ZIFIBI: Prediction of DNA binding sites for zinc finger proteins.

@article{citeulike:2491548, abstract = {The cis-regulatory region of target genes is key elements in the transcriptional regulation of gene expression. Many of these cis-regulatory regions have not been identified by either biological experiments or computational methods. Recently, a few additional C(2)H(2) zinc finger transcription factor binding sites have been discovered. The majority of the zinc finger binding sites, however, are still unknown. In this study, we used publically available data to evaluate possible interaction patterns between nucleotides and the amino acids of zinc finger domains. We calculated the most probable state path of three nucleotides sequences using a Hidden Markov Method (HMM). We used these computations to predict C(2)H(2) zinc finger transcription factor binding sites in cis-regulatory regions of their target genes (http://bioinfo.hanyang.ac.kr/ZIFIBI/frameset.php).}, address = {Division of Molecular \& Life Sciences, Hanyang University, Sa 3 dong, Ansan, Kyunggodo 425-791, Republic of Korea.}, author = {Cho, Soo Young Y. and Chung, Myungguen and Park, Minyoung and Park, Sungjin and Lee, Young Seek S. }, citeulike-article-id = {2491548}, doi = {http://dx.doi.org/10.1016/j.bbrc.2008.02.106}, issn = {1090-2104}, journal = {Biochem Biophys Res Commun}, keywords = {mining, motifs}, month = {March}, posted-at = {2008-03-24 20:57:08}, priority = {2}, title = {ZIFIBI: Prediction of DNA binding sites for zinc finger proteins.}, url = {http://dx.doi.org/10.1016/j.bbrc.2008.02.106}, year = {2008} }

TY - JOUR ID - citeulike:2491548 L3 - citeulike-article-id:2491548 TI - ZIFIBI: Prediction of DNA binding sites for zinc finger proteins. JF - Biochem Biophys Res Commun AD - Division of Molecular & Life Sciences, Hanyang University, Sa 3 dong, Ansan, Kyunggodo 425-791, Republic of Korea. SN - 1090-2104 N2 - The cis-regulatory region of target genes is key elements in the transcriptional regulation of gene expression. Many of these cis-regulatory regions have not been identified by either biological experiments or computational methods. Recently, a few additional C(2)H(2) zinc finger transcription factor binding sites have been discovered. The majority of the zinc finger binding sites, however, are still unknown. In this study, we used publically available data to evaluate possible interaction patterns between nucleotides and the amino acids of zinc finger domains. We calculated the most probable state path of three nucleotides sequences using a Hidden Markov Method (HMM). We used these computations to predict C(2)H(2) zinc finger transcription factor binding sites in cis-regulatory regions of their target genes (http://bioinfo.hanyang.ac.kr/ZIFIBI/frameset.php). KW - mining KW - motifs AU - Cho, Soo Young AU - Chung, Myungguen AU - Park, Minyoung AU - Park, Sungjin AU - Lee, Young Seek PY - 2008/03/03/ UR - http://dx.doi.org/10.1016/j.bbrc.2008.02.106 ER -