Heterogeneous database federation using grid technology for drug discovery process

Lecture Notes in Bioinformatics (Subseries of Lecture Notes in Computer Science)

Volumn 3370, Issue , 2005, Pages 43-52

  Tohsato, Yukako ^a   Kosaka, Takahiro ^a   Date, Susumu ^a   Shimojo, Shinji ^a   Matsuda, Hideo ^a  

^a OSAKA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BIOTECHNOLOGY; DRUG PRODUCTS; INTERNET; METADATA; PROTEINS; DISTRIBUTED COMPUTER SYSTEMS; LIVING SYSTEMS STUDIES;

ANTAGONIST; DRUG DISCOVERY PROCESS; GRID TECHNOLOGY; HETEROGENEOUS DATABASE FEDERATION;

DATABASE SYSTEMS;

DATABASE FEDERATION; DRUG DISCOVERY; GRID TECHNOLOGY; LIFE SCIENCE; RESEARCH COLLABORATION;

EID: 26444613909     PISSN: 03029743     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1007/978-3-540-32251-1_5     Document Type: Conference Paper

References (18)

1. Nakamura, H., Date, S., Matsuda, H., Shimojo, S.: A Challenge towards Next-Generation Research Infrastructure for Advanced Life Science. New Generation Computing 22 (2004) 157-166
2. Foster, I., Kesselman, C., Nick, J.,Tuecke, S.: The Physiology of the Grid. An Open Grid Services Architecture for Distributed Systems Integration. Open Grid Service Infrastructure WG, Global Grid Forum (2002) http://www.ggf.org/
3. Global Grid Forum, http://www.gridforum.org/
4. Boeckmann, B., Bairoch, A., Apweiler, R., Blatter, M.C., Estreicher, A., Gasteiger, E, Martin, M.J., Michoud, K., O'Donovan, C., Phan, I., Pilbout, S., Schneider M.: The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Research 31 (2003) 365-370
5. Wu, C.H., Yeh, L.S., Huang, H., Arminski, L., Castro-Alvear, J., Chen, Y., Hu, Z., Kourtesis, P., Ledley, R.S., Suzek, B.E., Vinayaka, C.R., Zhang, J., Barker, W.C.: The Protein Information Resource. Nucleic Acids Research 31 (2003) 345-347
6. Bourne, P.E., Addess, K.J., Bluhm, W.F., Chen, L., Deshpande, N., Feng, Z., Fleri, W., Green, R., Merino-Ott, J.C., Townsend-Merino, W., Weissig, H., Westbrook, J., Berman, H.M.: The distribution and query systems of the RCSB Protein Data Bank. Nucleic Acids Research 32 (Database issue) (2004) D223-D225
7. OGSA-DAI Project, http://www.ogsadai.org
8. UK e-Science (GRID) core programme, http://www.escience-grid.org.uk/
9. Kosaka, T., Tohsato, Y., Date, S., Hatsuda, H., Shimojo, S.: An OGSA-Based Integration of Life Scientific Resources toward Drug Discovery Proc. of HealthGRID 2004, Clermont-Ferrand (2004 in press)
10. Schuffenhauer, A., Zimmermann, J., Stoop, R., van der Vyver, J.J., Lecchini, S., Jacoby, E.: An ontology for pharmaceutical ligands and its application for in silico screening and library design. Journal of Information and Computer Sciences 42 (2002) 947-55
11. Schuffenhauer, A., Floersheim, P., Acklin, P., Jacoby, E.: Similarity metrics for ligands reflecting the similarity of the target proteins. Journal of Information and Computer Sciences 43 (2003) 391-405
12. Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J., Zhang, Z., Miller, W., Lipman, D.J.: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research 25 (1997) 3389-3402
13. Xu, J.: GMA: A Generic Match Algorithm for structural Homomorphism, Isomorphism, Maximal Common Substructure Match and Its Applications. Journal of Chemical Information and Computer Sciences 36 (1996) 25-34.
14. Flower, D.R.: On the Properties of Bit String-Based Measures of Chemical Similarity. Journal of Chemical Information and Computer Sciences 38 (1998) 379-386
15. MDL Drug Data Report Version 2003.2, MDL ISIS/HOST software, MDL Information Systems, Inc. San Leandro, CA, http://www.mdl.com
16. Brown, R.D., Martin, Y.C.: Use of Structure-Activity Data To Compare Structure-Based Clustering Methods and Descriptors for Use in Compound Selection. Journal of Information and Computer Sciences 36 (1996) 572-584
17. Xue, L., Godden, J.W., Bajorath, J.: Database Searching for Compounds with Similar Biological Activity Using Short Binary Bit String Representations of Molecules. Journal of Chemical Information and Computer Sciences 39 (1996) 881-886
18. Apweiler, R., Bairoch, A., Wu, C.H., Barker, W.C., Boeckmann, B., Ferro, S., Gasteiger, E., Huang, H., Lopez, R., Magrane, M., Martin, M.J., Natale, D.A., O'Donovan, C., Redaschi, N., Yeh, L.S.: UniProt: the Universal Protein Knowledgebase. Nucleic Acids Research 32 (Database issue) (2004) D115-D119