메뉴 건너뛰기




Volumn 13, Issue 1, 2012, Pages

Comparison of low and high dose ionising radiation using topological analysis of gene coexpression networks

Author keywords

[No Author keywords available]

Indexed keywords

ABCA1 GENE; ARTICLE; BCRA1 GENE; GENE COEXPRESSION NETWORK; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENE IDENTIFICATION; IONIZING RADIATION; MLLT11 GENE; RADIATION EXPOSURE; SKIN CELL; SYSTEMS BIOLOGY; TNFRSF1B GENE; TRANSCRIPTOMICS;

EID: 84861085252     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-13-190     Document Type: Article
Times cited : (22)

References (44)
  • 2
    • 34548462136 scopus 로고    scopus 로고
    • Pomegranate derived products for cancer chemoprevention
    • 10.1016/j.semcancer.2007.05.004, 17613245
    • Syed DN, Afaq F, Mukhtar H. Pomegranate derived products for cancer chemoprevention. Semin Cancer Biol 2007, 17:377-385. 10.1016/j.semcancer.2007.05.004, 17613245.
    • (2007) Semin Cancer Biol , vol.17 , pp. 377-385
    • Syed, D.N.1    Afaq, F.2    Mukhtar, H.3
  • 3
    • 84866318616 scopus 로고    scopus 로고
    • Healing of dermal wounds in the EpiDerm-FT in vitro human skin model: an animal alternative for wound healing issues
    • Hayden PJ, Stolper G, Cooney C, Klausner M. Healing of dermal wounds in the EpiDerm-FT in vitro human skin model: an animal alternative for wound healing issues. The Toxicologist 2008, 102:69.
    • (2008) The Toxicologist , vol.102 , pp. 69
    • Hayden, P.J.1    Stolper, G.2    Cooney, C.3    Klausner, M.4
  • 4
    • 57349155737 scopus 로고    scopus 로고
    • NFAT regulates induction of COX-2 and apoptosis of keratinocytes in response to ultraviolet radiation exposure
    • 10.1096/fj.08-113076, 2671982, 18708588
    • Flockhart RJ, Diffey BL, Farr PM, Lloyd J, Reynolds NJ. NFAT regulates induction of COX-2 and apoptosis of keratinocytes in response to ultraviolet radiation exposure. FASEB J 2008, 22(12):4218-4227. 10.1096/fj.08-113076, 2671982, 18708588.
    • (2008) FASEB J , vol.22 , Issue.12 , pp. 4218-4227
    • Flockhart, R.J.1    Diffey, B.L.2    Farr, P.M.3    Lloyd, J.4    Reynolds, N.J.5
  • 5
    • 77954845113 scopus 로고    scopus 로고
    • Analysis of ionizing radiation-induced DNA damage and repair in three-dimensional human skin model system
    • Su Y, Meador JS, Geard CR, Balajee AS. Analysis of ionizing radiation-induced DNA damage and repair in three-dimensional human skin model system. Experimental dermatology 2009, 19:E16-E22.
    • (2009) Experimental dermatology , vol.19
    • Su, Y.1    Meador, J.S.2    Geard, C.R.3    Balajee, A.S.4
  • 6
    • 60349123278 scopus 로고    scopus 로고
    • Oxidative stress and inflammatory response in dermal toxicity of single-walled carbon nanotubes
    • 10.1016/j.tox.2008.12.023, 19150385
    • Murray AR, Kisin E, Leonard SS, Young SH, Kommineni C, Kagan VE, Castranova V, Shvedova AA. Oxidative stress and inflammatory response in dermal toxicity of single-walled carbon nanotubes. Toxicology 2009, 257(3):161-171. 10.1016/j.tox.2008.12.023, 19150385.
    • (2009) Toxicology , vol.257 , Issue.3 , pp. 161-171
    • Murray, A.R.1    Kisin, E.2    Leonard, S.S.3    Young, S.H.4    Kommineni, C.5    Kagan, V.E.6    Castranova, V.7    Shvedova, A.A.8
  • 7
    • 77957296042 scopus 로고    scopus 로고
    • Analysis of Alzheimer's disease severity across brain regions by topological analysis of gene co-expression networks
    • 10.1186/1752-0509-4-136, 2976747, 20925940
    • Ray M, Zhang W. Analysis of Alzheimer's disease severity across brain regions by topological analysis of gene co-expression networks. BMC Syst Biol 2010, 4:136. 10.1186/1752-0509-4-136, 2976747, 20925940.
