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Transcription factor binding predicts histone modifications in human cell lines.

Abstract：

:Gene expression in higher organisms is thought to be regulated by a complex network of transcription factor binding and chromatin modifications, yet the relative importance of these two factors remains a matter of debate. Here, we show that a computational approach allows surprisingly accurate prediction of histone modifications solely from knowledge of transcription factor binding both at promoters and at potential distal regulatory elements. This accuracy significantly and substantially exceeds what could be achieved by using DNA sequence as an input feature. Remarkably, we show that transcription factor binding enables strikingly accurate predictions across different cell lines. Analysis of the relative importance of specific transcription factors as predictors of specific histone marks recapitulated known interactions between transcription factors and histone modifiers. Our results demonstrate that reported associations between histone marks and gene expression may be indirect effects caused by interactions between transcription factors and histone-modifying complexes.

journal_name

Proc Natl Acad Sci U S A

journal_title

Proceedings of the National Academy of Sciences of the United States of America

authors

Benveniste D,Sonntag HJ,Sanguinetti G,Sproul D

doi

10.1073/pnas.1412081111

subject

Has Abstract

pub_date

2014-09-16 00:00:00

pages

13367-72

issue

37

eissn

0027-8424

issn

1091-6490

pii

1412081111

journal_volume

111

pub_type

杂志文章

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