Format

Send to

Choose Destination
Nucleic Acids Res. 2010 Jan;38(Database issue):D437-42. doi: 10.1093/nar/gkp807. Epub 2009 Oct 9.

BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum.

Author information

1
KSU Bioinformatics Center, Division of Biology, Kansas State University, Manhattan, KS 66506, USA.

Abstract

BeetleBase (http://www.beetlebase.org) has been updated to provide more comprehensive genomic information for the red flour beetle Tribolium castaneum. The database contains genomic sequence scaffolds mapped to 10 linkage groups (genome assembly release Tcas_3.0), genetic linkage maps, the official gene set, Reference Sequences from NCBI (RefSeq), predicted gene models, ESTs and whole-genome tiling array data representing several developmental stages. The database was reconstructed using the upgraded Generic Model Organism Database (GMOD) modules. The genomic data is stored in a PostgreSQL relatational database using the Chado schema and visualized as tracks in GBrowse. The updated genetic map is visualized using the comparative genetic map viewer CMAP. To enhance the database search capabilities, the BLAST and BLAT search tools have been integrated with the GMOD tools. BeetleBase serves as a long-term repository for Tribolium genomic data, and is compatible with other model organism databases.

PMID:
19820115
PMCID:
PMC2808946
DOI:
10.1093/nar/gkp807
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center