메뉴 건너뛰기




Volumn , Issue , 2009, Pages 60-65

An algorithm for the discovery of phenotype related metabolic pathways

Author keywords

Comparative genomics; Metabolic pathways; Phenotype related pathways; Phylogenetic pro file

Indexed keywords

AEROBIC ORGANISMS; AEROBIC RESPIRATION; ANAEROBIC ORGANISMS; COMPARATIVE GENOMICS; GRAPH SEARCH ALGORITHM; INDUSTRIAL PROCESSS; METABOLIC NETWORK; METABOLIC PATHWAYS; METABOLIC REACTIONS; SUBNETWORKS; WORK-RELATED;

EID: 74549132494     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/BIBM.2009.78     Document Type: Conference Paper
Times cited : (4)

References (26)
  • 1
    • 0347364647 scopus 로고    scopus 로고
    • H. O. Smith, C. A. Hutchison, C. Pfannkoch, and J. C. Venter, Generating a synthetic genome by whole genome assembly: φX174 bacteriophage from synthetic oligonucleotides, PNAS, 100, no. 26, pp. 15 440-15 445, Dec. 2003.
    • H. O. Smith, C. A. Hutchison, C. Pfannkoch, and J. C. Venter, "Generating a synthetic genome by whole genome assembly: φX174 bacteriophage from synthetic oligonucleotides," PNAS, vol. 100, no. 26, pp. 15 440-15 445, Dec. 2003.
  • 2
    • 0037436116 scopus 로고    scopus 로고
    • Tinker, tailor: Can Venter stitch together a genome from scratch?
    • C. Zimmer, "Tinker, tailor: Can Venter stitch together a genome from scratch?" Science, vol. 299, no. 5609, pp. 1006-1007, 2003.
    • (2003) Science , vol.299 , Issue.5609 , pp. 1006-1007
    • Zimmer, C.1
  • 4
    • 0033551248 scopus 로고    scopus 로고
    • Assigning protein functions by comparative genome analysis: Protein phylogenetic pro-files
    • M. Pellegrini, E. M. Marcotte, M. J. Thompson, D. Eisenberg, and T. O. Yeates, "Assigning protein functions by comparative genome analysis: Protein phylogenetic pro-files," PNAS, vol. 96, no. 8, p. 42854288, 1999.
    • (1999) PNAS , vol.96 , Issue.8 , pp. 42854288
    • Pellegrini, M.1    Marcotte, E.M.2    Thompson, M.J.3    Eisenberg, D.4    Yeates, T.O.5
  • 5
    • 11144319853 scopus 로고    scopus 로고
    • Use of logic relationships to decipher protein network organization
    • P. M. Bowers, S. J. Cokus, D. Eisenberg, and T. O. Yeates, "Use of logic relationships to decipher protein network organization," Science, vol. 306, no. 5705, pp. 2246-2249, 2004.
    • (2004) Science , vol.306 , Issue.5705 , pp. 2246-2249
    • Bowers, P.M.1    Cokus, S.J.2    Eisenberg, D.3    Yeates, T.O.4
  • 6
    • 0346505465 scopus 로고    scopus 로고
    • A Crossgenomic approach for systematic mapping of phenotypic traits to genes
    • K. Jim, K. Parmar, M. Singh, and S. Tavazoie, "A Crossgenomic approach for systematic mapping of phenotypic traits to genes," Genome Research, vol. 14, no. 1, pp. 109-115, 2004.
    • (2004) Genome Research , vol.14 , Issue.1 , pp. 109-115
    • Jim, K.1    Parmar, K.2    Singh, M.3    Tavazoie, S.4
  • 8
    • 33745456505 scopus 로고    scopus 로고
    • Ab initio genotype-phenotype association reveals intrinsic modularity in genetic networks
    • N. Slonim, O. Elemento, and S. Tavazoie, "Ab initio genotype-phenotype association reveals intrinsic modularity in genetic networks," Molecular Systems Biology, vol. 2, no. 2006.2005, 2006.
    • (2005) Molecular Systems Biology , vol.2 , Issue.2006
    • Slonim, N.1    Elemento, O.2    Tavazoie, S.3
  • 9
    • 46249123102 scopus 로고    scopus 로고
