A global map of p53 transcription-factor binding sites in the human genome. Export

@article{citeulike:486106, abstract = {The ability to derive a whole-genome map of transcription-factor binding sites (TFBS) is crucial for elucidating gene regulatory networks. Herein, we describe a robust approach that couples chromatin immunoprecipitation (ChIP) with the paired-end ditag (PET) sequencing strategy for unbiased and precise global localization of TFBS. We have applied this strategy to map p53 targets in the human genome. From a saturated sampling of over half a million PET sequences, we characterized 65,572 unique p53 ChIP DNA fragments and established overlapping PET clusters as a readout to define p53 binding loci with remarkable specificity. Based on this information, we refined the consensus p53 binding motif, identified at least 542 binding loci with high confidence, discovered 98 previously unidentified p53 target genes that were implicated in novel aspects of p53 functions, and showed their clinical relevance to p53-dependent tumorigenesis in primary cancer samples.}, address = {Genome Institute of Singapore, Singapore 138672.}, author = {Wei, C. L. and Wu, Q. and Vega, V. B. and Chiu, K. P. and Ng, P. and Zhang, T. and Shahab, A. and Yong, H. C. and Fu, Y. and Weng, Z. and Liu, J. and Zhao, X. D. and Chew, J. L. and Lee, Y. L. and Kuznetsov, V. A. and Sung, W. K. and Miller, L. D. and Lim, B. and Liu, E. T. and Yu, Q. and Ng, H. H. and Ruan, Y.}, citeulike-article-id = {486106}, citeulike-linkout-0 = {http://dx.doi.org/10.1016/j.cell.2005.10.043}, citeulike-linkout-1 = {http://view.ncbi.nlm.nih.gov/pubmed/16413492}, citeulike-linkout-2 = {http://www.hubmed.org/display.cgi?uids=16413492}, citeulike-linkout-3 = {http://www.sciencedirect.com/science/article/B6WSN-4J1B5X8-S/2/420332aa5b10ae06ed8131cadda97331}, day = {13}, doi = {10.1016/j.cell.2005.10.043}, issn = {0092-8674}, journal = {Cell}, keywords = {binding, global, ligation, map, p53, tag, tandem, transcription}, month = {January}, number = {1}, pages = {207--219}, posted-at = {2006-10-27 05:11:15}, priority = {2}, title = {A global map of p53 transcription-factor binding sites in the human genome.}, url = {http://dx.doi.org/10.1016/j.cell.2005.10.043}, volume = {124}, year = {2006} }

TY - JOUR ID - citeulike:486106 L3 - citeulike-article-id:486106 N2 - The ability to derive a whole-genome map of transcription-factor binding sites (TFBS) is crucial for elucidating gene regulatory networks. Herein, we describe a robust approach that couples chromatin immunoprecipitation (ChIP) with the paired-end ditag (PET) sequencing strategy for unbiased and precise global localization of TFBS. We have applied this strategy to map p53 targets in the human genome. From a saturated sampling of over half a million PET sequences, we characterized 65,572 unique p53 ChIP DNA fragments and established overlapping PET clusters as a readout to define p53 binding loci with remarkable specificity. Based on this information, we refined the consensus p53 binding motif, identified at least 542 binding loci with high confidence, discovered 98 previously unidentified p53 target genes that were implicated in novel aspects of p53 functions, and showed their clinical relevance to p53-dependent tumorigenesis in primary cancer samples. IS - 1 JF - Cell SN - 0092-8674 AD - Genome Institute of Singapore, Singapore 138672. EP - 219 TI - A global map of p53 transcription-factor binding sites in the human genome. VL - 124 SP - 207 KW - binding KW - global KW - ligation KW - map KW - p53 KW - tag KW - tandem KW - transcription AU - Wei, CL AU - Wu, Q AU - Vega, VB AU - Chiu, KP AU - Ng, P AU - Zhang, T AU - Shahab, A AU - Yong, HC AU - Fu, Y AU - Weng, Z AU - Liu, J AU - Zhao, XD AU - Chew, JL AU - Lee, YL AU - Kuznetsov, VA AU - Sung, WK AU - Miller, LD AU - Lim, B AU - Liu, ET AU - Yu, Q AU - Ng, HH AU - Ruan, Y PY - 2006/01/13/ UR - http://dx.doi.org/10.1016/j.cell.2005.10.043 ER -