Method and system for creating and using knowledge patterns
Patent 6768982 Issued on July 27, 2004. Estimated Expiration Date: September 6, 2020. Estimated Expiration Date is calculated based on simple USPTO term provisions. It does not account for terminal disclaimers, term adjustments, failure to pay maintenance fees, or other factors which might affect the term of a patent.
A method and system for creating and using knowledge patterns. One or more patterns derived from one or more pharmaceutical data sources are acquired. A knowledge map is created using the one or more patterns. The knowledge map, such as a self-organizing knowledge map, includes a selected representation of a pattern space. A set of selected regions from the knowledge map are annotated. Others patterns are classified with annotated regions of the knowledge map, thereby adding additional knowledge to the knowledge map. The knowledge map is used for recognizing previously unseen or unknown patterns from large amounts of pharmaceutical data obtained by automated screening systems. The knowledge map includes knowledge for a new real or virtual drug compounds or drug therapies. The knowledge patterns may be used to select new known pharmaceutical compounds, or model new virtual pharmaceutical compounds. The method and system described herein may be used to locate and describe previously unrecognized patterns of biological or chemical activity concealed with in a selected range of drug discovery data. This may improve the identification, selection, validation and screening of new real or virtual pharmaceutical compounds. The method and system may also be used to provide new bioinformatic techniques for storing and manipulating pharmaceutical knowledge.
Other References
A.R. Kerlavage, W. FitzHugh, A. Glodek, J. Kelley, J. Scott, R. Shirley, G. Sutton, Man Wai-Chiu, O. White, M.D. Adams, “Data Management and Analysis for High-Throughput DNA Sequencing Projects,” IEEE Engineering in Medicine and Biology, Nov./Dec. 1995, pp. 710-717.
Chen et al., “Automatic Construction Of Neworks Of Concepts Characterizing Document Databases”, IEEE Transactions On Systems, Man, And Cybernetics, vol. 22, No. 5, Sep./Oct. 1992, pp. 885-902.
Karol I. Pelc, “Knowledge System of Engineering and Technology Management”, IEEE the new International Language Technology Management, Oct. 1991.*
Money et al., “The Application of Group Support Systems to Knowledge Acquisition for Disaster Response planning”, IEEE Proceedings of the 28th Annual Hawaii International Conference on System Sciences 1995.*
Karp, Peter D., “Pathway Databases: A Case Study in Computational Symbolic Theories,” Computers and Science, vol. 293, Sep. 14, 2001, pp. 2040-2044.
Gifford, David K., “Blazing Pathways Through Genetic Mountains,” Computers and Science, vol. 293, Sep. 14, pp. 2049-2051.
W. Salmonsen, K.Y.C. Mok, P. Kolatkar, S. Subbiah, “BioJAKE: A Tool for the Creation, Visualization and Manipulation of Metabolic Pathways,” Bioinformatics Centre, Jan. 1999, pp. 392-400.
W. Fujibuchi, K. Sato, H. Ogata, S. Goto, M. Kanehisa, “KEGG and DBGET/LinkDB: Integration of Biological Relationships in Divergent Molecular Biology Data,” Institute for Chemical Research, Kyoto University, 1998, pp. 35-40.
P.D. Karp, “Database Links are a Foundation for Interoperability,” Aug. 1996, pp. 273-279, Tib Tech, (vol. 14).
Paley, P.D. Karp, “Adapting EcoCyc for Use on the World Wide Web,” Gene 172 (1996) GC43-GC50, Mar. 28, 1996, pp. 43-50.
P.D. Karp, “Computer Corner-Metabolic Databases,” Mar. 23, 1998, pp. 114-116, TIBS.
C. Allee, “Data Management for Automated Drug Discovery Laboratories,” XP-002134398, Aug. 21, 1996, pp. 307-310.
K.A. Giuliano, D. Lansing Taylor, “Flourescent-Protein Biosensors: New Tools for Drug Discovery,” Mar. 1998, pp. 135-140, TibTech (vol. 16).
K.A. Giuliano, R.L. DeBiasio, R. T.Dunlay, A. Gough, J.M. Volosky, J. Zock, G.N. Pavlakis, D. Lansing Taylor, “High-Content Screening: A New Approach to Easing Key Bottlenecks in the Drug Discovery Process,” Journal of Biomolecular Screening, 1997, pp. 249-259, (vol. 2, No. 4) Winter.
Ethan B. Arutunian, Deirdre R. Meldrum, Neal A. Friedman and Stephen E. Moody, “Flexible Software Architecture for User-Interface and Machine Control in Laboratory Automation,” BioTechniques 25:698-705 (Oct. 1998).
Blaschke et al., “Automatic Extraction Of Biological Information From Scientific Text:Protein-Protein Interactions”, ISMB'99, pp. 60-67.
Chen et al., “An Algorithmic Approach To Concept Exploration In A Large Knowledge Network (Automatic Thesaurus Consultation): Symbolic Branch-And-Bound Search vs. Connectionist Hopfield Net Activation”, Journal Of The American Society For Information Science, 36(5), 1995, pp. 348-369.
Craven et al., “Constructing Biological Knowledge Bases By Extracting Information From Text Sources”, ISMB'99, pp. 77-86.
Gordon et al., “Toward Discovery Support Systems: A Replication, Re-Examination, And Extension of Swanson's Work On Literature-Based Discovery Of A Connection Between Raynaud's And Fish Oil”, Journal Of The American Society For Information Science, 47(2), 1996, pp. 116-128.
Swanson et al., “An Interactive System For Finding Complementary Literatures: A Stimulus To Scientific Discovery”, Artifical Intelligence 91 (1997), pp. 183-203.
September 6, 2020. Estimated Expiration Date is calculated based on simple USPTO term provisions. It does not account for terminal disclaimers, term adjustments, failure to pay maintenance fees, or other factors which might affect the term of a patent.
