The GeneMine system for genome/proteome annotation and collaborative data mining

IBM Systems Journal

Volumn 40, Issue 2, 2001, Pages 592-603

  Lee, C ^a   Irizarry, K ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AGGLOMERATION; COMPUTER SOFTWARE; DNA; GENES; INTERNET; MAPPING; PROTEINS; RELATIONAL DATABASE SYSTEMS; SERVERS;

BIOINFORMATICS;

DATA MINING;

EID: 0034964204     PISSN: 00188670     EISSN: None     Source Type: Journal    
DOI: 10.1147/sj.402.0592     Document Type: Article

References (46)

1. Identifying gene function and features through comprehensive automated analysis
2. Basic local alignment search tool
3. Reliable identification of large numbers of candidate SNPs
4. Genome-wide analysis of single-nucleotide polymorphisms in human expressed sequences
5. Characterizing heterogeneous molecular biology database systems
6. BioKleisli: A digital library for biomedical researchers
7. GAIA: Framework annotation of genomic sequence
8. MAGPIE: Automated genome interpretation
9. PEDANTic genome analysis
10. Automated genome sequence analysis and annotation
11. Knowledge discovery and data mining in biological databases
12. Comparative visualization of structure-sequence alignments
13. OmniViz pro: Applying multiple interactive visualizations for the life and chemical sciences
14. Prediction of protein side-chain conformation by packing optimization
15. Accurate modeling of protein conformation by automatic segment matching
16. Predicting protein mutant energetics by self-consistent ensemble optimization
17. Cn3D: Sequence and structure views for entrez
18. A general method applicable to the search for similarities in the amino acid sequence of two proteins
19. Identification of common molecular subsequences
20. dbEST - Database for 'expressed sequence tags'
21. The PROSITE database, its status in 1995
22. SCOP: A structural classification of proteins database for the investigation of sequences and structures
23. YPD-A database for the proteins of saccha-romyces cerevisiae
24. CATH-A hierarchic classification of protein domain structures
25. The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1998
26. PSORT: A program for detecting sorting signals in proteins and predicting their subcellular localization
27. A hidden markov model for predicting transmembrane helices in protein sequences
28. Protein family classification based on searching a database of blocks
29. ProDom and ProDom-CG: Tools for protein domain analysis and whole genome comparisons
30. FlyBase: A drosophila database. The flybase consortium
31. Improved tools for biological sequence comparison
32. The PROSITE database, its status in 1999
33. The RING finger domain: A recent example of a sequence-structure family
34. Mutations in the BRCA1 gene in families with early-onset breast and ovarian cancer
35. Confirmation of BRCA1 by analysis of germline mutations linked to breast and ovarian cancer in ten families
36. Multivalent ligand-receptor binding interactions in the fibroblast growth factor system produce a cooperative growth factor and heparin mechanism for receptor dimerization
37. The C. elegans gene odr-7 encodes an olifactory-specific member of the nuclear receptor superfamily
38. Solution structure of the RAIDD CARD and model for CARD/CARD interaction in caspase-2 and caspase-9 recruitment
39. Experimental support for a beta-propeller domain in integrin alpha-subunits and a calcium binding site on its lower surface
40. The effect of human 2-microglobulin on major histocompatibility complex I peptide loading and the engineering of a high affinity variant: Implications for peptide-based vaccines
41. A specific transition state for S-peptide combining with folded S-protein and then refolding