Map editor for the atomic reconstruction of metabolism (ARM)

Biotechnology in Agriculture and Forestry

Volumn 57, Issue , 2006, Pages 129-139

  Arita, M ^a,b,c   Fujiwara, Y ^a   Nakanishi, Y ^d  

^a UNIVERSITY OF TOKYO   (Japan)

^b KEIO UNIVERSITY   (Japan)

^c JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

^d INTEC Web and Genome Informatics Corp   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 34547658972     PISSN: 0934943X     EISSN: None     Source Type: Book Series    
DOI: 10.1007/3-540-29782-0_10     Document Type: Chapter

References (13)

1. Arita M (2003) In silico atomic tracing by substrate-product relationships in Escherichia coli intermediary metabolism. Genome Res 13 (11):2455-2466
2. Arita M (2005) Introduction to the ARM database: database on chemical transformations in metabolism for tracing pathways. In: Tomita M, Nishioka T (eds) Metabolomics: the frontier of systems biology. Springer, Berlin Heidelberg New York, pp 193-211
3. Arita M, Robert M, Tomita M (2005) All systems go: launching cell simulation fueled by integrated experimental biology data. Curr Opin Biotechnol 16 (3):344-349
4. Berg JM, Tymoczka JL, Stryer L (2002) Biochemistry, 5th edn. Freeman, New York
5. Hood L (2003) Systems biology: integrating technology, biology, and computation. Mech Ageing Dev 124:9-16
6. Houjou T, Yamatani K, Nakanishi H, Imagawa M, Shimizu T, Taguchi R (2004) Rapid and selective identification of molecular species in phosphatidylcholine and sphingomyelin by conditional neutral loss scanning and MS3. Rapid Commun Mass Spectrom 18 (24):3123-3130
7. Kanehisa M, Goto S, Kawashima S, Okuno Y, Hattori M (2004) TheKEGGresource for deciphering the genome. Nucleic Acids Res 32 (Database Issue):D277-D280
8. Keseler IM, Collado-Vides J, Gama-Castro S, Ingraham J, Paley S, Paulsen IT, Peralta-Gil M, Karp PD (2005) EcoCyc: a comprehensive database resource for Escherichia coli. Nucleic Acids Res 33 (Database Issue):D334-337
9. Ma HW, Zhao XM, Yuan YJ, Zeng AP (2004) Decomposition of metabolic network into functional modules based on the global connectivity structure of reaction graph. Bioinformatics 20 (12):1870-1876
10. Mavrovouniotis ML (1992) Computer-aided synthesis of biochemical pathways. Biotechnol Bioeng 36:1119-1132
11. Mendes P (2002) Emerging bioinformatics for the metabolome. Brief Bioinform 3 (2):134-145
12. Papin JA, Reed JL, Palsson BO (2004) Hierarchical thinking in network biology: the unbiased modularization of biochemical networks. Trends Biochem Sci 29 (12):641-647
13. Ravasz E, Somera AL, Mongru DA, Oltvai ZN, Barabasi AL (2002) Hierarchical organization of modularity in metabolic networks. Science 297 (5586):1551-1555