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ppdb: a plant promoter database

热2 butterfly09 添加于 2010-8-23 00:25 | 1576 次阅读 | 1 个评论

作者
Yamamoto YY, Obokata J
摘要
ppdb (http://www.ppdb.gene.nagoya-u.ac.jp) is a plant promoter database that provides promoter annotation of Arabidopsis and rice. The database contains information on promoter structures, transcription start sites (TSSs) that have been identified from full-length cDNA clones and also a vast amount of TSS tag data. In ppdb, the promoter structures are determined by sets of promoter elements identified by a position-sensitive extrac- tion method called local distribution of short sequences (LDSS). By using this database, the core promoter structure, the presence of regulatory elements and the distribution of TSS clusters can be identified. Although no differentiation of promoter architecture among plant species has been reported, there is some divergence of utilized sequences for promoter elements. Therefore, ppdb is based on species-specific sets of promoter elements, rather than on general motifs for multiple species. Each regulatory sequence is hyperlinked to literary information, a PLACE entry served by a plant cis-element database, and a list of promoters containing the regulatory sequence.
详细资料
- 文献种类:期刊
- 期刊名称: Nucleic Acids Research
- 期刊缩写: Nucleic Acids Research
- 期卷页: 2007年第36卷第Database期 D977-D981页
- ISBN: 0305-1048
标签

promoter database
相关链接 DOI URL

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