From functional genomics to systems biology: Concepts and practices

Comptes Rendus - Biologies

Volumn 326, Issue 10-11, 2003, Pages 879-892

  Auffray, Charles ^a   Imbeaud, Sandrine ^a   Roux Rouquié, Magali ^b   Hood, Leroy ^c  

^a CNRS   (France)

^b INSTITUT PASTEUR   (France)

^c INSTITUTE FOR SYSTEMS BIOLOGY   (United States)

Author keywords

Functional genomics; Integration; Interdisciplinarity; Modeling; Quality assurance; Systems biology

Indexed keywords

DNA; GALACTOSE; MESSENGER RNA; PROTEOME;

BIOLOGY; GENOME;

ARTICLE; BIOINFORMATICS; BIOTECHNOLOGY; CARBOHYDRATE METABOLISM; DEVELOPMENTAL BIOLOGY; DNA SEQUENCE; GENE EXPRESSION PROFILING; GENE FUNCTION; GENETIC ANALYSIS; GENOME; GENOMICS; GLUCOSE UTILIZATION; HUMAN; HUMAN GENOME; HYPOTHESIS; INFORMATION RETRIEVAL; INFORMATION SYSTEM; NANOTECHNOLOGY; NONHUMAN; PROCESS MODEL; PROTEIN ANALYSIS; QUALITY CONTROL; SEA URCHIN; STANDARDIZATION; YEAST;

ECHINOIDEA;

EID: 0347122082     PISSN: 16310691     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.crvi.2003.09.033     Document Type: Article

References (22)

1. C. Auffray, S. Imbeaud, M. Roux-Rouquié, L. Hood, Self-organized living systems: conjunction of a stable organization with chaotic fluctuations in biological space-time, Phil. Trans. R. Soc. Lond. A 361 (2003) 1125-1139.
2. International Human Genome Sequencing Consortium, Initial sequencing and analysis of the human genome, Nature 409 (2001) 860-921.
3. International Human Genome Sequencing Consortium, A physical map of the human genome, Nature 409 (2001) 934-941.
4. L. Hood, D.J. Galas, The digital code of DNA, Nature 421 (2003) 444-448.
5. E.H. Davidson, D.R. McClay, L. Hood, Regulatory gene networks and the properties of the developmental process, Proc. Natl Acad. Sci. USA 100 (2003) 1475-1480.
6. L.M. Smith, J.Z. Sanders, R.J. Kaiser, P. Hughes, C. Dodd, C.R. Connell, C. Heine, S.B.H. Kent, L. Hood, Fluorescence detection in automated DNA sequence analysis, Nature 321 (1986) 674-679.
7. C. Chelala, M.-D. Devignes, S. Imbeaud, R. Zoorob, C. Auffray, E. Curis, S. Bénazeth, D. Cox, Inconsistencies between maps of human chromosome 22 correlate with increased frequency of disease-related loci, J. Biol. Syst. 10 (2002) 303-317.
8. F. Rougeon, P. Kourilsky, B. Mach, Insertion of a rabbit beta-globin gene sequence into an E. coli plasmid, Nucl. Acids Res. 12 (1975) 2365-2378.
9. S.P. Fodor, J.L. Read, M.C. Pirrung, L. Stryer, A.T. Lu, D. Solas, Light-directed, spatially addressable parallel chemical synthesis, Science 251 (1991) 767-773.
10. M. Schena, D. Shalon, R.W. Davis, P.O. Brown, Quantitative monitoring of gene expression patterns with a complementary DNA microarray, Science 270 (1995) 467-470.
11. A.P. Blanchard, L. Hood, Sequence to array: probing the genome's secrets, Nature Biotech. 14 (1996) 1649.
12. M.W. Hunkapiller, L. Hood, New protein sequenator with increased sensitivity, Science 207 (1980) 523-525.
13. S. Kent, H. Hood, R. Aebersold, D. Teplow, L. Smith, V. Farnsworth, P. Cartier, W. Hines, P. Hughes, C. Dodd, Approaches to sub-picomole protein sequencing, Biotechniques 5 (1987) 314-321.
14. H. Zhou, J.D. Watts, R.A. Aebersold, Systematic approach to the analysis of protein phosphorylation, Nat. Biotechnol. 19 (2001) 375-378.
15. T. Ideker, T. Galitski, L. Hood, A new approach to decoding life: systems biology, Annu. Rev. Genomics Hum. Genet. 2 (2001) 343-372.
16. T. Ideker, V. Thorsson, J.A. Ranish, R. Christmas, J. Buhler, J.K. Eng, R. Bumgarner, D.R. Goodleft, R. Aebersold, L. Hood, Integrated genomic and proteomic analyses of a systematically perturbed metabolic network, Science 292 (2001) 929-933.
17. E.H. Davidson, Genomic regulatory systems, in: Development and Evolution, Academic Press, San Diego, CA, 2001.
18. C.-H. Yuh, H. Bolouri, E.H. Davidson, Genomic cis-regulatory logic: experimental and computational analysis of a sea urchin gene, Science 279 (1998) 1896-1902.
19. E.H. Davidson, J.P. Rast, P. Oliveri, A. Ransick, C. Calestani, C.-H. Yuh, T. Minokawa, G. Amore, V. Hinman, C. Arenas-Mena, O. Otim, C.T. Brown, C.B. Livi, P.Y. Lee, R. Revilla, A.G. Rust, Z.J. Part, M.J. Schilstra, P.J.C. Clarke, M.I. Arnone, L. Rowen, R.A. Cameron, D.R. McClay, L. Hood, H. Bolouri, A genomic regulatory network for development, Science 295 (2002) 1669-1678.
20. F. Jacob, La logique du vivant, Gallimard, Paris, 1970.
21. J.N. Weinstein, T. Myers, J. Buolamwini, K. Raghavan, W. van Osdol, J. Licht, V.N. Viswanadhan, K.W. Kohn, L.V. Rubinstein, A.D. Koutsoukos, et al., Predictive statistics and artificial intelligence in the US National Cancer Institute's Drug Discovery Program for Cancer and AIDS, Stem Cells 12 (1994) 13-22.
22. J.N. Weinstein, T.G. Myer, P.M. O'Connor, S.H. Friend, A.J. Fornace, K.W. Kohn, T. Fojo, S.E. Bates, L.V. Rubinstein, N.L. Anderson, J.K. Buolamwini, W.W. van Osdol, A.P. Monks, D.A. Scudiero, E.A. Sausville, D.W. Zaharevitz, B. Bunow, V.N. Viswanadhan, G.S. Johnson, R.E. Wittes, K.D. Paull, An information-intensive approach to the molecular pharmacology of cancer, Science 275 (1997) 343-349.