메뉴 건너뛰기




Volumn 3, Issue 8-9, 2004, Pages 1123-1132

Network responses to DNA damaging agents

Author keywords

DNA damage; DNA repair; Networks; Protein DNA interactions; Protein protein interactions; Systems biology

Indexed keywords

CELL VIABILITY; DNA DAMAGE; DNA REPAIR; EUKARYOTIC CELL; EXCISION REPAIR; GENE FUNCTION; GENE INTERACTION; GENETIC TRANSCRIPTION; HUMAN; NONHUMAN; PHENOTYPE; PRIORITY JOURNAL; PROTEIN DNA INTERACTION; PROTEIN PROTEIN INTERACTION; REGULATORY MECHANISM; REVIEW;

EID: 3242880928     PISSN: 15687864     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.dnarep.2004.03.013     Document Type: Review
Times cited : (42)

References (63)
  • 2
    • 0039577881 scopus 로고
    • DNA-damaging agents stimulate gene expression at specific loci in Escherichia coli
    • Kenyon C.J., Walker G.C. DNA-damaging agents stimulate gene expression at specific loci in Escherichia coli. Proc. Natl. Acad. Sci. USA. 77:1980;2819-2823
    • (1980) Proc. Natl. Acad. Sci. USA , vol.77 , pp. 2819-2823
    • Kenyon, C.J.1    Walker, G.C.2
  • 4
    • 0020536519 scopus 로고
    • Proteins required for ultraviolet light and chemical mutagenesis. Identification of the products of the umuC locus of Escherichia coli
    • Elledge S.J., Walker G.C. Proteins required for ultraviolet light and chemical mutagenesis. Identification of the products of the umuC locus of Escherichia coli. J. Mol. Biol. 164:1983;175-192
    • (1983) J. Mol. Biol. , vol.164 , pp. 175-192
    • Elledge, S.J.1    Walker, G.C.2
  • 5
    • 0035902615 scopus 로고    scopus 로고
    • Managing DNA polymerases: Coordinating DNA replication, DNA repair, and DNA recombination
    • Sutton M.D., Walker G.C. Managing DNA polymerases: coordinating DNA replication, DNA repair, and DNA recombination. Proc. Natl. Acad. Sci. USA. 98:2001;8342-8349
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 8342-8349
    • Sutton, M.D.1    Walker, G.C.2
  • 6
    • 0017395439 scopus 로고
    • A new pathway for DNA repair in Escherichia coli
    • Samson L., Cairns J. A new pathway for DNA repair in Escherichia coli. Nature. 267:1977;281-283
    • (1977) Nature , vol.267 , pp. 281-283
    • Samson, L.1    Cairns, J.2
  • 7
    • 0020056580 scopus 로고
    • Adaptation to alkylation resistance involves the induction of a DNA glycosylase
    • Evensen G., Seeberg E. Adaptation to alkylation resistance involves the induction of a DNA glycosylase. Nature. 296:1982;773-775
    • (1982) Nature , vol.296 , pp. 773-775
    • Evensen, G.1    Seeberg, E.2
  • 8
    • 0017655895 scopus 로고
    • An adaptive response of E. coli to low levels of alkylating agent: Comparison with previously characterised DNA repair pathways
    • Jeggo P., Defais T., Samson L., Schendel P. An adaptive response of E. coli to low levels of alkylating agent: comparison with previously characterised DNA repair pathways. Mol. Gen. Genet. 157:1977;1-9
    • (1977) Mol. Gen. Genet. , vol.157 , pp. 1-9
    • Jeggo, P.1    Defais, T.2    Samson, L.3    Schendel, P.4
  • 9
    • 0022470742 scopus 로고
    • The intracellular signal for induction of resistance to alkylating agents in E. coli
    • Teo I., Sedgwick B., Kilpatrick M.W., McCarthy T.V., Lindahl T. The intracellular signal for induction of resistance to alkylating agents in E. coli. Cell. 45:1986;315-324
