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Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation.

Abstract：

:Whole-genome mRNA quantitation can be used to identify the genes that are most responsive to environmental or genotypic change. By searching for mutually similar DNA elements among the upstream non-coding DNA sequences of these genes, we can identify candidate regulatory motifs and corresponding candidate sets of coregulated genes. We have tested this strategy by applying it to three extensively studied regulatory systems in the yeast Saccharomyces cerevisiae: galactose response, heat shock, and mating type. Galactose-response data yielded the known binding site of Gal4, and six of nine genes known to be induced by galactose. Heat shock data yielded the cell-cycle activation motif, which is known to mediate cell-cycle dependent activation, and a set of genes coding for all four nucleosomal proteins. Mating type alpha and a data yielded all of the four relevant DNA motifs and most of the known a- and alpha-specific genes.

journal_name

Nat Biotechnol

journal_title

Nature biotechnology

authors

Roth FP,Hughes JD,Estep PW,Church GM

doi

10.1038/nbt1098-939

subject

Has Abstract

pub_date

1998-10-01 00:00:00

pages

939-45

issue

10

eissn

1087-0156

issn

1546-1696

journal_volume

16

pub_type

杂志文章

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