Prediction of higher order functional networks from genomic data

Pharmacogenomics

Volumn 2, Issue 4, 2001, Pages 373-385

  Kanehisa, M ^a  

^a KYOTO UNIVERSITY   (Japan)

Author keywords

Bioinformatics; Database; Graph algorithms; Metabolic network; Ontology; Regulatory network; Systems biology

Indexed keywords

GENE PRODUCT; GLYCAN; MESSENGER RNA; PROTEIN; PROTEOME; DNA; RNA;

AMINO ACID SEQUENCE; CELL FUNCTION; CONTROLLED STUDY; DATA BASE; EXPERIMENT; GENE EXPRESSION; GENE SEQUENCE; GENETIC ANALYSIS; INFORMATION SCIENCE; METHODOLOGY; MOLECULAR BIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PREDICTION; PROTEIN FAMILY; PROTEIN STRUCTURE; REVIEW; BIOLOGY; COMPUTER GRAPHICS; COMPUTER SIMULATION; GENETIC DATABASE; GENETICS; GENOMICS; PROTEIN CONFORMATION;

COMPUTATIONAL BIOLOGY; COMPUTER GRAPHICS; COMPUTER SIMULATION; DATABASES, GENETIC; DNA; GENOMICS; PROTEIN CONFORMATION; PROTEINS; RNA; SUPPORT, NON-U.S. GOV'T;

EID: 0035198808     PISSN: 14622416     EISSN: None     Source Type: Journal    
DOI: 10.1517/14622416.2.4.373     Document Type: Review

References (25)

1. Post-genome informatics
2. Metabolic modeling of microbial strains in silico
3. Protein function in the post-genomic era
4. KEGG: Kyoto Encyclopedia of Genes and Genomes
5. WIT: Integrated system for high-throughput genome sequence analysis and metabolic reconstruction
6. The EcoCyc and MetaCyc databases
7. Pathway databases and higher order function
8. Advances in structural genomics
9. Assigning genomic sequences to CATH
10. LIGAND: Chemical database for enzyme reactions
11. A genomic perspective on protein families
12. Gene ontology: Tool for the unification of biology
13. A heuristic graph comparison algorithm and its application to detect functionally related enzyme clusters
14. Automatic detection of conserved gene clusters in multiple genomes by graph comparison and P-quasi grouping
15. Authoritative sources in a hyperlinked environment
16. Critical evaluation of search algorithms for automated molecular docking and database screening
17. Reveal, a general reverse engineering algorithm for inference of genetic network architectures
18. Inferring qualitative relations in genetic networks and metabolic pathways
19. Using Bayesian networks to analyze expression data
20. Inferring subnetworks from perturbed expression profiles
21. Integrated genomic and proteomic analyses of a systematically perturbed metabolic network
22. Whole-cell simulation: A grand challenge of the 21st century
23. Physiological modeling with virtual cell framework
24. Simulation of prokaryotic genetic circuits
25. A comprehensive two-hybrid analysis to explore the yeast protein interactome