PubMed