    • (1986) Cell , vol.45 , pp. 315-324
    • Teo, I.1    Sedgwick, B.2    Kilpatrick, M.W.3    McCarthy, T.V.4    Lindahl, T.5
  • 10
    • 0022597008 scopus 로고
    • Escherichia coli gene induction by alkylation treatment
    • Volkert M.R., Nguyen D.C., Beard K.C. Escherichia coli gene induction by alkylation treatment. Genetics. 112:1986;11-26
    • (1986) Genetics , vol.112 , pp. 11-26
    • Volkert, M.R.1    Nguyen, D.C.2    Beard, K.C.3
  • 11
    • 0344780826 scopus 로고    scopus 로고
    • Role for the oxyS gene in regulation of intracellular hydrogen peroxide in Escherichia coli
    • Gonzalez-Flecha B., Demple B. Role for the oxyS gene in regulation of intracellular hydrogen peroxide in Escherichia coli. J. Bacteriol. 181:1999;3833-3836
    • (1999) J. Bacteriol. , vol.181 , pp. 3833-3836
    • Gonzalez-Flecha, B.1    Demple, B.2
  • 12
    • 0031025115 scopus 로고    scopus 로고
    • Homeostatic regulation of intracellular hydrogen peroxide concentration in aerobically growing Escherichia coli
    • Gonzalez-Flecha B., Demple B. Homeostatic regulation of intracellular hydrogen peroxide concentration in aerobically growing Escherichia coli. J. Bacteriol. 179:1997;382-388
    • (1997) J. Bacteriol. , vol.179 , pp. 382-388
    • Gonzalez-Flecha, B.1    Demple, B.2
  • 13
    • 0034152767 scopus 로고    scopus 로고
    • Oxidative stress in bacteria and protein damage by reactive oxygen species
    • Cabiscol E., Tamarit J., Ros J. Oxidative stress in bacteria and protein damage by reactive oxygen species. Int. Microbiol. 3:2000;3-8
    • (2000) Int. Microbiol. , vol.3 , pp. 3-8
    • Cabiscol, E.1    Tamarit, J.2    Ros, J.3
  • 14
    • 0028063267 scopus 로고
    • Structure and transcriptional regulation of the Escherichia coli adaptive response gene aidB
    • Landini P., Hajec L.I., Volkert M.R. Structure and transcriptional regulation of the Escherichia coli adaptive response gene aidB. J. Bacteriol. 176:1994;6583-6589
    • (1994) J. Bacteriol. , vol.176 , pp. 6583-6589
    • Landini, P.1    Hajec, L.I.2    Volkert, M.R.3
  • 15
    • 0035283587 scopus 로고    scopus 로고
    • Redox-operated genetic switches: The SoxR and OxyR transcription factors
    • Pomposiello P.J., Demple B. Redox-operated genetic switches: the SoxR and OxyR transcription factors. Trends Biotechnol. 19:2001;109-114
    • (2001) Trends Biotechnol. , vol.19 , pp. 109-114
    • Pomposiello, P.J.1    Demple, B.2
  • 16
    • 0029808466 scopus 로고    scopus 로고
    • Cell cycle checkpoints: Preventing an identity crisis
    • Elledge S.J. Cell cycle checkpoints: preventing an identity crisis. Science. 274:1996;1664-1672
    • (1996) Science , vol.274 , pp. 1664-1672
    • Elledge, S.J.1
  • 17
    • 0035162698 scopus 로고    scopus 로고
    • Genomic expression responses to DNA-damaging agents and the regulatory role of the yeast ATR homolog Mec1p
    • Gasch A.P., Huang M., Metzner S., Botstein D., Elledge S.J., Brown P.O. Genomic expression responses to DNA-damaging agents and the regulatory role of the yeast ATR homolog Mec1p. Mol. Biol. Cell. 12:2001;2987-3003
    • (2001) Mol. Biol. Cell , vol.12 , pp. 2987-3003
    • Gasch, A.P.1    Huang, M.2    Metzner, S.3    Botstein, D.4    Elledge, S.J.5    Brown, P.O.6
  • 19
    • 0036923370 scopus 로고    scopus 로고
