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Volumn 3, Issue 3-4, 2008, Pages 167-171

Bioinformatic interrogation of expression array data to identify nutritionally regulated genes potentially modulated by DNA methylation

Author keywords

Bioinformatics; CpG islands; DNA methylation; Gene expression; In silico promoter analysis; Transcription factor binding sites

Indexed keywords


EID: 84857801304     PISSN: 15558932     EISSN: 18653499     Source Type: Journal    
DOI: 10.1007/s12263-008-0095-0     Document Type: Article
Times cited : (5)

References (24)
  • 1
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc Ser B Stat Methodol 57:289-300
    • (1995) J R Stat Soc Ser B Stat Methodol , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 2
    • 0034664939 scopus 로고    scopus 로고
    • Cytosine methylation of an Sp1 site contributes to organ-specific and cell-specific regulation of expression of the lung epithelial gene t1alpha
    • Cao YX, Jean JC, Williams MC (2000) Cytosine methylation of an Sp1 site contributes to organ-specific and cell-specific regulation of expression of the lung epithelial gene t1alpha. Biochem J 350(3):883-890
    • (2000) Biochem J , vol.350 , Issue.3 , pp. 883-890
    • Cao, Y.X.1    Jean, J.C.2    Williams, M.C.3
  • 4
    • 33645633542 scopus 로고    scopus 로고
    • Maternal genistein alters coat color and protects Avy mouse offspring from obesity by modifying the fetal epigenome
    • Dolinoy DC, Weidman JR, Waterland RA, Jirtle RL (2006) Maternal genistein alters coat color and protects Avy mouse offspring from obesity by modifying the fetal epigenome. Environ Health Perspect 114(4):567-572
    • (2006) Environ Health Perspect , vol.114 , Issue.4 , pp. 567-572
    • Dolinoy, D.C.1    Weidman, J.R.2    Waterland, R.A.3    Jirtle, R.L.4
  • 6
    • 33947315736 scopus 로고    scopus 로고
    • Cancer epigenomics: DNA methylomes and histone-modification maps
    • DOI 10.1038/nrg2005, PII NRG2005
    • Esteller M (2007) Cancer epigenomics: DNA methylomes and histone-modification maps. Nat Rev Genet 8(4):286-298 (Pubitemid 46439286)
    • (2007) Nature Reviews Genetics , vol.8 , Issue.4 , pp. 286-298
    • Esteller, M.1
  • 7
    • 0038663165 scopus 로고    scopus 로고
    • Folate treatment and unbalanced methylation and changes of allelic expression induced by hyperhomocysteinaemia in patients with uraemia
    • DOI 10.1016/S0140-6736(03)13372-7
    • Ingrosso D, Cimmino A, Perna AF, Masella L, De Santo NG, De Bonis ML, Vacca M, D'Esposito M, D'Urso M, Galletti P, Zappia V (2003) Folate treatment and unbalanced methylation and changes of allelic expression induced by hyperhomocysteinaemia in patients with uraemia. Lancet 361(9370):1693-1699 (Pubitemid 36577442)
    • (2003) Lancet , vol.361 , Issue.9370 , pp. 1693-1699
    • Ingrosso, D.1    Cimmino, A.2    Perna, A.F.3    Masella, L.4    De Santo, N.G.5    De Bonis, M.L.6    Vacca, M.7    D'Esposito, M.8    D'Urso, M.9    Galletti, P.10    Zappia, V.11
  • 8
    • 31544467532 scopus 로고    scopus 로고
    • Nutritional epigenetics: Impact of folate deficiency on DNA methylation and colon cancer susceptibility
    • Kim Y-I (2005) Nutritional epigenetics: impact of folate deficiency on DNA methylation and colon cancer susceptibility. J Nutr 135:2703-2709 (Pubitemid 43156617)
    • (2005) Journal of Nutrition , vol.135 , Issue.11 , pp. 2703-2709
    • Kim, Y.-I.1
  • 9
    • 0036856355 scopus 로고    scopus 로고
    • MethPrimer: Designing primers for methylation PCRs
    • Li LC, Dahiya R (2002) MethPrimer: designing primers for methylation PCRs. Bioinformatics 18(11):1427-1431 (Pubitemid 35414532)
    • (2002) Bioinformatics , vol.18 , Issue.11 , pp. 1427-1431
    • Li, L.-C.1    Dahiya, R.2
  • 10
    • 20444411948 scopus 로고    scopus 로고
    • Dietary protein restriction of pregnant rats induces and folic acid supplementation prevents epigenetic modification of hepatic gene expression in the offspring
    • Lillycrop KA, Phillips ES, Jackson AA, Hanson MA, Burdge GC (2005) Dietary protein restriction of pregnant rats induces and folic acid supplementation prevents epigenetic modification of hepatic gene expression in the offspring. J Nutr 135(6):1382-1386 (Pubitemid 40799599)
    • (2005) Journal of Nutrition , vol.135 , Issue.6 , pp. 1382-1386
    • Lillycrop, K.A.1    Phillips, E.S.2    Jackson, A.A.3    Hanson, M.A.4    Burdge, G.C.5
  • 11
    • 50049108528 scopus 로고    scopus 로고
