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Nucleic Acids Research, 2004, Vol. 32, Database issue D78-D81
© 2004 Oxford University Press

DBTSS, DataBase of Transcriptional Start Sites: progress report 2004

Yutaka Suzuki*,1, Riu Yamashita1,2, Sumio Sugano1 and Kenta Nakai1,2

1 Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo, 108-8639, Japan, and 2 Undergraduate Program for Bioinformatics and Systems Biology, Faculty of Science, University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan

*To whom correspondence should be addressed. Tel: +81 3 5449 5343; Fax: +81 3 5449 5416; Email: ysuzuki{at}ims.u-tokyo.ac.jp
+BP192706–BP383670

DBTSS (http://dbtss.hgc.jp) was originally constructed based on a collection of experimentally determined TSSs of human genes. Since its first release in 2002, it has been updated several times. First, the amount of stored data has increased significantly: e.g. the number of clones that match both the RefSeq mRNA set and the genome sequence has increased from 111 382 to 190 964, now covering 11 234 genes. Second, the positions of SNPs in dbSNP were displayed on the upstream regions of contained human genes. Third, DBTSS now covers other species such as mouse and the human malaria parasite. It will become a central database containing data for many more species with oligo-capping and related methods. Lastly, the database now serves for comparative promoter analyses: in the current version, comparative views of potentially orthologous promoters from human and mouse are presented with an additional function of searching potential transcription-factor binding sites, which are either conserved or diverged between species.


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