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eCIS-ANALYST searches the Drosophila melanogaster and Drosophila pseudoobscura genomes for conserved clusters of transcription-factor binding sites.
An earlier version, CIS-ANALYST, allowed searches of the D. melanogaster genome for high-density clusters of predicted binding-sites for any combination of transciption factors with known binding specificity. We and others showed that this was a productive method for identifying functional developmental enhancers.
We recently completed functional tests of 37 predicted targets of BCD, HB, KR, KNI and CAD, showing that 15 function as anterior-posterior enhancers. We also showed that requiring that clusters found in D. melanogaster also be present in D. pseudoobscura greatly improved the accuracy of these predictions.
publications:
Berman BP*, Pfeiffer BD*, et. al. (2004).
Genome Biol. 5:R61
[PDF |
article @ Genome Biol. |
web companion]
Berman BP, et. al. (2002).
Proc. Natl. Acad. Sci. 99, 757-762
[PDF |
article @ PNAS |
commentary @ PNAS |
web companion]
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Questions, Comments, Suggestions to: benb@fruitfly.berkeley.edu |