    • Microbial genotypephenotype mapping by class association rule mining
    • M. Tamura and P. D'haeseleer, "Microbial genotypephenotype mapping by class association rule mining," Bioinformatics, vol. 24, no. 13, p. 1523, 2008.
    • (2008) Bioinformatics , vol.24 , Issue.13 , pp. 1523
    • Tamura, M.1    D'haeseleer, P.2
  • 10
    • 33750470067 scopus 로고    scopus 로고
    • Integration of curated databases to identify genotype-phenotype associations
    • C. Goh, T. Gianoulis, Y. Liu, J. Li, A. Paccanaro, Y. Lussier, and M. Gerstein, "Integration of curated databases to identify genotype-phenotype associations," BMC Genomics, vol. 7, no. 1, p. 257, 2006.
    • (2006) BMC Genomics , vol.7 , Issue.1 , pp. 257
    • Goh, C.1    Gianoulis, T.2    Liu, Y.3    Li, J.4    Paccanaro, A.5    Lussier, Y.6    Gerstein, M.7
  • 11
    • 43349107220 scopus 로고    scopus 로고
    • Assigning functional linkages to proteins using phylogenetic profiles and continuous phenotypes
    • O. Gonzalez and R. Zimmer, "Assigning functional linkages to proteins using phylogenetic profiles and continuous phenotypes," Bioinformatics, vol. 24, no. 10, pp. 1257-1263, 2008.
    • (2008) Bioinformatics , vol.24 , Issue.10 , pp. 1257-1263
    • Gonzalez, O.1    Zimmer, R.2
  • 12
    • 0033518234 scopus 로고    scopus 로고
    • From molecular to modular cell biology
    • L. H. Hartwell, J. J. Hopfield, S. Leibler, and A. W. Murray, "From molecular to modular cell biology," Nature, vol. 402, no. 6761, pp. 47-52, 1999.
    • (1999) Nature , vol.402 , Issue.6761 , pp. 47-52
    • Hartwell, L.H.1    Hopfield, J.J.2    Leibler, S.3    Murray, A.W.4
  • 13
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: Kyoto encyclopedia of genes and genomes
    • M. Kanehisa and S. Goto, "KEGG: Kyoto encyclopedia of genes and genomes," Nucl. Acids Res., vol. 28, no. 1, pp. 27-30, 2000.
    • (2000) Nucl. Acids Res , vol.28 , Issue.1 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 14
    • 25644458211 scopus 로고    scopus 로고
    • R. Overbeek, T. Begley, R. M. Butler, J. V. Choudhuri, H. Chuang, M. Cohoon, V. de Crcy-Lagard, N. Diaz, T. Disz, R. Edwards, M. Fonstein, E. D. Frank, S. Gerdes, E. M. Glass, A. Goesmann, A. Hanson, D. Iwata-Reuyl, R. Jensen, N. Jamshidi, L. Krause, M. Kubal, N. Larsen, B. Linke, A. C. McHardy, F. Meyer, H. Neuweger, G. Olsen, R. Olson, A. Osterman, V. Portnoy, G. D. Pusch, D. A. Rodionov, C. Rckert, J. Steiner, R. Stevens, I. Thiele, O. Vassieva, Y. Ye, O. Zagnitko, and V. Vonstein, The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes, Nucleic Acids Research, 33, no. 17, pp. 5691-5702, 2005.
    • R. Overbeek, T. Begley, R. M. Butler, J. V. Choudhuri, H. Chuang, M. Cohoon, V. de Crcy-Lagard, N. Diaz, T. Disz, R. Edwards, M. Fonstein, E. D. Frank, S. Gerdes, E. M. Glass, A. Goesmann, A. Hanson, D. Iwata-Reuyl, R. Jensen, N. Jamshidi, L. Krause, M. Kubal, N. Larsen, B. Linke, A. C. McHardy, F. Meyer, H. Neuweger, G. Olsen, R. Olson, A. Osterman, V. Portnoy, G. D. Pusch, D. A. Rodionov, C. Rckert, J. Steiner, R. Stevens, I. Thiele, O. Vassieva, Y. Ye, O. Zagnitko, and V. Vonstein, "The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes," Nucleic Acids Research, vol. 33, no. 17, pp. 5691-5702, 2005.
  • 16
    • 65249105934 scopus 로고    scopus 로고
    • Uncovering metabolic pathways relevant to phenotypic traits of microbial genomes