    • Recovery pathways in S. cerevisiae revealed by genomic phenotyping and interactome mapping
    • Begley T.J., Rosenbach A.S., Ideker T., Samson L.D. Recovery pathways in S. cerevisiae revealed by genomic phenotyping and interactome mapping. Mol. Canc. Res. 1:2002;103-112
    • (2002) Mol. Canc. Res. , vol.1 , pp. 103-112
    • Begley, T.J.1    Rosenbach, A.S.2    Ideker, T.3    Samson, L.D.4
  • 20
    • 0033772765 scopus 로고    scopus 로고
    • Regulatory networks revealed by transcriptional profiling of damaged saccharomyces cerevisiae cells: Rpn4 links base excision repair with proteasomes (in process citation)
    • Jelinsky S.A., Estep P., Church G.M., Samson L.D. Regulatory networks revealed by transcriptional profiling of damaged saccharomyces cerevisiae cells: rpn4 links base excision repair with proteasomes (in process citation). Mol. Cell. Biol. 20:2000;8157-8167
    • (2000) Mol. Cell. Biol. , vol.20 , pp. 8157-8167
    • Jelinsky, S.A.1    Estep, P.2    Church, G.M.3    Samson, L.D.4
  • 21
    • 0033573938 scopus 로고    scopus 로고
    • Global response of Saccharomyces cerevisiae to an alkylating agent
    • Jelinsky S.A., Samson L.D. Global response of Saccharomyces cerevisiae to an alkylating agent. Proc. Natl. Acad. Sci. USA. 96:1999;1486-1491
    • (1999) Proc. Natl. Acad. Sci. USA , vol.96 , pp. 1486-1491
    • Jelinsky, S.A.1    Samson, L.D.2
  • 22
    • 0022382450 scopus 로고
    • Nuclear proteins damage by alkylating agents with different degrees of carcinogenicity
    • Boffa L.C., Bolognesi C. Nuclear proteins damage by alkylating agents with different degrees of carcinogenicity. Chem. Biol. Interact. 55:1985;235-245
    • (1985) Chem. Biol. Interact. , vol.55 , pp. 235-245
    • Boffa, L.C.1    Bolognesi, C.2
  • 23
    • 3242891408 scopus 로고    scopus 로고
    • Cherry, J.M. (SGD).
    • Cherry, J.M. (SGD).
  • 24
    • 0036728274 scopus 로고    scopus 로고
    • The genomics of yeast responses to environmental stress and starvation
    • Gasch A.P., Werner-Washburne M. The genomics of yeast responses to environmental stress and starvation. Funct. Integr. Genomics. 2:2002;181-192
    • (2002) Funct. Integr. Genomics , vol.2 , pp. 181-192
    • Gasch, A.P.1    Werner-Washburne, M.2
  • 25
    • 0024044742 scopus 로고
    • 4- alkylthymine in Escherichia coli: The adaptive response and nucleotide excision repair
    • 4- alkylthymine in Escherichia coli: the adaptive response and nucleotide excision repair. EMBO J. 7:1988;2261-2267
    • (1988) EMBO J. , vol.7 , pp. 2261-2267
    • Samson, L.1    Thomale, J.2    Rajewsky, M.F.3
  • 27
    • 0023878893 scopus 로고
    • Complementation of the xeroderma pigmentosum DNA repair defect in cell-free extracts
    • Wood R.D., Robins P., Lindahl T. Complementation of the xeroderma pigmentosum DNA repair defect in cell-free extracts. Cell. 53:1988;97-106
    • (1988) Cell , vol.53 , pp. 97-106
    • Wood, R.D.1    Robins, P.2    Lindahl, T.3
  • 28
    • 0028675314 scopus 로고
    • Reconstitution of the DNA base excision-repair pathway
    • Dianov G., Lindahl T. Reconstitution of the DNA base excision-repair pathway. Curr. Biol. 4:1994;1069-1076
    • (1994) Curr. Biol. , vol.4 , pp. 1069-1076
    • Dianov, G.1    Lindahl, T.2
  • 29
    • 0031239958 scopus 로고    scopus 로고
    • DNA repair: Caretakers of the genome?
