메뉴 건너뛰기




Volumn 1, Issue , 2007, Pages

A data integration approach for cell cycle analysis oriented to model simulation in systems biology

Author keywords

[No Author keywords available]

Indexed keywords

MAMMALIA;

EID: 34848915402     PISSN: None     EISSN: 17520509     Source Type: Journal    
DOI: 10.1186/1752-0509-1-35     Document Type: Article
Times cited : (24)

References (60)
  • 1
    • 0032919364 scopus 로고    scopus 로고
    • KEGG: Kyoto Encyclopedia of Genes and Genomes
    • 148090 9847135 10.1093/nar/27.1.29
    • Ogata H Goto S Sato K Fujibuchi W Bono H Kanehisa M KEGG: Kyoto Encyclopedia of Genes and Genomes Nucleic Acids Res 1999, 27:29-34. http://www.genome.ad.jp/kegg/pathway.html 148090 9847135 10.1093/nar/ 27.1.29
    • (1999) Nucleic Acids Res , vol.27 , pp. 29-34
    • Ogata, H.1    Goto, S.2    Sato, K.3    Fujibuchi, W.4    Bono, H.5    Kanehisa, M.6
  • 5
    • 4544344218 scopus 로고    scopus 로고
    • Web-based kinetic modelling using JWS
    • 10.1093/bioinformatics/bth200 15072998
    • Olivier BG Snoep JL Web-based kinetic modelling using JWS Bioinformatics 2004, 20(13):2143-2144. 10.1093/bioinformatics/bth200 15072998
    • (2004) Bioinformatics , vol.20 , Issue.13 , pp. 2143-2144
    • Olivier, B.G.1    Snoep, J.L.2
  • 7
    • 0025507568 scopus 로고
    • Yeast as a model system for understanding the control of DNA replication in Eukaryotes
    • 10.1002/bies.950121002 2082935
    • Bartlett R Nurse P Yeast as a model system for understanding the control of DNA replication in Eukaryotes Bioessays 1990, 12(10):457-63. 10.1002/ bies.950121002 2082935
    • (1990) Bioessays , vol.12 , Issue.10 , pp. 457-463
    • Bartlett, R.1    Nurse, P.2
  • 8
    • 13444272087 scopus 로고    scopus 로고
    • Entrez Gene: Gene-centered information at NCBI
    • 15608257 10.1093/nar/gki031
    • Maglott D Ostell J Pruitt KD Tatusova T Entrez Gene: Gene-centered information at NCBI Nucleic Acids Res 2005, 33:D54-D58. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene 539985 15608257 10.1093/nar/gki031
    • (2005) Nucleic Acids Res , vol.33
    • Maglott, D.1    Ostell, J.2    Pruitt, K.D.3    Tatusova, T.4
  • 14
    • 0032861774 scopus 로고    scopus 로고
    • SCPD: A promoter database of the yeast Saccharomyces cerevisiae
    • 10.1093/bioinformatics/15.7.607 10487868
    • Zhu J Zhang MQ SCPD: A promoter database of the yeast Saccharomyces cerevisiae Bioinformatics 1999, 15(7-8211;8 607 11 http://rulai.cshl.edu/ SCPD/ 10.1093/bioinformatics/15.7.607 10487868
    • (1999) Bioinformatics , vol.15 , pp. 607-611
    • Zhu, J.1    Zhang, M.Q.2
  • 17
    • 7444262496 scopus 로고    scopus 로고
    • The status, quality, and expansion of the NIH full-length cDNA project: The Mammalian Gene Collection (MGC)
    • MGC Project Team 528928 15489334 10.1101/gr.2596504
    • MGC Project Team The status, quality, and expansion of the NIH full-length cDNA project: The Mammalian Gene Collection (MGC) Genome Res 2004, 14:2121-2127. http://mgc.nci.nih.gov/ 528928 15489334 10.1101/ gr.2596504
    • (2004) Genome Res , vol.14 , pp. 2121-2127
  • 18
    • 33644874185 scopus 로고    scopus 로고
    • DBTSS: DataBase of Human Transcription Start Sites, progress report 2006
    • 10.1093/nar/gkj129 16381981 1347491
    • Yamashita R Suzuki Y Wakaguri H Tsuritani K Nakai K Sugano S DBTSS: DataBase of Human Transcription Start Sites, progress report 2006 Nucleic Acids Res 2006, 34:D86-89. http://dbtss.hgc.jp/ 10.1093/nar/ gkj129 16381981 1347491
    • (2006) Nucleic Acids Res , vol.34
    • Yamashita, R.1    Suzuki, Y.2    Wakaguri, H.3    Tsuritani, K.4    Nakai, K.5    Sugano, S.6
  • 20
    • 0030680966 scopus 로고    scopus 로고
    • IMAGE cDNA clones, UniGene clustering, and ACeDB: An integrated resource for expressed sequence information
    • 310673 9331373
    • Miller G Fuchs R Lai E IMAGE cDNA clones, UniGene clustering, and ACeDB: an integrated resource for expressed sequence information Genome Res 1997, 7:1027-1032. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db= unigene 310673 9331373
    • (1997) Genome Res , vol.7 , pp. 1027-1032
    • Miller, G.1    Fuchs, R.2    Lai, E.3
  • 29
    • 0037245913 scopus 로고    scopus 로고
    • BIND: The Biomolecular Interaction Network Database
    • 165503 12519993 10.1093/nar/gkg056
    • Bader GD Betel D Hogue CW BIND: The Biomolecular Interaction Network Database Nucleic Acids Res 2003, 31:248-250. http://www.bind.ca/Action 165503 12519993 10.1093/nar/gkg056
    • (2003) Nucleic Acids Res , vol.31 , pp. 248-250
    • Bader, G.D.1    Betel, D.2    Hogue, C.W.3
  • 31
    • 0038745614 scopus 로고    scopus 로고
    • Integrating biological databases
    • 10.1038/nrg1065 12728276
    • Stein LD Integrating biological databases Nat Rev Genet 2003, 4:337-345. 10.1038/nrg1065 12728276
    • (2003) Nat Rev Genet , vol.4 , pp. 337-345
    • Stein, L.D.1
  • 32
    • 0029436725 scopus 로고
    • Challenges in integrating biological data sources
    • 8634908
    • Davidson SB Overton C Buneman P Challenges in integrating biological data sources J Comput Biol 1995, 2(4):557-572. 8634908
    • (1995) J Comput Biol , vol.2 , Issue.4 , pp. 557-572
    • Davidson, S.B.1    Overton, C.2    Buneman, P.3
  • 33
    • 0037406567 scopus 로고    scopus 로고
    • Why is the snowflake schema a good data warehouse design?
    • 10.1016/S0306-4379(02)00021-2
    • Levene M Loizou G Why is the snowflake schema a good data warehouse design? Information Systems 2003, 28(3);225-240. 10.1016/ S0306-4379(02)00021-2
    • (2003) Information Systems , vol.28 , Issue.3 , pp. 225-240
    • Levene, M.1    Loizou, G.2
  • 37
    • 33744792286 scopus 로고    scopus 로고
    • Analysis of a generic model of eukaryotic cell-cycle regulation
    • 1471857 16581849 10.1529/biophysj.106.081240
    • Csikasz-Nagy A Battogtokh D Chen KC Novak B Tyson JJ Analysis of a generic model of eukaryotic cell-cycle regulation Biophys J 2006, 90:4361-79. 1471857 16581849 10.1529/biophysj.106.081240
    • (2006) Biophys J , vol.90 , pp. 4361-4379
    • Csikasz-Nagy, A.1    Battogtokh, D.2    Chen, K.C.3    Novak, B.4    Tyson, J.J.5
  • 39
    • 0038052805 scopus 로고    scopus 로고
    • The cell cycle: A review of regulation, deregulation and therapeutic targets in cancer
    • 10.1046/j.1365-2184.2003.00266.x 12814430
    • Vermeulen K Van Bockstaele DR Berneman ZN The cell cycle: A review of regulation, deregulation and therapeutic targets in cancer Cell Prolif 2003, 36:131-149. 10.1046/j.1365-2184.2003.00266.x 12814430
    • (2003) Cell Prolif , vol.36 , pp. 131-149
    • Vermeulen, K.1    Van Bockstaele, D.R.2    Berneman, Z.N.3
