Genome-wide functional annotation environment for thermus thermophilus in OBIGrid

  • Authors:

  • Akinobu Fukuzaki;Takeshi Nagashima;Kaori Ide;Fumikazu Konishi;Mariko Hatakeyama;Shigeyuki Yokoyama;Seiki Kuramitsu;Akihiko Konagaya

  • Affiliations:

  • Bioinformatics G., RIKEN GSC, Yokohama, Kanagawa, Japan;Bioinformatics G., RIKEN GSC, Yokohama, Kanagawa, Japan;Bioinformatics G., RIKEN GSC, Yokohama, Kanagawa, Japan;Bioinformatics G., RIKEN GSC, Yokohama, Kanagawa, Japan;Bioinformatics G., RIKEN GSC, Yokohama, Kanagawa, Japan;RIKEN Harima Inst., Hyogo, Japan;RIKEN Harima Inst., Hyogo, Japan;Bioinformatics G., RIKEN GSC, Yokohama, Kanagawa, Japan

  • Venue:
  • LSGRID'04 Proceedings of the First international conference on Life Science Grid
  • Year:
  • 2004

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Abstract

We developed OBITco (Open BioInfomatics Thermus thermophilus Cyber Outlet) for gene annotation of T. thermophilus HB8 strain. To provide system services for numbers of researchers in the project, we adopted Web based technology and high-level user authentication system with three functions which are rollback function, hierarch representative function and easy-and-systematic annotation. The robust and secure network connection protects the confidential information within the project, thus, researchers can easily access real-time information on DNA sequences, ORF annotations or homology search results. T. thermophilus HB8 possesses 2,195 ORFs, 1156 Intergenic regions, 47 putative tRNA regions, and 6 rRNA regions. BLAST against nr/nt database and InterProScan for all ORFs were used to get homology hit records. The system provides an ORF viewer to show basic information of ORFs and database homology hit records. Researchers can update annotation information of ORF by simple operation, and then new annotation is applied to central database in real-time. Latest information can be utilized for lab experiments such as functional analysis, network analysis and structural analysis. The system can be also utilized as data storage/exchange place for the researchers for everyday experiments.