Bio-Mirror public service
for high-speed access to biosequence data
This is a world-wide bioinformatic public service for high-speed
access to up-to-date DNA/protein biological sequence databanks. In
genome research, these databanks have been being growing
tremendously, so much that distribution of them is hampered by
existing Internet speeds. The Bio-Mirror project is devoted to
facilitate timely access to important large data sets for this
research. High speed access is provided by Internet2 infrastructure of
the Very High Speed Backbone Service (vBNS), Abilene, TransPAC,
the Australian Academic Research Network (AARNet)
and the Asia-Pacific Advanced Network (APAN).
DNA biosequence data include GenBank, EMBL, DDBJ, REFSEQ.
Protein biosequence data include SWISS-PROT*, TrEMBL, PIR, GENPEPT.
Protein structure data includes PDB.
Other data include BLOCKS, ENZYME, PROSITE*, REBASE, UNIGENE, BLAST,
Data totals about 66 Gigabytes in compressed format (as of Nov. 2001),
and are updated from the primary sources nightly.
* See Addendum for commercial restrictions on SWISS-PROT and PROSITE
The support of Asia Pacific Bioinformatics Network
through the APBioNet-APAN advanced networking project,
with the Agriculture Working Group and Bioinformatics Working Group
of APAN, has been instrumental in aiding this project.
Other bioinformatics and public data services are invited
to participate, and to utilize this high-speed access to data sets.
No association with APAN is expected of biomirror project members.
Agriculture, Forestry and Fisheries Research Council (AFFRC), Japan is
well connected to APAN, sharing data through APAN between the sites, and
through TransPAC with Indiana University. The National University of
Singapore connects through SINGAREN to STARTAP vBNS, to CA*Net2 and to
Tokyo APAN. The Australian bio-mirror is directly connected to AARNet,
which has a high-speed link directly into Abilene in Seattle.
Indiana University is well connected to high-speed initiatives of
Internet2, as a member in vBNS, and center of Abilene network
operations and the US TransPAC connections to APAN.
Abilene is an advanced research and education network
in the United States. See
These servers are publicly available sites for high-speed access to
up-to-date DNA/protein biological sequence databanks. High speed
access between the sites is provided by the network infrastructure
developed by Very High Speed Backbone Service (vBNS), TransPAC
(Trans-Pacific network), and Asia-Pacific Advanced Network (APAN),
and others. These sites are well connected to national research and education
networks within each country.
DNA/protein biological sequence databanks are essential for advanced
studies in genome research. These sequence data have been mutually
collected between US, Japan and Europe since 1984.
Biosequence search methods such as BLAST for finding homologous
sequences, SRS for searching sequence and research literature
documentation, and others all require large local disks to store these
databases, and rapid, efficient Internet access to obtain current
Bioinformatics service centers have been developed in many countries, among
regional university, government and industry labs, to provide life
scientists with the most recently updated biological sequence databanks.
Without infrastructure to distribute this data efficiently, these
services often are not updated in a timely manner due to the lack of
existing network band width. In this project, we will develop a reliable
mirror server with high speed data transfer, using advanced network
June 1997 -- initial discussions between Y Ugawa and D Gilbert about
Internet 2 uses for biosequence data between USA and Japan.
February 1998 -- APAN Singapore link with APAN Japan established.
April 1998 -- an expanded Bio-Mirrors project, by A Mizushima and
Y Ugawa, approved by APBioNet.
May 1998 -- APAN resource allocation secretariat approved the
resource allocation which A Mizushima and Tan Tin Wee applied
for through APBioNet.
June 1998 -- Bio-Mirrors project approved by APAN.
September 1998 -- Transpac link to APAN Japan established.
December 1998 -- Initial mirroring between bio-mirror.jp.apan.net
and bio-mirror.us.apan.net, including GenBank, EMBL, and protein data.
January 1999 -- Australian site bio-mirror.au.apan.net joins;
DDBJ databank added.
March 1999 -- TransPAC, the international
connection between the vBNS and APAN is operational at 70 Mbps.
April 1999 -- Singapore site bio-mirror.sg.apan.net joins.
2000 -- Korea site bio-mirror.kr.apan.net joins.
-- China site bio-mirror.im.ac.cn joins.
2001 -- Thailand site bio-mirror.ku.ac.th joins.
-- Malaysia site bio-mirror.my.apan.net joins.
Commercial use restrictions on SWISS-PROT and PROSITE:
Publishers of the SWISS-PROT and PROSITE data sets ask that
all commercial users participate in the funding of these
important data by paying a license fee. No fee is charged to
academic users. Please refer to these announcements for details: