Bioresource Information Division

Due to the recent advances in the genome analysis, various kinds of research resources such as DNA clones, cell lines, and genetically modified organisms have been and are still being exhaustively developed. According as the bioresources are accumulated in the field of life science, their information is also accumulated so enormously that we cannot utilize it without information technology.
The Bioresource Information Division collects information on whereabouts and characteristics of bioresources of RIKEN BRC, constructs databases, and offers the bioresource information to research community in the form of bio-digital-contents such as a web-based catalog. Through these activities, the division aims to contribute to the advancement of life science.
The division also works on consolidating the databases and on linking them to other biological databases in and outside Japan in order that more information related to the retrieved bioresources can be obtained. In addition, it works on developing new technology to extract biologically significant information from various experimental data obtained from many kinds of bioresources.

Research Subjects

• Construction and management of bioresource databases
• Dissemination of bioresource information through the databases and their search engines
• System development and maintenance for facilitating bioresource acquisition
• Development of technology to construct consolidated bioresource databases
• Development of technology for bioresource information analysis

Publications

1. Yoshino K, Iimura E, Saijo K, Iwase S, Fukami K, Ohno T, Obata Y, Nakamura Y.:
   "Essential role for gene profiling analysis in the authentication of human cell lines."
   Human Cell; 19(1): 43-48 (2006)
2. Amano K, Nakamura H, Numa H, Fukami-Kobayashi K, Nagamura Y, Ichikawa H, Natsuo Onodera N.:
   "Self-organizing clustering: non-hierarchical clustering for large scale DNA sequence data."
   IPSJ Transactions on Bioinformatics. 2007; 48(SIG5): 49-53.
3. Fukami-Kobayashi K, Minezaki Y, Tateno Y, Nishikawa K.:
   "A Tree of Life Based on Protein Domain Organizations."
   Mol Biol Evol. 2007; 24(5): 1181-1189.
4. The Rice Annotation Project (Itoh T et al.):
   "Curated Genome Annotation of Oryza sativa ssp. Japonica and Comparative Genome Analysis with Arabidopsis thaliana."
   Genome Res; 17 (2): 175-183 (2007)
5. Matsuya, A. et al. (35 authors)
   "Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees."
   Nucleic Acids Res 36 (Database issue), D787-792 (2008).
6. Rice Annotation Project (Tanaka, T. et al.):
   "The Rice Annotation Project Database (RAP-DB): 2008 update."
   Nucleic Acids Res 36 (Database issue), D1028-1033 (2008).
7. Moriwaki K et al. (13 authors):
   "Unique Inbred Strain MSM/Ms Established from the Japanese Wild Mouse"
   Experimental Animals; 58 (2): 123-134 (2009)
8. Iida K, Fukami-Kobayashi K, Toyoda A, Sakaki Y, Kobayashi M, Seki M, Shinozaki K.:
   "Analysis of Multiple Occurrences of Alternative Splicing Events in Arabidopsis thaliana Using Novel Sequenced Full-Length cDNAs."
   DNA Research; 16: 155-164 (2009)
9. Yamazaki Y et al. (33 authors)
   "NBRP databases: databases of biological resources in Japan"
   Nucl. Acids Res.; 38: D26-D32 (2010)
10. Abe H, Narusaka Y, Sasaki I, Hatakeyama K, Shin-I S, Narusaka M, Fukami K, Matsumoto S, Kobayashi M.:
    "Development of Full-length cDNAs from Chinese Cabbage (Brassica rapa Subsp. pekinensis) and Identification of Marker Genes for Defence Response"
    DNA Research Vol.18 4 277-289 (2011)