    • Feeding pregnant rats a protein-restricted diet persistently alters the methylation of specific cytosines in the hepatic PPAR alpha promoter of the offspring
    • Lillycrop KA, Phillips ES, Torrens C, Hanson MA, Jackson AA, Burdge GC (2008) Feeding pregnant rats a protein-restricted diet persistently alters the methylation of specific cytosines in the hepatic PPAR alpha promoter of the offspring. Br J Nutr 100(2):278-282
    • (2008) Br J Nutr , vol.100 , Issue.2 , pp. 278-282
    • Lillycrop, K.A.1    Phillips, E.S.2    Torrens, C.3    Hanson, M.A.4    Jackson, A.A.5    Burdge, G.C.6
  • 12
    • 79959970200 scopus 로고    scopus 로고
    • Candidate mechanisms for interactions between nutrients and genes
    • Choi Sang-Woon, Friso Simonetta (eds), CRC Press, Taylor & Francis Group, Boca Raton
    • Mathers JC (2006) Candidate mechanisms for interactions between nutrients and genes. In: Choi Sang-Woon, Friso Simonetta (eds) Nutrient-gene interactions in cancer. CRC Press, Taylor & Francis Group, Boca Raton, pp 19-36
    • (2006) Nutrient-gene Interactions in Cancer , pp. 19-36
    • Mathers, J.C.1
  • 14
    • 0033960560 scopus 로고    scopus 로고
    • Single-site methylation within the p53 promoter region reduces gene expression in a reporter gene construct: Possible in vivo relevance during tumorigenesis
    • Pogribny IP, Pogribna M, Christman JK, James SJ (2000) Singlesite methylation within the p53 promoter region reduces gene expression in a reporter gene construct: possible in vivo relevance during tumorigenesis. Cancer Res 60:588-594 (Pubitemid 30094555)
    • (2000) Cancer Research , vol.60 , Issue.3 , pp. 588-594
    • Pogribny, I.P.1    Pogribna, M.2    Christman, J.K.3    James, S.J.4
  • 19
    • 2442684104 scopus 로고    scopus 로고
    • An evaluation of new criteria for CpG islands in the human genome as gene markers
    • DOI 10.1093/bioinformatics/bth059
    • Wang Y, Leung FCC (2004) An evaluation of new criteria for CpG islands in the human genome as gene markers. Bioinformatics 20(7):1170-1177 (Pubitemid 38660354)
    • (2004) Bioinformatics , vol.20 , Issue.7 , pp. 1170-1177
    • Wang, Y.1    Leung, F.C.C.2
  • 20
    • 0043093697 scopus 로고    scopus 로고
    • Transposable elements: Targets for early nutritional effects on epigenetic gene regulation
    • DOI 10.1128/MCB.23.15.5293-5300.2003
    • Waterland RA, Jirtle RL (2003) Transposable elements: targets for early nutritional effects on epigenetic gene regulation. Mol Cell Biol 23(15):5293-5300 (Pubitemid 36950884)
    • (2003) Molecular and Cellular Biology , vol.23 , Issue.15 , pp. 5293-5300
    • Waterland, R.A.1    Jirtle, R.L.2
  • 21
    • 33749026098 scopus 로고    scopus 로고
    • Maternal methyl supplements increase offspring DNA methylation at Axin fused
    • DOI 10.1002/dvg.20230
    • Waterland RA, Dolinoy DC, Lin JR, Smith CA, Shi X, Tahiliani KG (2006) Maternal methyl supplements increase offspring DNA methylation at Axin Fused. Genesis 44(9):401-406 (Pubitemid 44454044)
    • (2006) Genesis , vol.44 , Issue.9 , pp. 401-406
    • Waterland, R.A.1    Dolinoy, D.C.2    Lin, J.-R.3    Smith, C.A.4    Shi, X.5    Tahiliani, K.G.6
  • 22
    • 33144488275 scopus 로고    scopus 로고
    • Post-weaning diet affects genomic imprinting at the insulin-like growth factor 2 (Igf2) locus
    • DOI 10.1093/hmg/ddi484
    • Waterland RA, Lin JR, Smith CA, Jirtle RL (2006) Post-weaning diet affects genomic imprinting at the insulin-like growth factor 2 (Igf2) locus. Hum Mol Genet 15(5):705-716 (Pubitemid 43264695)
    • (2006) Human Molecular Genetics , vol.15 , Issue.5 , pp. 705-716
    • Waterland, R.A.1    Lin, J.-R.2    Smith, C.A.3    Jirtle, R.L.4
  • 23
    • 0035130597 scopus 로고    scopus 로고
    • Target gene identification from expression array data by promoter analysis
    • DOI 10.1016/S1389-0344(00)00071-X, PII S138903440000071X
    • Werner T (2001) Target gene identification from expression array data by promoter analysis. Biomol Eng 17:87-94 (Pubitemid 32140951)
    • (2001) Biomolecular Engineering , vol.17 , Issue.3 , pp. 87-94
    • Werner, T.1
  • 24
    • 0037869270 scopus 로고    scopus 로고
    • The state of the art of mammalian promoter recognition
    • Werner T (2003) The state of the art of mammalian promoter recognition. Brief Bioinform 4(1):22-30
    • (2003) Brief Bioinform , vol.4 , Issue.1 , pp. 22-30
    • Werner, T.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.