| Comments |
P.1551 right column bottom paragraph: "Database content: All information in DeOri is stored and operated using MySQL relational database management system. One entry in the database corresponds to an origin in a certain organism. The corresponding organism, chromosome, cell type (if any), genomic location, length, GC content, origin sequence and some related links have been displayed. In order to facilitate the comparative genomic analysis and visualize the chromosome context of the origins, the URLs that link to UCSC Genome Browser (Fujita et al., 2011) or NCBI Map Viewer (Sayers et al., 2011) have also been provided. The database access is via a web interface based on PHP script and provides various ways to search for DeOri records, such as DeOri ID, cell type, species and chromosome. In addition, users can also BLAST (Altschul et al., 1997) a query sequence against DeOri to find a homologous one. DeOri will be updated timely and a total of 16,145 eukaryotic DNA replication origins were collected from 6 eukaryotic organisms in genome-wide studies, including 433 human origins, 7489 mouse origins, 1543 A.thaliana origins, 148 K.lactis origins, 348 S.pombe origins and 6184 D.melanogaster origins in the current release (Table 1), which can be accessed from link ." |