Genome-wide analyses reveal properties of redundant and specific promoter occupancy within the ETS gene family

@article{citeulike:1530572, abstract = {The conservation of in vitro DNA-binding properties within families of transcription factors presents a challenge for achieving in vivo specificity. To uncover the mechanisms regulating specificity within the ETS gene family, we have used chromatin immunoprecipitation coupled with genome-wide promoter microarrays to query the occupancy of three ETS proteins in a human T-cell line. Unexpectedly, redundant occupancy was frequently detected, while specific occupancy was less likely. Redundant binding correlated with housekeeping classes of genes, whereas specific binding examples represented more specialized genes. Bioinformatics approaches demonstrated that redundant binding correlated with consensus ETS-binding sequences near transcription start sites. In contrast, specific binding sites diverged dramatically from the consensus and were found further from transcription start sites. One route to specificity was founda highly divergent binding site that facilitates ETS1 and RUNX1 cooperative DNA binding. The specific and redundant DNA-binding modes suggest two distinct roles for members of the ETS transcription factor family. 10.1101/gad.1561707}, author = {Hollenhorst, Peter C. and Shah, Atul A. and Hopkins, Christopher and Graves, Barbara J. }, citeulike-article-id = {1530572}, doi = {http://dx.doi.org/10.1101/gad.1561707}, journal = {Genes Dev.}, keywords = {genefamily, genome-wide, motif, promoter, regulation}, month = {August}, number = {15}, pages = {1882--1894}, posted-at = {2007-08-09 02:28:24}, priority = {1}, title = {Genome-wide analyses reveal properties of redundant and specific promoter occupancy within the ETS gene family}, url = {http://dx.doi.org/10.1101/gad.1561707}, volume = {21}, year = {2007} }

TY - JOUR ID - citeulike:1530572 L3 - citeulike-article-id:1530572 TI - Genome-wide analyses reveal properties of redundant and specific promoter occupancy within the ETS gene family JF - Genes Dev. VL - 21 IS - 15 SP - 1882 EP - 1894 N2 - The conservation of in vitro DNA-binding properties within families of transcription factors presents a challenge for achieving in vivo specificity. To uncover the mechanisms regulating specificity within the ETS gene family, we have used chromatin immunoprecipitation coupled with genome-wide promoter microarrays to query the occupancy of three ETS proteins in a human T-cell line. Unexpectedly, redundant occupancy was frequently detected, while specific occupancy was less likely. Redundant binding correlated with housekeeping classes of genes, whereas specific binding examples represented more specialized genes. Bioinformatics approaches demonstrated that redundant binding correlated with consensus ETS-binding sequences near transcription start sites. In contrast, specific binding sites diverged dramatically from the consensus and were found further from transcription start sites. One route to specificity was founda highly divergent binding site that facilitates ETS1 and RUNX1 cooperative DNA binding. The specific and redundant DNA-binding modes suggest two distinct roles for members of the ETS transcription factor family. 10.1101/gad.1561707 KW - genefamily KW - genome-wide KW - motif KW - promoter KW - regulation AU - Hollenhorst, Peter AU - Shah, Atul AU - Hopkins, Christopher AU - Graves, Barbara PY - 2007/08/01/ UR - http://dx.doi.org/10.1101/gad.1561707 ER -