ArticleGenome research2008
DNA methylation profile of tissue-dependent and differentially methylated regions (T-DMRs) in mouse promoter regions demonstrating tissue-specific gene expression.
Article in Genome research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 79 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
79 citing papers in PubMed, 162 citations in OpenAlex.
- Transomic analysis reveals DNA methylation and transcription factor roles in obese liver protein expression.NPJ systems biology and applications · 2025Article
- LBX1, ESR1, and ESR2 genes DNA methylation level in idiopathic scoliosis.Scientific reports · 2025Article
- Epigenome editing-mediated restoration ofBiochemistry and biophysics reports · 2025Article
- Whole-genome bisulfite sequencing data analysis learning module on Google Cloud Platform.Briefings in bioinformatics · 2024Article
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- DNA hypomethylation characterizes genes encoding tissue-dominant functional proteins in liver and skeletal muscle.Scientific reports · 2023Article
- Methylation is maintained specifically at imprinting control regions but not other DMRs associated with imprinted genes in mice bearing a mutation in theFrontiers in cell and developmental biology · 2023Article
- Metabolic and Epigenetics Action Mechanisms of Antiobesity Medicinal Plants and Phytochemicals.Evidence-based complementary and alternative medicine : eCAM · 2021Review
- Epigenomics and transcriptomics of systemic sclerosis CD4+ T cells reveal long-range dysregulation of key inflammatory pathways mediated by disease-associated susceptibility loci.Genome medicine · 2020Article
- Direct readout of heterochromatic H3K9me3 regulates DNMT1-mediated maintenance DNA methylation.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Article
- Global Analysis of Transcription Start Sites in the New Ovine Reference Genome (Frontiers in genetics · 2020Article
- Aberrant DNA methylation suppresses expression of estrogen receptor 1 (ESR1) in ovarian endometrioma.Journal of ovarian research · 2019Article
- A Pilot Study of Aberrant CpG Island Hypermethylation ofInternational journal of medical sciences · 2019Article
- Investigating the genetic and epigenetic basis of big biological questions with the parthenogenetic marbled crayfish: A review and perspectives.Journal of biosciences · 2018Review
- Reactivation of hyperglycemia-induced hypocretin (HCRT) gene silencing by N-acetyl-d-mannosamine in the orexin neurons derived from human iPS cells.Epigenetics · 2017Article
- DNA methylation signature of long noncoding RNA genes during human pre-implantation embryonic development.Oncotarget · 2017Article
- Origin of a rapidly evolving homeostatic control system programming testis function.The Journal of endocrinology · 2017Article
- Drugging the pain epigenome.Nature reviews. Neurology · 2017Review
- Establishment of DNA methylation patterns of the Fibrillin1 (FBN1) gene in porcine embryos and tissues.The Journal of reproduction and development · 2017Article
19 more citing papers are in PubMed but not listed here.
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Authors and funding
13 authors at 3 institutions in 2 countries.
Funding
Abstract
DNA methylation constitutes an important epigenetic regulation mechanism in many eukaryotes, although the extent of DNA methylation in the regulation of gene expression in the mammalian genome is poorly understood. We developed D-REAM, a genome-wide DNA methylation analysis method for tissue-dependent and differentially methylated region (T-DMR) profiling with restriction tag-mediated amplification in mouse tissues and cells. Using a mouse promoter tiling array covering a region from -6 to 2.5 kb ( approximately 30,000 transcription start sites), we found that over 3000 T-DMRs are hypomethylated in liver compared to cerebrum. The DNA methylation profile of liver was distinct from that of kidney and spleen. This hypomethylation profile marked genes that are specifically expressed in liver, including key transcription factors such as Hnf1a and Hnf4a. Genes with T-DMRs, especially those lacking CpG islands and those with HNF-1A binding motifis in their promoters, showed good correlation between their tissue-specific expression and liver hypomethylation status. T-DMRs located downstream from their transcription start sites also showed tissue-specific gene expression. These data indicate that multilayered regulation of tissue-specific gene function could be elucidated by DNA methylation tissue profiling.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.