    • (2010) BMC Syst Biol , vol.4 , pp. 136
    • Ray, M.1    Zhang, W.2
  • 9
    • 0037199968 scopus 로고    scopus 로고
    • Hierarchical organization of modularity in metabolic networks
    • 10.1126/science.1073374, 12202830
    • Ravasz E, Somera AL, Mongru DA, Oltvai ZN, Barabasi AL. Hierarchical organization of modularity in metabolic networks. Science 2002, 297(5586):1551-1555. 10.1126/science.1073374, 12202830.
    • (2002) Science , vol.297 , Issue.5586 , pp. 1551-1555
    • Ravasz, E.1    Somera, A.L.2    Mongru, D.A.3    Oltvai, Z.N.4    Barabasi, A.L.5
  • 11
    • 33845231723 scopus 로고    scopus 로고
    • Conservation and evolution of gene coexpression networks in human and chimpanzee brains
    • 10.1073/pnas.0605938103, 1693857, 17101986
    • Oldham MC, Horvath S, Geschwind DH. Conservation and evolution of gene coexpression networks in human and chimpanzee brains. Proc Natl Acad Sci U S A 2006, 103(47):17973-17978. 10.1073/pnas.0605938103, 1693857, 17101986.
    • (2006) Proc Natl Acad Sci U S A , vol.103 , Issue.47 , pp. 17973-17978
    • Oldham, M.C.1    Horvath, S.2    Geschwind, D.H.3
  • 12
    • 0141993704 scopus 로고    scopus 로고
    • A gene-coexpression network for global discovery of conserved genetic modules
    • 10.1126/science.1087447, 12934013
    • Stuart JM, Segal E, Koller D, Kim SK. A gene-coexpression network for global discovery of conserved genetic modules. Science 2003, 302(5643):249-255. 10.1126/science.1087447, 12934013.
    • (2003) Science , vol.302 , Issue.5643 , pp. 249-255
    • Stuart, J.M.1    Segal, E.2    Koller, D.3    Kim, S.K.4
  • 13
    • 33645221650 scopus 로고    scopus 로고
    • Gene connectivity, function, and sequence conservation: predictions from modular yeast co-expression networks
    • 10.1186/1471-2164-7-40, 1413526, 16515682
    • Carlson MR, Zhang B, Fang Z, Mischel PS, Horvath S, Nelson SF. Gene connectivity, function, and sequence conservation: predictions from modular yeast co-expression networks. BMC Genomics 2006, 7:40. 10.1186/1471-2164-7-40, 1413526, 16515682.
    • (2006) BMC Genomics , vol.7 , pp. 40
    • Carlson, M.R.1    Zhang, B.2    Fang, Z.3    Mischel, P.S.4    Horvath, S.5    Nelson, S.F.6
  • 14
    • 4644326931 scopus 로고    scopus 로고
    • Genomic analysis of regulatory network dynamics reveals large topological changes
    • 10.1038/nature02782, 15372033
    • Luscombe NM, Babu MM, Yu H, Snyder M, Teichmann SA, Gerstein M. Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 2004, 431:308-312. 10.1038/nature02782, 15372033.
    • (2004) Nature , vol.431 , pp. 308-312
    • Luscombe, N.M.1    Babu, M.M.2    Yu, H.3    Snyder, M.4    Teichmann, S.A.5    Gerstein, M.6
  • 16
    • 46249088370 scopus 로고    scopus 로고
    • Lumi: a pipeline for processing Illumina microarray
    • 10.1093/bioinformatics/btn224, 18467348
    • Du P, Kibbe WA, Lin SM. Lumi: a pipeline for processing Illumina microarray. Bioinformatics 2008, 24(13):1547-1548. 10.1093/bioinformatics/btn224, 18467348.
    • (2008) Bioinformatics , vol.24 , Issue.13 , pp. 1547-1548
    • Du, P.1    Kibbe, W.A.2    Lin, S.M.3
  • 17
    • 59549093642 scopus 로고    scopus 로고
    • ArrayQualityMetrics-a bioconductor package for quality assessment of microarray data
    • 10.1093/bioinformatics/btn647, 2639074, 19106121
    • Kauffmann A, Gentleman R, Huber W. ArrayQualityMetrics-a bioconductor package for quality assessment of microarray data. Bioinformatics 2009, 25(3):415-416. 10.1093/bioinformatics/btn647, 2639074, 19106121.