    • Cunningham R.P. DNA repair: caretakers of the genome? Curr. Biol. 7:1997;R576-R579
    • (1997) Curr. Biol. , vol.7 , pp. 576-R579
    • Cunningham, R.P.1
  • 30
    • 0035162698 scopus 로고    scopus 로고
    • Genomic expression responses to DNA-damaging agents and the regulatory role of the yeast ATR homolog Mec1p
    • Gasch A.P., Huang M., Metzner S., Botstein D., Elledge S.J., Brown P.O. Genomic expression responses to DNA-damaging agents and the regulatory role of the yeast ATR homolog Mec1p. Mol. Biol. Cell. 12:2001;2987-3003
    • (2001) Mol. Biol. Cell. , vol.12 , pp. 2987-3003
    • Gasch, A.P.1    Huang, M.2    Metzner, S.3    Botstein, D.4    Elledge, S.J.5    Brown, P.O.6
  • 32
    • 0034973590 scopus 로고    scopus 로고
    • Transcriptional profiling shows that Gcn4p is a master regulator of gene expression during amino acid starvation in yeast
    • Natarajan K., Meyer M.R., Jackson B.M., Slade D., Roberts C., Hinnebusch A.G., Marton M.J. Transcriptional profiling shows that Gcn4p is a master regulator of gene expression during amino acid starvation in yeast. Mol. Cell. Biol. 21:2001;4347-4368
    • (2001) Mol. Cell. Biol. , vol.21 , pp. 4347-4368
    • Natarajan, K.1    Meyer, M.R.2    Jackson, B.M.3    Slade, D.4    Roberts, C.5    Hinnebusch, A.G.6    Marton, M.J.7
  • 33
    • 0037172948 scopus 로고    scopus 로고
    • Transcriptional response of Saccharomyces cerevisiae to DNA-damaging agents does not identify the genes that protect against these agents
    • Birrell G.W., Brown J.A., Wu H.I., Giaever G., Chu A.M., Davis R.W., Brown J.M. Transcriptional response of Saccharomyces cerevisiae to DNA-damaging agents does not identify the genes that protect against these agents. Proc. Natl. Acad. Sci. USA. 99:2002;8778-8783
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 8778-8783
    • Birrell, G.W.1    Brown, J.A.2    Wu, H.I.3    Giaever, G.4    Chu, A.M.5    Davis, R.W.6    Brown, J.M.7
  • 36
    • 0037168646 scopus 로고    scopus 로고
    • A genome-wide screen for methyl methanesulfonate-sensitive mutants reveals genes required for S phase progression in the presence of DNA damage
    • Chang M., Bellaoui M., Boone C., Brown G.W. A genome-wide screen for methyl methanesulfonate-sensitive mutants reveals genes required for S phase progression in the presence of DNA damage. Proc. Natl. Acad. Sci. USA. 99:2002;16934-16939
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 16934-16939
    • Chang, M.1    Bellaoui, M.2    Boone, C.3    Brown, G.W.4
  • 37
    • 0037756723 scopus 로고    scopus 로고
    • Functional genomics and proteomics: Charting a multidimensional map of the yeast cell
    • Bader G.D., Heilbut A., Andrews B., Tyers M., Hughes T., Boone C. Functional genomics and proteomics: charting a multidimensional map of the yeast cell. Trends Cell. Biol. 13:2003;344-356
    • (2003) Trends Cell. Biol. , vol.13 , pp. 344-356
    • Bader, G.D.1    Heilbut, A.2    Andrews, B.3    Tyers, M.4    Hughes, T.5    Boone, C.6
  • 38
    • 0141561891 scopus 로고    scopus 로고
    • Integrating 'omic' information: A bridge between genomics and systems biology
    • Ge H., Walhout A.J., Vidal M. Integrating 'omic' information: a bridge between genomics and systems biology. Trends Genet. 19:2003;551-560
    • (2003) Trends Genet. , vol.19 , pp. 551-560
    • Ge, H.1    Walhout, A.J.2    Vidal, M.3
  • 39
    • 0034437348 scopus 로고    scopus 로고
    • Complex transcriptional responses to macromolecular damaging agents: Regulatory responses specific for SN2 alkylation and the MAG1 gene
    • Begley T.J., Jelinsky S.A., Samson L.D. Complex transcriptional responses to macromolecular damaging agents: regulatory responses specific for SN2 alkylation and the MAG1 gene. Cold Spring Harb. Symp. Quant. Biol. 65:2000;383-393
    • (2000) Cold Spring Harb. Symp. Quant. Biol. , vol.65 , pp. 383-393