    • G. Kastenmüller, M. Schenk, J. Gasteiger, and H. Mewes, "Uncovering metabolic pathways relevant to phenotypic traits of microbial genomes," Genome Biology, vol. 10, no. 3, p. R28, 2009.
    • (2009) Genome Biology , vol.10 , Issue.3
    • Kastenmüller, G.1    Schenk, M.2    Gasteiger, J.3    Mewes, H.4
  • 17
    • 33747139057 scopus 로고    scopus 로고
    • The outcomes of pathway database computations depend on pathway ontology
    • M. L. Green and P. D. Karp, "The outcomes of pathway database computations depend on pathway ontology," Nucl. Acids Res., vol. 34, no. 13, pp. 3687-3697, 2006.
    • (2006) Nucl. Acids Res , vol.34 , Issue.13 , pp. 3687-3697
    • Green, M.L.1    Karp, P.D.2
  • 19
    • 0037313750 scopus 로고    scopus 로고
    • Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network
    • J. Forster, I. Famili, P. Fu, B. O. Palsson, and J. Nielsen, "Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network," Genome Research, vol. 13, no. 2, p. 244, 2003.
    • (2003) Genome Research , vol.13 , Issue.2 , pp. 244
    • Forster, J.1    Famili, I.2    Fu, P.3    Palsson, B.O.4    Nielsen, J.5
  • 20
    • 48449090785 scopus 로고    scopus 로고
    • S. Okuda, T. Yamada, M. Hamajima, M. Itoh, T. Katayama, P. Bork, S. Goto, and M. Kanehisa, KEGG atlas mapping for global analysis of metabolic pathways, Nucl. Acids Res., 36, no. suppl 2, pp. W423-426, 2008.
    • S. Okuda, T. Yamada, M. Hamajima, M. Itoh, T. Katayama, P. Bork, S. Goto, and M. Kanehisa, "KEGG atlas mapping for global analysis of metabolic pathways," Nucl. Acids Res., vol. 36, no. suppl 2, pp. W423-426, 2008.
  • 21
    • 84994984103 scopus 로고
    • Computer program for diagnosing and teaching geographic medicine
    • S. A. Berger and U. Blackman, "Computer program for diagnosing and teaching geographic medicine," Journal of Travel Medicine, vol. 2, no. 3, pp. 199-203, 1995.
    • (1995) Journal of Travel Medicine , vol.2 , Issue.3 , pp. 199-203
    • Berger, S.A.1    Blackman, U.2
  • 22
    • 13844266109 scopus 로고    scopus 로고
    • Genome properties: A system for the investigation of prokaryotic genetic content for microbiology, genome annotation and comparative genomics
    • D. H. Haft, J. D. Selengut, L. M. Brinkac, N. Zafar, and O. White, "Genome properties: a system for the investigation of prokaryotic genetic content for microbiology, genome annotation and comparative genomics," Bioinformatics, vol. 21, no. 3, pp. 293-306, 2005.
    • (2005) Bioinformatics , vol.21 , Issue.3 , pp. 293-306
    • Haft, D.H.1    Selengut, J.D.2    Brinkac, L.M.3    Zafar, N.4    White, O.5
  • 23
    • 74549212762 scopus 로고    scopus 로고
    • Genome project home, Online, Available
    • "Genome project home." [Online]. Available: http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj
  • 26
    • 0037250152 scopus 로고    scopus 로고
    • STRING: A database of predicted functional associations between proteins
    • C. von Mering, M. Huynen, D. Jaeggi, S. Schmidt, P. Bork, and B. Snel, "STRING: a database of predicted functional associations between proteins," Nucl. Acids Res., vol. 31, no. 1, pp. 258-261, 2003.
    • (2003) Nucl. Acids Res , vol.31 , Issue.1 , pp. 258-261
    • von Mering, C.1    Huynen, M.2    Jaeggi, D.3    Schmidt, S.4    Bork, P.5    Snel, B.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.