DBTBS:: database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics
DBTBS:: database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics
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DOI：
10.1093/nar/gkh074
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发表时间：
2004-01-01
影响因子：
14.9
通讯作者：
Nakai, K
中科院分区：
文献类型：
--
作者：
Makita, Y;Nakao, M;Nakai, K
DBTBS（dbtbs.hgc.jp）最初于1999年发布，作为枯草芽孢杆菌（Bacillus subtilis）中已发表的转录调控事件的参考数据库，枯草芽孢杆菌是研究得最好的细菌之一。它本质上是转录因子与其调控基因以及其识别序列的汇编，这些转录因子在文献中进行了实验表征和报道。在这里，我们报告了其主要更新，其中包含有关114个转录因子（包括sigma因子）和525个基因的633个启动子的信息。数据库中引用的参考文献从291篇增加到378篇。它还支持通过使用我们收集的权重矩阵和共识模式在输入序列内找到推定的转录因子结合位点的功能。此外，虽然是初步的，DBTBS现在有助于比较基因组学，显示潜在的直向同源转录因子及其相应的顺式元件的启动子上的潜在的直向同源调节基因在50个真细菌基因组中的存在或不存在。
DBTBS (http://dbtbs.hgc.jp) was originally released in 1999 as a reference database of published transcriptional regulation events in Bacillus subtilis one of the best studied bacteria. It is essentially compilation of transcription factors with their regulated genes as well as their recognition sequences, which were experimentally characterized and reported in the literature. Here we report its major update, which contains information on 114 transcription factors, including sigma factors, and 633 promoters of 525 genes. The number of references cited in the database has increased from 291 to 378. It also supports a function to find putative transcription factor binding sites within input sequences by using our collection of weight matrices and consensus patterns. Furthermore, though preliminarily, DBTBS now alms to contribute to comparative genomics by showing the presence or absence of potentially orthologous transcription factors and their corresponding cis-elements on the promoters of their potentially orthologously regulated genes in 50 eubacterial genomes.