Title: OBIGrid
1OBIGrid ????????????? ??????? ????
2???????????
11?14?? nature insight ????
3??????????
4?????? ????????????????
????? ?)???1? vs ????????? ?)??????????????????
?? ?)???????????/??? ?)??????????????????
???????????????
????????????? ?????????????? ?????????
5???????
HGC??
??????????DB(??????)
6??
?????????????? DB?????????????(????)???? ???????
?????????????????????????????????????????
7Open Bioinformatics Grid(OBIGrid)
http//www.obigrid.org
8?????
CRL
???
CTC
?????
????
????
NTTData
???
???
???
NMR????
????
????
????? WG
???KB
BLAST
GSC
MD????????
JAIST
???
XML DB
????
VPN/Globus
OBIEnv
????
???
????
??
??????????
Compaq
NEC
NIS
???
HNES
AIST
DDBJ
???????
HGC
9OBIGrid ???
?????????????????????? ??????????????????? ???
????????? ????????? ???????? ??????
10OBIGrid ???????????
PC?????
PC?????
- VPNFW?????
- Globus?????
- Over Internet??
?????? ???????
???????????????
XMLDB
VPN-FW
VPN-FW
???????
Site-A
Site-C
VPN-FW
Big Machine
VPN-FW
MDM ?????
Genome DB???
?????????
???????????????
Site-B
Site-D
11GTK2.0 ????(???????)
9?6?(?)?7?(?) ? ?????????????
(JAIST)???????
?? ????? Globus??????????
??? (???)
?? ?? (??NES) ?? ?? (IBM) ?? ? (???) ?? ??
(???) ?? ?? (????) ?? ?? (GSC)
??? 15??? 25?
1???????????????
12????
25??? 107??? 188CPU
13????????????(OBIYagns)
????????
Solver
Web ????
?? ?????
Perl API
JAVA API
????
14????????????(OBIMde)
Protein Explore Chip(200Gflops) Tera Peta flops
in total
MDM Engine 64Gflops/4chips
of residue 189 Molecular wait 21kD
Oncogene Variant Gly12 ?Val 5ns 1000h/64Gflops
Ras p21 G Molecular Dynamics Simulation
15???????????(OBITco)
??????????? ??????? ?????????????????????
?????
???????
???? ??????
??????????
????????????
gtS53477 PIR2 release 73.00 MAAIRDYKTALDLTKSLPRPDGL
SVQELMDSKIRGGLAYNDFLILPGLVD FASSEVSLQTKLTRNITLNIPL
VSSPMDTVTESEMATFMALLDGIGFIHH NCTPEDQADMVRRVKNYENGF
INNPIVISPTTTVGEAKSMKEKYGFAGFP VTADGKRNAKLVGAITSRDI
QFVEDNSLLVQDVMTKNPVTGAQGITLSEG NEILKKIKKGRLLVVDEKG
NLVSMLSRTDLMKNQKYPLASKSANTKQLLW
GASIGTMDADKERLRLLVKAGLDVVILDSSQGNSIFQLNMIKWIKETFPD
LEIIAGNVVTKEQAANLIAAGADGLRIGMGTGSICITQKVMACGRPQGT
A VYNVCEFANQFGVPCMADGGVQKHWSYYYQSFGSWFFYCYDGWYVGRY
YR ITR
?? ??????
?????? ??????
???? ??????
???? ??????
16??XML??????????(OBISgd)
??????
XML DB
XML DB
??? index
??? index
??? index
??? index
XML DBs
Web ????
Perl API
JAVA API
17OBIEnv ???????????????????????
????????????????? ?????????????? ????????? ??
????????????(????) Unix??????? Perl?Java?????
BLAST??????????? ???????????? ???????????????
???? ??????????????????? ????????????
18???????
19Globus Toolkit (GTK) ????
???????????????????? ???????????? ??(???????????)
???????????? ???????????OS???????????
20??????
???????????????(1????) ??????????????????????????
?????????????????? ???????????????????????? ????
???????????? Unix????????
21??????
????????????????? ????????DB?????????????????????
??? Config ?DB?????????(???) ???????????????????
????????????????(????????) ?????????????????
22OBIEnv????
???? ???
???????
?????
??? ??
??? ??
?? ??
Globus Tool Kit
Globus Tool Kit ????
???? ??????
?????????? (??????????)
??? ????
?????????
???? ????(??)
???? ??
???? ???
DB
SW
HW
???? ???? ??
???????? ???????? (???????? ??)
????????????? ??????????
OBIEnv??? ??????
23OBIEnv???????
???(??????)
??????????
blast Q1 genbank blast Q2 genbank blast Q10
genbank
GenBank? BLAST?? ???? ?????
Q1,Q2
??? ??
Q3,Q4
genbank
Q5,Q6
genbank
Q7,Q8
Q9,Q10
???? ?????
genbank
genbank
genbank
???????(????????)
24???????????????????
?????????????? ?)BLAST2.0???????GenBank ?)Linux
2.4.X ??? Perl 5.6.X ?)PentiumIII
800MHz Preference?????????? ?)????????????????
?)????????????????? ?)?????????CPU????????
????????????????????? ????????????
25?????????
??????????????????? ???(PostgreSQL???)?
???????????? ??????????CPU??????????
?????????????????
????????DB?????????????????
???????????? ????????????????
????????? ???????????????????
BLAST?GenBank???????? ??????????
26OBIEnv????????(?????)
dataless
big machine
UniGene
TrEMBL
InterPro
PDB
PDB
small machine
medium machine
cluster
InterPro
PDB
big machine
27DB??????????(????)
ftp??
ftp??
??
???
????
DB
DB
DB
DB
DB
ftp??
DB
????
ftp??
DB
????
DB
DB
DB
DB
ftp??
Perl
????
????
GNU
BLAST
...
DB
DB
??????????????1??? ????(DB???????????)
28??
?????????????????????????? ??????????????????????
??????????????????????????????? GTK?????????????
????????
29?????????????
???????????????????(?????) ?DBMS??? ????????????
?(1?????KB80MB) WAN??????????????????????????
as is ??????2?????? ????????????(????????)?????
????(?????????1??? daily update ???)
30????
OBIEnv?????? ??(?????DB???) ?(???????????????)
??(????????????????) ???????Xavier(??????) ?????
???????????????????????? ???ß??????ß?????? ???
???????