  • 40
    • 33947394888 scopus 로고    scopus 로고
    • Systematic analysis of human kinase genes: A large number of genes and alternative splicing events result in functional and structural diversity
    • 1866387 16351747 10.1186/1471-2105-6-S4-S20
    • Milanesi L Petrillo M Sepe L Boccia A D'Agostino N Passamano M Di Nardo S Tasco G Casadio R Paolella G Systematic analysis of human kinase genes: A large number of genes and alternative splicing events result in functional and structural diversity BMC Bioinformatics 2005, 6(Suppl 4)S20 http://www.itb.cnr.it/kinweb/ 1866387 16351747 10.1186/ 1471-2105-6-S4-S20
    • (2005) BMC Bioinformatics , vol.6 , Issue.SUPPL. 4
    • Milanesi, L.1    Petrillo, M.2    Sepe, L.3    Boccia, A.4    D'Agostino, N.5    Passamano, M.6    Di Nardo, S.7    Tasco, G.8    Casadio, R.9    Paolella, G.10
  • 41
    • 0030040323 scopus 로고    scopus 로고
    • Reduced Surface: An efficient Way to Compute Molecular Surfaces
    • 10.1002/(SICI)1097-0282(199603)38:3<305::AID-BIP4>3.0.CO;2-Y
    • Sanner MF Olson AJ Spehner JC Reduced Surface: An efficient Way to Compute Molecular Surfaces Biopolymers 1996, 38(3):305-320. 10.1002/ (SICI)1097-0282(199603)38:3<305::AID-BIP4>3.0.CO;2-Y 8906967
    • (1996) Biopolymers , vol.38 , Issue.3 , pp. 305-320
    • Sanner, M.F.1    Olson, A.J.2    Spehner, J.C.3
  • 42
    • 3343020085 scopus 로고    scopus 로고
    • Integrative analysis of cell cycle control in budding yeast
    • 491841 15169868 10.1091/mbc.E03-11-0794
    • Chen KC Calzone L Csikasz-Nagy A Cross FR Novak B Tyson JJ Integrative analysis of cell cycle control in budding yeast Mol Biol Cell 2004, 15(8):3841-62. 491841 15169868 10.1091/mbc.E03-11-0794
    • (2004) Mol Biol Cell , vol.15 , Issue.8 , pp. 3841-3862
    • Chen, K.C.1    Calzone, L.2    Csikasz-Nagy, A.3    Cross, F.R.4    Novak, B.5    Tyson, J.J.6
  • 43
    • 0033985570 scopus 로고    scopus 로고
    • Kinetic analysis of a molecular model of the budding yeast cell cycle
    • 14780 10637314
    • Chen KC Csikasz-Nagy A Gyorffy B Val J Novak B Tyson JJ Kinetic analysis of a molecular model of the budding yeast cell cycle Mol Biol Cell 2000, 11(1):369-91. 14780 10637314
    • (2000) Mol Biol Cell , vol.11 , Issue.1 , pp. 369-391
    • Chen, K.C.1    Csikasz-Nagy, A.2    Gyorffy, B.3    Val, J.4    Novak, B.5    Tyson, J.J.6
  • 44
    • 18144403239 scopus 로고    scopus 로고
    • Evaluating putative mechanisms of the mitotic spindle checkpoint
    • 1088361 15851663 10.1073/pnas.0409142102
    • Doncic A Ben-Jacob E Barkai N Evaluating putative mechanisms of the mitotic spindle checkpoint Proc Natl Acad Sci USA 2005, 102(18):6332-7. 1088361 15851663 10.1073/pnas.0409142102
    • (2005) Proc Natl Acad Sci USA , vol.102 , Issue.18 , pp. 6332-6337
    • Doncic, A.1    Ben-Jacob, E.2    Barkai, N.3
  • 45
    • 0025826876 scopus 로고
    • Modeling the cell division cycle: cdc2 and cyclin interactions
    • 52288 1831270 10.1073/pnas.88.16.7328
    • Tyson JJ Modeling the cell division cycle: Cdc2 and cyclin interactions Proc Natl Acad Sci USA 1991, 88(16)7328-32. 52288 1831270 10.1073/ pnas.88.16.7328
    • (1991) Proc Natl Acad Sci USA , vol.88 , Issue.16 , pp. 7328-7332
    • Tyson, J.J.1
  • 46
    • 0026006671 scopus 로고