    • (2009) Bioinformatics , vol.25 , Issue.3 , pp. 415-416
    • Kauffmann, A.1    Gentleman, R.2    Huber, W.3
  • 18
    • 11244346557 scopus 로고    scopus 로고
    • Variance stabilization applied to microarray data calibration and to the quantification of differential expression
    • 10.1093/bioinformatics/18.suppl_1.S96, 12169536
    • Huber W, von Heydebreck A, Sultmann H, Poustka A, Vingron M. Variance stabilization applied to microarray data calibration and to the quantification of differential expression. Bioinformatics 2002, 18(1):S96-S104. 10.1093/bioinformatics/18.suppl_1.S96, 12169536.
    • (2002) Bioinformatics , vol.18 , Issue.1
    • Huber, W.1    von Heydebreck, A.2    Sultmann, H.3    Poustka, A.4    Vingron, M.5
  • 19
    • 0012572299 scopus 로고    scopus 로고
    • A variance-stabilizing transformation for gene-expression microarray data
    • Durbin B, Hardin J, Hawkins D, Rocke D. A variance-stabilizing transformation for gene-expression microarray data. Bioinformatics 2002, 18(1):105-110.
    • (2002) Bioinformatics , vol.18 , Issue.1 , pp. 105-110
    • Durbin, B.1    Hardin, J.2    Hawkins, D.3    Rocke, D.4
  • 20
    • 33645143721 scopus 로고    scopus 로고
    • Effects of filtering by present call on analysis of microarray experiments
    • 10.1186/1471-2105-7-49, 1409797, 16448562
    • McClintick JN, Edenberg HJ. Effects of filtering by present call on analysis of microarray experiments. BMC Bioinformatics 2006, 7:49. 10.1186/1471-2105-7-49, 1409797, 16448562.
    • (2006) BMC Bioinformatics , vol.7 , pp. 49
    • McClintick, J.N.1    Edenberg, H.J.2
  • 21
    • 63449142392 scopus 로고    scopus 로고
    • Filtering for increased power for microarray data analysis
    • 10.1186/1471-2105-10-11, 2661050, 19133141
    • Hackstadt AJ, Hess AM. Filtering for increased power for microarray data analysis. BMC Bioinformatics 2009, 10:11. 10.1186/1471-2105-10-11, 2661050, 19133141.
    • (2009) BMC Bioinformatics , vol.10 , pp. 11
    • Hackstadt, A.J.1    Hess, A.M.2
  • 23
    • 49449086368 scopus 로고    scopus 로고
    • Survival of the sparsest: robust gene networks are parsimonious
    • 2538912, 18682703
    • Leclerc RD. Survival of the sparsest: robust gene networks are parsimonious. Mol Syst Biol 2008, 4:213. 2538912, 18682703.
    • (2008) Mol Syst Biol , vol.4 , pp. 213
    • Leclerc, R.D.1
  • 24
    • 55049095941 scopus 로고    scopus 로고
    • Variations in the transcriptome of Alzheimer's disease reveal molecular networks involved in cardiovascular diseases
    • 10.1186/gb-2008-9-10-r148, 2760875, 18842138
    • Ray M, Ruan J, Zhang W. Variations in the transcriptome of Alzheimer's disease reveal molecular networks involved in cardiovascular diseases. Genome Biol 2008, 9(10):R148. 10.1186/gb-2008-9-10-r148, 2760875, 18842138.
    • (2008) Genome Biol , vol.9 , Issue.10
    • Ray, M.1    Ruan, J.2    Zhang, W.3
  • 25
    • 45349102367 scopus 로고    scopus 로고
    • Plasticity of the systemic inflammatory response to acute infection during critical illness: development of the riboleukogram
    • 10.1371/journal.pone.0001564, 2215774, 18270561
    • McDunn J, Husain K, Polpitiya A, Burykin A, Ruan ea J. Plasticity of the systemic inflammatory response to acute infection during critical illness: development of the riboleukogram. PLoS One 2008, 3(2):e1564. 10.1371/journal.pone.0001564, 2215774, 18270561.
