Frontier Research Initiative, Institute of Medical Science, Human Genome Center, Institute of Medical Science, The University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan.
Nucleic Acids Res. 2012 Jan;40(Database issue):D150-4. doi: 10.1093/nar/gkr1005. Epub 2011 Nov 15.
To support transcriptional regulation studies, we have constructed DBTSS (DataBase of Transcriptional Start Sites), which contains exact positions of transcriptional start sites (TSSs), determined with our own technique named TSS-seq, in the genomes of various species. In its latest version, DBTSS covers the data of the majority of human adult and embryonic tissues: it now contains 418 million TSS tag sequences from 28 tissues/cell cultures. Moreover, we integrated a series of our own transcriptomic data, such as the RNA-seq data of subcellular-fractionated RNAs as well as the ChIP-seq data of histone modifications and the binding of RNA polymerase II/several transcription factors in cultured cell lines into our original TSS information. We also included several external epigenomic data, such as the chromatin map of the ENCODE project. We further associated our TSS information with public or original single-nucleotide variation (SNV) data, in order to identify SNVs in the regulatory regions. These data can be browsed in our new viewer, which supports versatile search conditions of users. We believe that our new DBTSS will be an invaluable resource for interpreting the differential uses of TSSs and for identifying human genetic variations that are associated with disordered transcriptional regulation. DBTSS can be accessed at http://dbtss.hgc.jp.
为了支持转录调控研究，我们构建了 DBTSS（转录起始位点数据库），其中包含了我们自己的 TSS-seq 技术确定的各种物种基因组中转录起始位点（TSS）的确切位置。在其最新版本中，DBTSS 涵盖了大多数人类成年和胚胎组织的数据：它现在包含了 28 种组织/细胞培养物的 4.18 亿个 TSS 标签序列。此外，我们整合了一系列我们自己的转录组数据，如亚细胞分离 RNA-seq 数据以及培养细胞系中组蛋白修饰和 RNA 聚合酶 II/几种转录因子结合的 ChIP-seq 数据到我们原始的 TSS 信息中。我们还包括了一些外部的表观基因组数据，如 ENCODE 项目的染色质图谱。我们还将我们的 TSS 信息与公共或原始的单核苷酸变异（SNV）数据相关联，以识别调控区域中的 SNV。这些数据可以在我们的新查看器中浏览，该查看器支持用户的多种搜索条件。我们相信，我们的新 DBTSS 将成为解释 TSS 差异用途和识别与转录调控紊乱相关的人类遗传变异的宝贵资源。DBTSS 可在 http://dbtss.hgc.jp 访问。
