Identifying transcriptional regulatory sites in the human genome using an integrated system
Identifying transcriptional regulatory sites in the human genome using an integrated system
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DOI：
10.1093/nar/gkh345
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发表时间：
2004-03-01
影响因子：
14.9
通讯作者：
Huang, SL
中科院分区：
文献类型：
--
作者：
Huang, HD;Horng, JT;Huang, SL
这项工作开发了一个集成的系统，在一组基因输入后，能够预测转录调控位点，并检测这些调控位点的共同出现。该系统集成了多种位点检测方法，如已知位点匹配、过量寡核苷酸检测和DNA基序发现程序。用户配置文件和历史页面使用户能够跟踪这些转录调控位点的序列分析。两组共调节基因被用来测试所提出的系统。所提出的系统预测的结果包括已知的同源位点和推定的调控位点。通过将这些位点与先前发表的结果进行比较，所提出的系统能够帮助生物学家从共调控基因组中识别可能的调控位点候选者。该集成系统现已在http：//rgsminer上提供。csie.ncu.edu.tw/.
This work develops an integrated system which, after a set of genes are inputted, is able to predict transcriptional regulatory sites and to detect the co-occurrence of these regulatory sites. The system integrates several site detection methods such as known site matching, over-presented oligonucleotide detection and DNA motif discovery programs. User profiles and history pages enable users to trace the sequence analyses of these transcriptional regulatory sites. Two groups of co-regulated genes were used to test the proposed system. The results predicted by the proposed system consist of known site homologs and putative regulatory sites. By comparing these sites with previously published results, the proposed system is able to help biologists identify possible candidates for the regulatory sites from groups of co-regulated genes. The integrated system is now available at http://rgsminer. csie.ncu.edu.tw/.