DBTSS: DataBase of Transcriptional Start Sites progress report in 2012

Riu Yamashita, Sumio Sugano, Yutaka Suzuki, Kenta Nakai

Research output: Contribution to journalArticlepeer-review

35 Citations (Scopus)

Abstract

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 TSSseq, 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.

Original languageEnglish
Pages (from-to)D150-D154
JournalNucleic acids research
Volume40
Issue numberD1
DOIs
Publication statusPublished - 2012 Jan

ASJC Scopus subject areas

  • Genetics

Fingerprint Dive into the research topics of 'DBTSS: DataBase of Transcriptional Start Sites progress report in 2012'. Together they form a unique fingerprint.

Cite this