AlignACE: Difference between revisions

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[[Category:DNA-binding site Databases]]
[[Category:DNA-binding site Databases]]
[[Category:Bioinformatic Resources]]
[[Category:Bioinformatic Resources]]
{|{{Prettytable}} width='30%' align = 'right'
 
|- align='center' bgcolor = '#ddddff'
<protect><!--box uid=63ce1649aab8b3180235b0af7618f667.1636.N46afcc24a73c4-->
|  colspan = '2' | '''{{PAGENAME}}'''
[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.1636.N46afcc24a73c4&page=1636&pagename={{FULLPAGENAMEE}}&type=0 Create Table Here]
|-
<!--box uid=63ce1649aab8b3180235b0af7618f667.1636.N46afcc24a73c4--></protect>
| width='30%' | Who:
 
| Abigail Manson McGuire
{{Database_table_help}}
Genetics Department
__NOTOC__
Harvard Medical School
 
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| width='30%' | What:
| ''short description''
|-
| Where:
| [http://arep.med.harvard.edu/ecoli_matrices {{PAGENAME}}]
|-
| Last update
| in 1998?
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| Upcoming events
| none
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| Web Services
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=About {{PAGENAME}}=
=About {{PAGENAME}}=
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 23:56, 31 July 2007

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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.

Other sites with related content

RegulonDB

Technology

Web Services/API

Discussion

References

  1. ↑ 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
  2. ↑ 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
  3. ↑ 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

External Links

AlignACE

Discussion of AlignACE on other websites

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