    • A minimal cascade model for the mitotic oscillator involving cyclin and cdc2 kinase
    • 52661 1833774 10.1073/pnas.88.20.9107
    • Goldbeter A A minimal cascade model for the mitotic oscillator involving cyclin and cdc2 kinase Proc Natl Acad Sci USA 1991, 88(20)9107-11. 52661 1833774 10.1073/pnas.88.20.9107
    • (1991) Proc Natl Acad Sci USA , vol.88 , Issue.20 , pp. 9107-9111
    • Goldbeter, A.1
  • 47
    • 0034608810 scopus 로고    scopus 로고
    • Modeling the fission yeast cell cycle: Quantized cycle times in wee1-cdc25Delta mutant cells
    • 16636 10884416 10.1073/pnas.97.14.7865
    • Sveiczer A Csikasz-Nagy A Gyorffy B Tyson JJ Novak B Modeling the fission yeast cell cycle: Quantized cycle times in wee1-cdc25Delta mutant cells Proc Natl Acad Sci USA 2000, 97(14):7865-70. 16636 10884416 10.1073/pnas.97.14.7865
    • (2000) Proc Natl Acad Sci USA , vol.97 , Issue.14 , pp. 7865-7870
    • Sveiczer, A.1    Csikasz-Nagy, A.2    Gyorffy, B.3    Tyson, J.J.4    Novak, B.5
  • 48
    • 0346732922 scopus 로고    scopus 로고
    • Mathematical model of the morphogenesis checkpoint in budding yeast
    • 10.1083/jcb.200306139 14691135
    • Ciliberto A Novak B Tyson JJ Mathematical model of the morphogenesis checkpoint in budding yeast J Cell Biol 2003, 163(6):1243-54. 10.1083/ jcb.200306139 14691135
    • (2003) J Cell Biol , vol.163 , Issue.6 , pp. 1243-1254
    • Ciliberto, A.1    Novak, B.2    Tyson, J.J.3
  • 49
    • 0032485826 scopus 로고    scopus 로고
    • Mathematical model of the fission yeast cell cycle with checkpoint controls at the G1/S, G2/M and metaphase/anaphase transitions
    • 10.1016/S0301-4622(98)00133-1 9652094
    • Novak B Csikasz-Nagy A Gyorffy B Chen K Tyson JJ Mathematical model of the fission yeast cell cycle with checkpoint controls at the G1/S, G2/M and metaphase/anaphase transitions Biophys Chem 1998, 72(1-2):185-200. 10.1016/S0301-4622(98)00133-1 9652094
    • (1998) Biophys Chem , vol.72 , Issue.1-2 , pp. 185-200
    • Novak, B.1    Csikasz-Nagy, A.2    Gyorffy, B.3    Chen, K.4    Tyson, J.J.5
  • 50
    • 0033453231 scopus 로고    scopus 로고
    • The kinetic origins of the restriction point in the mammalian cell cycle
    • 10.1046/j.1365-2184.1999.3250321.x 10619492
    • Aguda BD Tang Y The kinetic origins of the restriction point in the mammalian cell cycle Cell Prolif 1999, 32(5):321-35. 10.1046/ j.1365-2184.1999.3250321.x 10619492
    • (1999) Cell Prolif , vol.32 , Issue.5 , pp. 321-335
    • Aguda, B.D.1    Tang, Y.2
  • 51
    • 4444349425 scopus 로고    scopus 로고
    • A model for restriction point control of the mammalian cell cycle
    • 10.1016/j.jtbi.2004.04.039 15363676
    • Novak B Tyson JJ A model for restriction point control of the mammalian cell cycle J Theor Biol 2004, 230:563-79. 10.1016/j.jtbi.2004.04.039 15363676
    • (2004) J Theor Biol , vol.230 , pp. 563-579
    • Novak, B.1    Tyson, J.J.2
  • 52
    • 3543138827 scopus 로고    scopus 로고
    • Bifurcation analysis of the regulatory modules of the mammalian G1/S transition
    • 10.1093/bioinformatics/bth110 15231543
    • Swat M Kel A Herzel H Bifurcation analysis of the regulatory modules of the mammalian G1/S transition Bioinformatics 2004, 20(10):1506-11. 10.1093/bioinformatics/bth110 15231543
    • (2004) Bioinformatics , vol.20 , Issue.10 , pp. 1506-1511
