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| BioTech FYI Center - Resources |
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General Genomic Databases
General Genomic Databases
W. M. Keck Center for
Genome Informatics
The Keck Center for Genome Informatics WWW server at the Institute of
Biosciences and Technology, Texas A & M University, is
dedicated to providing an interface to genome databases. It is
presently under development. The server currently includes AGsDB,
AAnDB, Domestic Animals, Crops and Genome Topographer
databases. Database search capabilities are derived from the ACEDB
search software.
GenomeNet WWW server
GenomeNet is a Japanese computer network for genome research and related
research areas in molecular and cellular biology. GenomeNet
was established in September 1991 under the Human Genome Project of
the Ministry of Education, Science and Culture. It is operated
jointly by the Human Genome Center (HGC), Institute of Medical
Science, the University of Tokyo and the Supercomputer Laboratory
(SCL), Institute for Chemical Research, Kyoto University, in close
cooperation with TISN and WIDE computer network groups in
Japan. GenomeNet has a backbone link from Tokyo to Kyoto to
Fukuoka. An increasing number of institutions are connected to both
the Kyoto and Tokyo centers either by leased lines or ISDN.
HGC and SCL jointly provide database services that are publicly
available through GenomeNet. These services may be accessed by e-mail,
on-line guest accounts, anonymous FTP, Gopher, WWW, and special client
programs. The services include BLAST and FASTA for sequence similarity
search, MOTIF for protein sequence motif search, DBGET, IRx, and
Entrez for database retrieval. The WWW version of DBGET provides an
integrated database search with hot links among a number of
databases. In addition, new database systems developed by HGC and
unique databases contributed from the Japanese research community are
also made available under the GenomeNet services.
The
Mammary Transgene Database
This site is provided by Sinai Yarus at the Molecular Biology
Computational Resource at Baylor College of Medicine. The Mammary
Transgene Database summarizes the results of experiments in which
transgenes are expressed in the mammary gland of experimental and
agricultural animals. The results of this experiment,
details on the transgenes used, and literature references are included.
Whitehead Institute Center for
Genome Research
"We are interested in a problem that is closely related to the
theme of this workshop, namely, the construction of genome information
systems using modular, 'plug-and-play' components. By 'genome
information systems' we mean the sorts of computer systems
constructed at genome centers, as well as organism-specific data
resources and other public data repositories. By 'components' we
mean significant subsystems, such as databases, analysis programs, and
user interfaces."
"At present, almost all genome information systems are constructed
from scratch with little reuse of software developed elsewhere. The
main exceptions are a few organism-specific data resources that have
adopted a complete existing system, generally ACEDB, and use it with
minor customization. In other words, the choices that face the
architect of a genome information system today are:
(i) build it yourself so that it does exactly what you want, or
(ii) adopt someone else's system and live with most of its
quirks and limitations. There is no middle ground in which a designer
could choose to build some parts of the system, while adopting
existing components for the remainder."
Washington University Institute for
Biomedical Computing
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