Introducing computational systems biology

Computational Systems Biology

Volumn , Issue , 2006, Pages 1-14

  Kriete, Andres ^a,b   Eils, Roland ^c,d  

^a DREXEL UNIVERSITY   (United States)

^b Laboratory of Molecular and Cellular Biology of Hematopoiesis   (United States)

^c GERMAN CANCER RESEARCH CENTER DKFZ   (Germany)

^d UNIVERSITY OF HEIDELBERG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

DECISION SUPPORT SYSTEMS; GENES; MOLECULAR BIOLOGY; SIGNAL TRANSDUCTION;

BOTTOM UP APPROACH; BOTTOM-UP AND TOP-DOWN; CELL-TO-CELL COMMUNICATION; COMPUTATIONAL SYSTEMS BIOLOGY; METABOLIC PATHWAYS; MICROSCOPIC OBSERVATIONS; SCIENTIFIC LITERATURE; STATISTICAL BIOINFORMATICS;

LEAD COMPOUNDS;

EID: 77954010363     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1016/B978-012088786-6/50020-4     Document Type: Chapter

References (35)

1. Adami C., Ofria C., Collier T.C. Evolution of biological complexity. PNAS 2000, 97(9):4463-4468.
2. Adleman L.M. Molecular computation of solutions to combinatorial problems. Science 1994, 266(5187):1021-1024.
3. Albert R., Jeong H., Barabasi A.L. Error and attack tolerance of complex networks. Nature 2000, 406:378-382.
4. Bassingthwaighte J.B. Strategies for the Physiome Project. Annals of Biomedical Engineering 2000, 28:1043-1058.
5. Brenner S. Nobel lecture: Nature's gift to science. Biosci Rep. 2003, 23(5/6):225-237.
6. Brent R. A partnership between biology and engineering. Nature Biotech. 2004, 22(10):1211-1214.
7. Buchanan T.G. The community of the self. Nature 2002, 420:246-251.
8. Conrad C. Automatic identification of subcellular phenotypes on human cell arrays. Genome Res. 2004, 200(14):1130-1136.
9. Csete M.E., Doyle J.C. Bow ties, metabolism, and disease. Trends in Biotechnology 2004, 22(4):446-450.
10. Erfle H., Simpson J.C., Bastiaens P.I., Pepperkok R. siRNA cell arrays for highcontent screening microscopy. Biotechniques 2004, 37(3):454-458.
11. Hartwell L.H., Hopfield J.J., Leibler S., Murray A.W. From molecular to modular cell biology. Nature 1999, 2(402/6761 Suppl.):C47-C52.
12. Hood L., Heath J.R., Phelps E.W., Lin B. Systems biology and new technologies enable predictive and preventive medicine. Science 2004, 306:640-643.
13. Huang, S. The practical problems of post-genomic biology. Nature Biotech. 18:471-472.
14. Hunter P.J., Borg T.K. Integration from proteins to organs: The Physiome Project. Nature 2003, 4:237-243.
15. Ideker T., Galitski T., Hood L. A new approach to decoding life: Systems biology. Annu. Rev. Genomics Hum. Genet. 2001, 2:343-372.
16. Karp R. Mathematical challenges from genomics and molecular biology. Notices of the AMS 2002, 94(5):544-553.
17. Kitano H. Foundations of Systems Biology 2001, MIT Press, Cambridge, MA.
18. Kitano H. Biological robustness. Nature 2004, 5:826-837.
19. Kitano H. International alliances for quantitative modeling in systems biology. Molecular Systems Biology 2005, doi: 10.1038/msb4100011.
20. Kriete A. Form and function of mammalian lung: Analysis by scientific computing. Adv. Anat. Embryol. Cell Biol. 1998, 145:1-105.
21. Lappe M., Holm L. Unraveling protein networks with near-optimal efficiency. Nat. Biotech. 2004, 22:98-103.
22. Mendes P., Sha W., Ye K. Artificial gene networks for objective comparison of analysis algorithms. Bioinformatics 2003, 19(2):II122-II129.
23. Milo R., Itzkovitz S., Kashtan N., Levitt R., Shen-Orr S., Ayzenshtat I., Sheffer M., Alon U. Superfamilies of designed and evolved networks. Science 2004, 303:1538-1542.
24. Milo R., Shen-Orr S., Itzkovitz S., Kashtan N., Chklovskii D., Alon U. Network motifs: Simple building blocks of complex networks. Science 2002, 298:824-827.
25. Editorial Can biological phenomena be understood by humans?. Nature 2000, 408:345.
26. Noble D. Modeling the heart: From genes to cells to the whole organ. Science 2002, 295:1678-1682.
27. Noireaux V., Libchaber A. A vesicle bioreactor as a step toward an artificial cell assembly. PNAS 2004, 101(51):17669-17674.
28. Oltvai Z.N., Barabasi A.L. Life's complexity pyramid. Science 2002, 298:763-764.
29. Sokhansanj B.A., Fitch J.P., Quong J.N., Quong A.A. Linear fuzzy gene network models obtained from microarray data by exhaustive search. BMC Bioinformatics 2004, 5(1):108.
30. Stelling J., Sauer U., Szallasi Z., Doyle F.J., Doyle J. Robustness of cellular functions. Nature 2004, 409(15):860-921.
31. Turing A. The chemical basis for morphogenesis. Phil. Trans. R. Soc. London B 1952, 237:37-72.
32. Walleczek J. Self-organized Biological Dynamics and Nonlinear Control 2000, Cambridge University Press, New York.
33. Weber R., Proctor J.M., Waldstein I., Kriete A. Case-base reasoning for modeling complex systems. LNCS 2005, 3620:625-639. Springer, Berlin.
34. Wiemer J., Schubert F., Granzow M., Ragg T., Fieres J., Mattes J., Eils R. Informatics united: Exemplary studies combining medical informatics, neuroinformatics, and bioinformatics. Methods Inf. Med. 2003, 42(2):126-133.
35. Yates F.E. Order and complexity in dynamical systems: Homeodynamics as a generalized mechanics for biology. Math and Computer Modeling 1992, 19.