Cis-Decoder discovers constellations of conserved DNA sequences shared among tissue-specific enhancers.
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ABSTRACT:
SUBMITTER: Brody T
PROVIDER: S-EPMC1929141 | biostudies-literature | 2007
REPOSITORIES: biostudies-literature
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cis-Decoder discovers constellations of conserved DNA sequences shared among tissue-specific enhancers.
Brody Thomas T Rasband Wayne W Baler Kevin K Kuzin Alexander A Kundu Mukta M Odenwald Ward F WF
Genome biology 20070101 5
A systematic approach is described for analysis of evolutionarily conserved cis-regulatory DNA using cis-Decoder, a tool for discovery of conserved sequence elements that are shared between similarly regulated enhancers. Analysis of 2,086 conserved sequence blocks (CSBs), identified from 135 characterized enhancers, reveals most CSBs consist of shorter overlapping/adjacent elements that are either enhancer type-specific or common to enhancers with divergent regulatory behaviors. Our findings sug ...[more]
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