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DNA methylation profiling of human chromosomes 6, 20 and 22

by Thompson, Christian , Eckhardt, Florian , Olek, Alex , Burger, Matthias , West, Tony , Lewin, Joern , Horton, Roger , Cortese, Rene , Attwood, John , Beck, Stephan , Cox, Tony V , Rakyan, Vardhman K , Howe, Kevin , Jackson, David K , Berlin, Kurt , Seemann, Stefanie , Burton, John , Niblett, David , Kunde, Jan , Haefliger, Carolina , Rogers, Jane , Liddle, Jennifer , Down, Thomas A , Pettett, Roger , Davies, Rob , Koenig, Christoph , Otto, Thomas

in 5' Untranslated Regions / Adult / Age Factors / Aged / Agriculture / Animal Genetics and Genomics / Animals / Biological and medical sciences / Biomedical and Life Sciences / Biomedicine / Cancer Research / Chromosomes / Chromosomes, Human, Pair 20 - genetics / Chromosomes, Human, Pair 20 - metabolism / Chromosomes, Human, Pair 22 - genetics / Chromosomes, Human, Pair 22 - metabolism / Chromosomes, Human, Pair 6 - genetics / Chromosomes, Human, Pair 6 - metabolism / CpG Islands / Deoxyribonucleic acid / DNA / DNA Methylation / Epigenesis, Genetic / Evolution, Molecular / Female / Fundamental and applied biological sciences. Psychology / Gene Function / Genes / Genetic aspects / Genetic transcription / Genetics of eukaryotes. Biological and molecular evolution / Genomics / Hominids / Human chromosomes / Human Genetics / Humans / Male / Mammals / Methylation / Mice / Middle Aged / Organ Specificity / Physiological aspects / Plasticity / Promoter Regions, Genetic / Sex Characteristics / Species Specificity / Transcription, Genetic

2006

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2006

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2006

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Journal Article

DNA methylation profiling of human chromosomes 6, 20 and 22

Thompson, Christian,

Eckhardt, Florian,

Olek, Alex,

Burger, Matthias,

West, Tony,

Lewin, Joern,

Horton, Roger,

Cortese, Rene,

Attwood, John,

Beck, Stephan,

Cox, Tony V,

Rakyan, Vardhman K,

Howe, Kevin,

Jackson, David K,

Berlin, Kurt,

Seemann, Stefanie,

Burton, John,

Niblett, David,

Kunde, Jan,

Haefliger, Carolina,

Rogers, Jane,

Liddle, Jennifer,

Down, Thomas A,

Pettett, Roger,

Davies, Rob,

Koenig, Christoph,

Otto, Thomas

2006

Overview

DNA methylation is the most stable type of epigenetic modification modulating the transcriptional plasticity of mammalian genomes. Using bisulfite DNA sequencing, we report high-resolution methylation profiles of human chromosomes 6, 20 and 22, providing a resource of about 1.9 million CpG methylation values derived from 12 different tissues. Analysis of six annotation categories showed that evolutionarily conserved regions are the predominant sites for differential DNA methylation and that a core region surrounding the transcriptional start site is an informative surrogate for promoter methylation. We find that 17% of the 873 analyzed genes are differentially methylated in their 5′ UTRs and that about one-third of the differentially methylated 5′ UTRs are inversely correlated with transcription. Despite the fact that our study controlled for factors reported to affect DNA methylation such as sex and age, we did not find any significant attributable effects. Our data suggest DNA methylation to be ontogenetically more stable than previously thought.

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Publisher

Nature Publishing Group US,Nature Publishing Group

Subject

5' Untranslated Regions

/ Adult

/ Age Factors

/ Aged

/ Agriculture

/ Animal Genetics and Genomics

/ Animals