International Mammalian Genome Society

The 15th International Mouse Genome Conference (2001)


POSTER 136 - GENOMAPPER: MAPPING SYSTEM OF MOUSE FULL LENGTH CDNA ONTO GENOMIC SEQUENCES

Dr Hidenori Kiyosawa
RIKEN GSC Genome Exploration Research Group
1-7-22 Suehiro-cho
Tsurumi-ku
Yokohama
230-0045
Japan

Co-Authors: 1) Kondo S, 1) Yamanaka I, 1) Sakai K, 1) Saito T, 1), 2), 3) Hayashizaki Y
Institutions: 1) Genome Exploration Research Group, RIKEN Genomic Sciences Center 2) Division of Genomic Information Resources, Yokohama City University 3) Department of Medicine, University of Tsukuba

We developed mapping viewer system to facilitate identifying the candidate genes for positional candidate cloning. In order to construct mouse gene encyclopedia, we have been producing cDNA libraries, isolating cDNA clones, sequencing, and mapping them onto the human genome draft sequences. Our group has also been studying biological profiles of the cDNAs, such as expression analysis by DNA microarray, protein-protein interaction analysis by mammalian two hybrid assay. The mapping method based on blast was described in our previous paper. We mapped mouse cDNAs, along with human RefSeq and the representative sequences of UniGene clusters, onto the human genome draft sequences assembled at University of California, Santa Cruz. The exon predictor programs were also used to identify the possible coding region. Our cDNAs were classified according to their novelty. Information for each cDNA includes its chromosomal position, alignment to genome sequences, expression, PPI, ORF analysis, FANTOM annotation page and external databases such as OMIN and Locus Link. All the data gathered and linked to GenoMapper are utilized to narrow down the candidate genes for the phenotypes of interest. The strength of GenoMapper is that it contains novel genes only we have and related biological data. Overview of GenoMapper system will be presented. We also prepared the Mouse Genome version of GenoMapper, utilizing synteny relationship between human and mouse genome.


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