    • Swat, M.1    Kel, A.2    Herzel, H.3
  • 53
    • 0037302108 scopus 로고    scopus 로고
    • Regulation of the mammalian cell cycle: A model of the G1-to-S transition
    • 12388094
    • Qu Z Weiss JN MacLellan WR Regulation of the mammalian cell cycle: A model of the G1-to-S transition Am J Physiol Cell Physiol 2003, 284:C349-64. 12388094
    • (2003) Am J Physiol Cell Physiol , vol.284
    • Qu, Z.1    Weiss, J.N.2    MacLellan, W.R.3
  • 54
    • 4944259644 scopus 로고    scopus 로고
    • Coordination of cell growth and cell division: A mathematical modeling study
    • 10.1242/jcs.01294 15280433
    • Qu Z Weiss JN MacLellan WR Coordination of cell growth and cell division: A mathematical modeling study J Cell Sci 2004, 117:4199-207. 10.1242/jcs.01294 15280433
    • (2004) J Cell Sci , vol.117 , pp. 4199-4207
    • Qu, Z.1    Weiss, J.N.2    MacLellan, W.R.3
  • 55
    • 0344982141 scopus 로고    scopus 로고
    • Dynamics of the cell cycle: Checkpoints, sizers, and timers
    • 1303665 14645053
    • Qu Z MacLellan WR Weiss JN Dynamics of the cell cycle: Checkpoints, sizers, and timers Biophys J 2003, 85(6):3600-11. 1303665 14645053
    • (2003) Biophys J , vol.85 , Issue.6 , pp. 3600-3611
    • Qu, Z.1    MacLellan, W.R.2    Weiss, J.N.3
  • 56
    • 33745809191 scopus 로고    scopus 로고
    • A simple time delay model for eukaryotic cell cycle
    • 10.1016/j.jtbi.2005.12.020 16473373
    • Srividhya J Gopinathan MS A simple time delay model for eukaryotic cell cycle J Theor Biol 2006, 241(3):617-27. 10.1016/j.jtbi.2005.12.020 16473373
    • (2006) J Theor Biol , vol.241 , Issue.3 , pp. 617-627
    • Srividhya, J.1    Gopinathan, M.S.2
  • 57
    • 0033590255 scopus 로고    scopus 로고
    • A mathematical description of regulation of the G1-S transition of the mammalian cell cycle
    • 10.1002/(SICI)1097-0290(19991220)65:6<631::AID-BIT3>3.0.CO;2-7 10550769
    • Hatzimanikatis V Lee KH Bailey JE A mathematical description of regulation of the G1-S transition of the mammalian cell cycle Biotechnol Bioeng 1999, 65(6):631-7. 10.1002/ (SICI)1097-0290(19991220)65:6<631::AID-BIT3>3.0.CO;2-7 10550769
    • (1999) Biotechnol Bioeng , vol.65 , Issue.6 , pp. 631-637
    • Hatzimanikatis, V.1    Lee, K.H.2    Bailey, J.E.3
  • 58
    • 0032568043 scopus 로고    scopus 로고
    • Functional capabilities of molecular network components controlling the mammalian G1/S cell cycle phase transition
    • 10.1038/sj.onc.1201608 9519880
    • Kohn KW Functional capabilities of molecular network components controlling the mammalian G1/S cell cycle phase transition Oncogene 1998, 16(8):1065-75. 10.1038/sj.onc.1201608 9519880
    • (1998) Oncogene , vol.16 , Issue.8 , pp. 1065-1075
    • Kohn, K.W.1
  • 59
    • 33744798493 scopus 로고    scopus 로고
    • Linking cell division to cell growth in a spatiotemporal model of the cell cycle
    • 10.1016/j.jtbi.2005.11.020 16387327
    • Yang L Han Z Robb MacLellan W Weiss JN Qu Z Linking cell division to cell growth in a spatiotemporal model of the cell cycle J Theor Biol 2006, 241(1):120-33. 10.1016/j.jtbi.2005.11.020 16387327
    • (2006) J Theor Biol , vol.241 , Issue.1 , pp. 120-133
    • Yang, L.1    Han, Z.2    Robb MacLellan, W.3    Weiss, J.N.4    Qu, Z.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.