AlignACE: Difference between revisions
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!align=left {{table heading style}} |What: | !align=left {{table heading style}} |What: | ||
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Matrices which search for additional binding sites in the E. coli genomic sequence. | |||
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!align=left {{table heading style}} |Who: | !align=left {{table heading style}} |Who: | ||
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Abigail Manson McGuire | Abigail Manson McGuire | ||
Genetics Dept. | Genetics Dept. | ||
Harvard Medical School | Harvard Medical School | ||
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!align=left {{table heading style}} |Updates: | !align=left {{table heading style}} |Updates: | ||
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<i>Last Updated: Nov. 1998</i> | |||
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!align=left {{table heading style}} |Upcoming events: | !align=left {{table heading style}} |Upcoming events: | ||
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__NOTOC__ | __NOTOC__ | ||
==About {{PAGENAME}}== | ==About {{PAGENAME}}== | ||
[[Image:Alignace_home.jpg|right|thumb|300px|Home Page]] | |||
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. | ||
==Content== | ==Content== | ||
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==References== | ==References== | ||
{{BacktoTop}} | |||
{{RefHelp}} | {{RefHelp}} | ||
<references/> | <references /> | ||
==External Links== | ==External Links== | ||
[http://arep.med.harvard.edu/ecoli_matrices {{PAGENAME}}] | [http://arep.med.harvard.edu/ecoli_matrices {{PAGENAME}}] | ||
==Discussion of {{PAGENAME}} on other websites== | ==Discussion of {{PAGENAME}} on other websites== | ||
Latest revision as of 00:11, 23 May 2010
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| Link/URL: | |
|---|---|
| What: |
Matrices which search for additional binding sites in the E. coli genomic sequence. |
| Who: |
Abigail Manson McGuire Genetics Dept. Harvard Medical School |
| Updates: |
Last Updated: Nov. 1998 |
| Upcoming events: | |
| 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
See Help:References for how to manage references in EcoliWiki.
- ↑ 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