DoriC：细菌基因组中oriC区域的数据库。

DoriC: a database of oriC regions in bacterial genomes.

作者信息

Gao Feng, Zhang Chun-Ting

机构信息

Department of Physics, Tianjin University, Tianjin 300072, China.

出版信息

Bioinformatics. 2007 Jul 15;23(14):1866-7. doi: 10.1093/bioinformatics/btm255. Epub 2007 May 12.

DOI:10.1093/bioinformatics/btm255

PMID:17496319

Abstract

UNLABELLED

Replication origins (oriCs) of bacterial genomes currently available in GenBank have been predicted by using a systematic method comprising the Z-curve analysis for nucleotide distribution asymmetry, DnaA box distribution, genes adjacent to candidate oriCs and phylogenetic relationships. These oriCs are organized into a MySQL database, DoriC, which provides extensive information and graphical views of the oriC regions. In addition, users can Blast a query sequence or even a whole genome against DoriC to find a homologous one. DoriC will be updated timely and the latest version is DoriC 1.8, in which oriCs of 425 genomes (468 chromosomes) are identified.

AVAILABILITY

DoriC can be accessed from http://tubic.tju.edu.cn/doric/.

SUPPLEMENTARY INFORMATION

Supplementary data are available at http://tubic.tju.edu.cn/doric/supplementary.htm.

摘要

未标注

目前GenBank中可用的细菌基因组复制起点（oriC）已通过一种系统方法预测得出，该方法包括对核苷酸分布不对称性的Z曲线分析、DnaA框分布、候选oriC附近的基因以及系统发育关系。这些oriC被组织到一个MySQL数据库DoriC中，该数据库提供了oriC区域的广泛信息和图形视图。此外，用户可以针对DoriC对查询序列甚至整个基因组进行Blast以找到同源序列。DoriC将及时更新，最新版本是DoriC 1.8，其中识别出了425个基因组（468条染色体）的oriC。