    • (2008) PLoS One , vol.3 , Issue.2
    • McDunn, J.1    Husain, K.2    Polpitiya, A.3    Burykin, A.4    Ruan ea, J.5
  • 27
    • 84873483560 scopus 로고    scopus 로고
    • GeneGo
    • GeneGo [http://portal.genego.com/help/P-value-calculations.pdf], GeneGo.
  • 29
    • 0344121661 scopus 로고    scopus 로고
    • Gene expression changes in mouse brain after exposure to low-dose ionising radiation
    • 10.1080/09553000310001610961, 14630535
    • Yin E, Nelson D, Coleman M, Peterson L, Wyrobek A. Gene expression changes in mouse brain after exposure to low-dose ionising radiation. Int J Radiat Biol 2003, 79(10):759-775. 10.1080/09553000310001610961, 14630535.
    • (2003) Int J Radiat Biol , vol.79 , Issue.10 , pp. 759-775
    • Yin, E.1    Nelson, D.2    Coleman, M.3    Peterson, L.4    Wyrobek, A.5
  • 30
    • 38749153887 scopus 로고    scopus 로고
    • Comprehensive analysis of time- and dise-dependent patterns of gene expression in a human mesenchymal stem cell line exposed to low dose ionising radiation
    • Jin Y, Na ea YJ. Comprehensive analysis of time- and dise-dependent patterns of gene expression in a human mesenchymal stem cell line exposed to low dose ionising radiation. Oncol Rep 2008, 19:135-144.
    • (2008) Oncol Rep , vol.19 , pp. 135-144
    • Jin, Y.1    Na ea, Y.J.2
  • 31
    • 33846147328 scopus 로고    scopus 로고
    • Granzymes at a glance
    • 10.1242/jcs.03239, 17158907
    • Bots M, Medema JP. Granzymes at a glance. J Cell Sci 2006, 119(24):5011-5014. 10.1242/jcs.03239, 17158907.
    • (2006) J Cell Sci , vol.119 , Issue.24 , pp. 5011-5014
    • Bots, M.1    Medema, J.P.2
  • 32
    • 0027399260 scopus 로고
    • Altered metabolism of glutathione in cells transformed by oncogenes which cause resistance to ionizing radiations
    • 10.1016/0014-5793(93)80590-Q, 8096467
    • Vincenzini MT, Marraccini P, Iantomasi T, Favilli F, Pacini S, Ruggiero M. Altered metabolism of glutathione in cells transformed by oncogenes which cause resistance to ionizing radiations. FEBS Lett 1993, 320(3):219-223. 10.1016/0014-5793(93)80590-Q, 8096467.
    • (1993) FEBS Lett , vol.320 , Issue.3 , pp. 219-223
    • Vincenzini, M.T.1    Marraccini, P.2    Iantomasi, T.3    Favilli, F.4    Pacini, S.5    Ruggiero, M.6
  • 33
    • 0031977651 scopus 로고    scopus 로고
    • Protective role of glutathione synthesis on radiation-induced DNA damage in rabbit brain
    • 10.1023/A:1022525214871, 9590560
    • Shimizu T, Iwanaga M, Yasunaga A, Urata Y, Goto S, Shibata S, Kondo T. Protective role of glutathione synthesis on radiation-induced DNA damage in rabbit brain. Cell Mol Neurobiol 1998, 18(3):299-310. 10.1023/A:1022525214871, 9590560.
    • (1998) Cell Mol Neurobiol , vol.18 , Issue.3 , pp. 299-310
    • Shimizu, T.1    Iwanaga, M.2    Yasunaga, A.3    Urata, Y.4    Goto, S.5    Shibata, S.6    Kondo, T.7
  • 34
    • 1542376929 scopus 로고    scopus 로고
    • Glutathione metabolism and its implications for health
    • Wu G, Fang YZ, Yang S, Lupton JR, Turner ND. Glutathione metabolism and its implications for health. J Nutr 2004, 134(3):489-492.
    • (2004) J Nutr , vol.134 , Issue.3 , pp. 489-492
    • Wu, G.1    Fang, Y.Z.2    Yang, S.3    Lupton, J.R.4    Turner, N.D.5
  • 35
    • 8744226622 scopus 로고    scopus 로고
    • The role of glutathione in cancer
    • 10.1002/cbf.1149, 15386533
    • Balendiran GK, Dabur R, Fraser D. The role of glutathione in cancer. Cell Biochem Funct 2004, 22(6):343-352. 10.1002/cbf.1149, 15386533.
