3 XML SPring-8 SPring-8 DNA DNA 4 XML BLAST)
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- きよたつ なぐも
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1 BioGrid
2 3 XML SPring-8 SPring-8 DNA DNA 4 XML BLAST)
3 5 (flat file) XML DB XML DB DDBJ 6 DNA (SWISS-PROT) (PDB)
4 XML 7 Common Format SWISS-PROT PIR PDB entry entry ProteinEntry PDBj ID entry/id entry/@name ProteinEntry/@id PDBj/@entry_ID entry/name entry/proteinname ProteinEntry/protein/name PDBj/main/entity/entity_item/desc iption entry/gene entry/genes/gene/@name ProteinEntry/genetics/gene/uid PDBj/main/entity/entity_item/src_g en/gene entry/organism/scientif PDBj/main/entity/entity_item/src_g entry/organisms/organism/name ProteinEntry/organism/formal ic en/scientific_name entry/organism/commo PDBj/main/entity/entity_item/src_g entry/organisms/organism/name ProteinEntry/organism/common n en/common_name entry/reference entry/references/reference ProteinEntry/reference/refinfo PDBj/main/citation/citation_item entry/function entry/comments EC# entry/ec_num entry/proteinname --- PDBj/main/entity/entity_item/EC entry/keyword entry/keywords/keyword ProteinEntry/keywords/keyword PDBj/main/struct/keywords entry/sequence entry/sequence ProteinEntry/sequence PDBj/main/entity/entity_item/seq_ one_letter_code entry/feature entry/features/feature ProteinEntry/feature PDBj/struct/site entry/feature/type entry/features/feature/@key ProteinEntry/feature/feature-type PDBj/struct/site/@id entry/feature/descriptio entry/features/feature/@descriptio ProteinEntry/feature/description n n PDBj/struct/site/site_gen/details XML <?xml version="1.0"?> <entry> <id> </id> <date> </date> <name db= pir acc=.. > </name> <gene db= sp acc=.. > </gene> <organism db="pir" acc=".."> <scientific db= pir acc=.. > </scientific> <common db= pir acc=.. > </common> </organism> <reference db= pir acc=.. > <author> </author> <citation> </citation> <volume></volume> <year> </year> <title> </title> <first_page> </first_page> <last_page> </last_page> </reference> <function db= sp acc=.. > <desc> </desc> </function> <keyword db= sp acc=.. > </keyword> <feature db= pir acc=.. > <type> </type> <desc> </desc> <start> </start> <end> </end> </feature> <sequence db= sp acc=.. length=.. > </sequence> </entry> 8
5 9 SOAP SOAP PC XML XML DB DB datagrid Web PIR SWISS PROT PDB XML SOAP
6 11 XML SWISS PROT PIR PDB 12
7 XML 13 XSLT HTML (1) 14
8 XSLT HTML (2) 15 XSLT HTML (3) 16
9 17 18 Local Disk 3. Error check 2Download Public DB BioDB-Updater 4. Post Processing 1 Pre-download check Mirror DB BLAST index Others Configuration File
10 HoCDB Homology-based Clustering DataBase 19 SwissProt(+TrEMBL) 85 BLAST HoCDB HoCDB Swiss-Prot PDB SCOP BLAST All Against All 20
11 21 XML (1) XML XML (2) XML XML (3) XML / XML( XML XML) (4) ADME ADME ( ) / 22 ADME XML ADME HTML format XML XML format
12 23 XML PRF XML 24 PRF WEB Server System Users Database System litquery.pl seqsrch.pl motsrch.pl synsrch.pl blast seqget.pl orgget.pl CGI (SyBase, Solaris) (Perl,) XML Query Server
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