Biosci Biotechnol Biochem. 2000 Mar;64(3):670-3.

An automated system for genome analysis to support microbial whole-genome shotgun sequencing.

Sakiyama T, Takami H, Ogasawara N, Kuhara S, Kozuki T, Doga K, Ohyama A, Horikoshi K.

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Deep-sea Microorganisms Research Group, Japan Marine Science and Technology Center, Yokosuka, Kanagawa.

Abstract

We developed a semi-automated genome analysis system called GAMBLER in order to support the current whole-genome sequencing project focusing on alkaliphilic Bacillus halodurans C-125. GAMBLER was designed to reduce the human intervention required and to reduce the complications in annotating thousands of ORFs in the microbial genome. GAMBLER automates three major routines: analyzing assembly results provided by genome assembler software, assigning ORFs, and homology searching. GAMBLER is equipped with an interface for convenience of annotation. All processes and options are manipulatable through a WWW browser that enables scientists to share their genome analysis results without choosing computer platforms.

PMID:: 10803979; [PubMed - indexed for MEDLINE]

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An automated system for genome analysis to support microbial whole-genome shotgun sequencing.

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