    • Begley, T.J.1    Jelinsky, S.A.2    Samson, L.D.3
  • 40
    • 0141993704 scopus 로고    scopus 로고
    • A gene-coexpression network for global discovery of conserved genetic modules
    • Stuart J.M., Segal E., Koller D., Kim S.K. A gene-coexpression network for global discovery of conserved genetic modules. Science. 302:2003;249-255
    • (2003) Science , vol.302 , pp. 249-255
    • Stuart, J.M.1    Segal, E.2    Koller, D.3    Kim, S.K.4
  • 43
    • 0038444122 scopus 로고    scopus 로고
    • Genome-wide in silico identification of transcriptional regulators controlling the cell cycle in human cells
    • Elkon R., Linhart C., Sharan R., Shamir R., Shiloh Y. Genome-wide in silico identification of transcriptional regulators controlling the cell cycle in human cells. Genome Res. 13:2003;773-780
    • (2003) Genome Res. , vol.13 , pp. 773-780
    • Elkon, R.1    Linhart, C.2    Sharan, R.3    Shamir, R.4    Shiloh, Y.5
  • 47
    • 0033004441 scopus 로고    scopus 로고
    • Rpn4p acts as a transcription factor by binding to PACE, a nomamer box found upstream of 26S proteasomal and other genes in yeast
    • Mannhaupt G., Schnall R., Karpov V., Vetter I., Feldmann H. Rpn4p acts as a transcription factor by binding to PACE, a nomamer box found upstream of 26S proteasomal and other genes in yeast. FEBS Lett. 450:1999;27-34
    • (1999) FEBS Lett. , vol.450 , pp. 27-34
    • Mannhaupt, G.1    Schnall, R.2    Karpov, V.3    Vetter, I.4    Feldmann, H.5
  • 48
    • 0032548779 scopus 로고    scopus 로고
    • Son1p is a component of the 26S proteasome of the yeast Saccharomyces cerevisiae
    • Fujimuro M., Tanaka K., Yokosawa H., Toh-e A. Son1p is a component of the 26S proteasome of the yeast Saccharomyces cerevisiae. FEBS Lett. 423:1998;149-154
    • (1998) FEBS Lett. , vol.423 , pp. 149-154
    • Fujimuro, M.1    Tanaka, K.2    Yokosawa, H.3    Toh-E, A.4
  • 49
    • 0031787969 scopus 로고    scopus 로고
    • Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation (see comments)
    • Roth F.P., Hughes J.D., Estep P.W., Church G.M. Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation (see comments). Nat. Biotechnol. 16:1998;939-945
    • (1998) Nat. Biotechnol. , vol.16 , pp. 939-945
    • Roth, F.P.1    Hughes, J.D.2    Estep, P.W.3    Church, G.M.4
  • 50
    • 0000801240 scopus 로고    scopus 로고
    • Discovering regulatory and signalling circuits in molecular interaction networks
    • Ideker T., Ozier O., Schwikowski B., Siegel A.F. Discovering regulatory and signalling circuits in molecular interaction networks. Bioinformatics. 18(1):2002;S233-S240
    • (2002) Bioinformatics , vol.18 , Issue.1 , pp. 233-S240
    • Ideker, T.1    Ozier, O.2    Schwikowski, B.3    Siegel, A.F.4
  • 57
    • 0036088133 scopus 로고    scopus 로고
    • DIP, the Database of Interacting Proteins: A research tool for studying cellular networks of protein interactions
    • Xenarios I., Salwinski L., Duan X.J., Higney P., Kim S.M., Eisenberg D. DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions. Nucleic Acids Res. 30:2002;303-305
    • (2002) Nucleic Acids Res. , vol.30 , pp. 303-305
    • Xenarios, I.1    Salwinski, L.2    Duan, X.J.3    Higney, P.4    Kim, S.M.5    Eisenberg, D.6
  • 59
    • 0032482432 scopus 로고    scopus 로고
    • Collective dynamics of 'small-world' networks
    • Watts D.J., Strogatz S.H. Collective dynamics of 'small-world' networks. Nature. 393:1998;440-442
    • (1998) Nature , vol.393 , pp. 440-442
    • Watts, D.J.1    Strogatz, S.H.2
  • 62
    • 0034721164 scopus 로고    scopus 로고
    • Error and attack tolerance of complex networks
    • Albert R., Jeong H., Barabasi A.L. Error and attack tolerance of complex networks. Nature. 406:2000;378-382
    • (2000) Nature , vol.406 , pp. 378-382
    • Albert, R.1    Jeong, H.2    Barabasi, A.L.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.