ArticleAmerican journal of human genetics2010
Mapping allele-specific DNA methylation: a new tool for maximizing information from GWAS.
Article in American journal of human genetics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
27 citing papers in PubMed, 1 synthesis or guideline pooled it, 40 citations in OpenAlex.
- 15q12 variants, sputum gene promoter hypermethylation, and lung cancer risk: a GWAS in smokers.Journal of the National Cancer Institute · 2015Pooled it
- Allele-specific DNA methylation is increased in cancers and its dense mapping in normal plus neoplastic cells increases the yield of disease-associated regulatory SNPs.Genome biology · 2020Article
- Breast cancer family history and allele-specific DNA methylation in the legacy girls study.Epigenetics · 2018Article
- The Protein Encoded by the CCDC170 Breast Cancer Gene Functions to Organize the Golgi-Microtubule Network.EBioMedicine · 2017Article
- Genetic-epigenetic interactions in cis: a major focus in the post-GWAS era.Genome biology · 2017Review
- Molecular mechanisms underlying noncoding risk variations in psychiatric genetic studies.Molecular psychiatry · 2017Review
- Review
- Mechanisms and Disease Associations of Haplotype-Dependent Allele-Specific DNA Methylation.American journal of human genetics · 2016Article
- Allele-Skewed DNA Modification in the Brain: Relevance to a Schizophrenia GWAS.American journal of human genetics · 2016Article
- Implication of a Chromosome 15q15.2 Locus in Regulating UBR1 and Predisposing Smokers to MGMT Methylation in Lung.Cancer research · 2015Article
- Methylation quantitative trait loci (meQTLs) are consistently detected across ancestry, developmental stage, and tissue type.BMC genomics · 2014Article
- Allele-specific methylation occurs at genetic variants associated with complex disease.PloS one · 2014Article
- Identifying breast cancer risk loci by global differential allele-specific expression (DASE) analysis in mammary epithelial transcriptome.BMC genomics · 2012Article
- Environmental epigenetics: prospects for studying epigenetic mediation of exposure-response relationships.Human genetics · 2012Review
- Annotating individual human genomes.Genomics · 2011Review
- Highly efficient PCR assay to discriminate allelic DNA methylation status using whole genome amplification.BMC research notes · 2011Article
- Emerging patterns of epigenomic variation.Trends in genetics : TIG · 2011Review
- The importance of phase information for human genomics.Nature reviews. Genetics · 2011Review
- Review
- Dark matters in AMD genetics: epigenetics and stochasticity.Investigative ophthalmology & visual science · 2011Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
1 author at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In this issue of The Journal, an article by Schalkwyk et al.(1) shows the landscape of allele-specific DNA methylation (ASM) in the human genome. ASM has long been studied as a hallmark of imprinted genes, and a chromosome-wide version of this phenomenon occurs, in a random fashion, during X chromosome inactivation in female cells. But the type of ASM motivating the study by Schalkwyk et al. is different. They used a high-resolution, methylation-sensitive SNP array (MSNP) method for genome-wide profiling of ASM in total peripheral-blood leukocytes (PBL) and buccal cells from a series of monozygotic twin pairs. Their data bring a new level of detail to our knowledge of a newly recognized phenomenon-nonimprinted, sequence-dependent ASM. They document the widespread occurrence of this phenomenon among human genes and discuss its basic implications for gene regulation and genetic-epigenetic interactions. But this paper and recent work from other laboratories(2,3) raises the possibility of a more immediate and practical application for ASM mapping, namely to help extract maximum information from genome-wide association studies.
Indexed as
Identifiers
What OpenQuestion holds
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.