    • (2004) Cell Biochem Funct , vol.22 , Issue.6 , pp. 343-352
    • Balendiran, G.K.1    Dabur, R.2    Fraser, D.3
  • 36
    • 71749092275 scopus 로고    scopus 로고
    • The TNF superfamily in 2009: new pathways, new indications, and new drugs
    • Tansey MG, Szymkowski DE. The TNF superfamily in 2009: new pathways, new indications, and new drugs. Drug Discov Today 2009, 14(23-24):1082-1088.
    • (2009) Drug Discov Today , vol.14 , Issue.23-24 , pp. 1082-1088
    • Tansey, M.G.1    Szymkowski, D.E.2
  • 37
    • 42549164807 scopus 로고    scopus 로고
    • Wnt signalling and its impact on development and cancer
    • 10.1038/nrc2389, 18432252
    • Klaus A, Birchmeier W. Wnt signalling and its impact on development and cancer. Nat Rev Cancer 2008, 8:387-398. 10.1038/nrc2389, 18432252.
    • (2008) Nat Rev Cancer , vol.8 , pp. 387-398
    • Klaus, A.1    Birchmeier, W.2
  • 38
    • 70349932747 scopus 로고    scopus 로고
    • Towards an integrated view of Wnt signaling in development
    • 10.1242/dev.033910, 19736321
    • Amerongen R, Nusse R. Towards an integrated view of Wnt signaling in development. Development 2009, 136:3205-3214. 10.1242/dev.033910, 19736321.
    • (2009) Development , vol.136 , pp. 3205-3214
    • Amerongen, R.1    Nusse, R.2
  • 41
    • 33744947315 scopus 로고    scopus 로고
    • BRCA1 promotes induction of ssDNA by ionizing radiation
    • 10.1158/0008-5472.CAN-05-3209, 16707442
    • Schlegel B, Jodelka F, Nunez R. BRCA1 promotes induction of ssDNA by ionizing radiation. Cancer Res 2006, 66(10):5181-5189. 10.1158/0008-5472.CAN-05-3209, 16707442.
    • (2006) Cancer Res , vol.66 , Issue.10 , pp. 5181-5189
    • Schlegel, B.1    Jodelka, F.2    Nunez, R.3
  • 42
    • 0035032649 scopus 로고    scopus 로고
    • Involvement of Brca1 in S-Phase and G2-Phase checkpoints after ionizing irradiation
    • 10.1128/MCB.21.10.3445-3450.2001, 100266, 11313470
    • Xu B, Kim S, Kastan M. Involvement of Brca1 in S-Phase and G2-Phase checkpoints after ionizing irradiation. Mol Cell Biol 2001, 21(10):3445-3450. 10.1128/MCB.21.10.3445-3450.2001, 100266, 11313470.
    • (2001) Mol Cell Biol , vol.21 , Issue.10 , pp. 3445-3450
    • Xu, B.1    Kim, S.2    Kastan, M.3
  • 43
    • 21244456450 scopus 로고    scopus 로고
    • Gene expression profiles of normal human fibroblasts after exposure to ionizing radiation: a comparative study of low and high doses
    • 10.1667/RR3354, 15966761
    • Ding L, Shingyoji M, Chen F, Hwang J, Burma S, Lee C, Cheng J, Chen D. Gene expression profiles of normal human fibroblasts after exposure to ionizing radiation: a comparative study of low and high doses. Radiat Res 2005, 164:17-26. 10.1667/RR3354, 15966761.
    • (2005) Radiat Res , vol.164 , pp. 17-26
    • Ding, L.1    Shingyoji, M.2    Chen, F.3    Hwang, J.4    Burma, S.5    Lee, C.6    Cheng, J.7    Chen, D.8
  • 44
    • 33749991402 scopus 로고    scopus 로고
    • Global similarity and local divergence in human and mouse gene co-expression networks
    • 10.1186/1471-2148-6-70, 1601971, 16968540
    • Tsaparas P, Marino-Ramirez L, Bodenreider O, Koonin EV, Jordan IK. Global similarity and local divergence in human and mouse gene co-expression networks. BMC Evol Biol 2006, 6:70. 10.1186/1471-2148-6-70, 1601971, 16968540.
    • (2006) BMC Evol Biol , vol.6 , pp. 70
    • Tsaparas, P.1    Marino-Ramirez, L.2    Bodenreider, O.3    Koonin, E.V.4    Jordan, I.K.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.