Grasping nettles: cellular heterogeneity and other confounders in epigenome-wide association studies (Q34222307)

31 July 2017

7 references

30 June 2019

8 September 2019

14 September 2019

19 September 2019

25 September 2020

8 December 2020

25 January 2021

Grasping nettles: cellular heterogeneity and other confounders in epigenome-wide association studies (English)

1 reference

regulation of gene expression

31 July 2017

1 reference

8 September 2019

1 reference

14 September 2019

biomedical investigative technique

1 reference

19 September 2019

1 reference

25 September 2020

1 reference

8 December 2020

genetic heterogeneity

1 reference

25 January 2021

Liming Liang

1

1 reference

PubMed ID

24927738

31 July 2017

William O C Cookson

series ordinal

2

1 reference

31 July 2017

13 June 2014

1 reference

PubMed ID

24927738

31 July 2017

15 September 2014

7 references

30 June 2019

8 September 2019

14 September 2019

19 September 2019

25 September 2020

8 December 2020

25 January 2021

Human Molecular Genetics

8 references

31 July 2017

30 June 2019

8 September 2019

14 September 2019

19 September 2019

25 September 2020

8 December 2020

25 January 2021

23

1 reference

31 July 2017

R1

1 reference

31 July 2017

R83-8

1 reference

Creative Commons Attribution 4.0 International

31 July 2017

7 references

30 June 2019

8 September 2019

14 September 2019

19 September 2019

25 September 2020

8 December 2020

Reconstructing the DNA Methylation Maps of the Neandertal and the Denisovan

25 January 2021

0 references

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

5 July 2018

https://api.crossref.org/works/10.1093%2FHMG%2FDDU284

Quantitative sequencing of 5-formylcytosine in DNA at single-base resolution

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

The relationship between DNA methylation, genetic and expression inter-individual variation in untransformed human fibroblasts

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Accounting for cellular heterogeneity is critical in epigenome-wide association studies

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Reference-free cell mixture adjustments in analysis of DNA methylation data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Recommendations for the design and analysis of epigenome-wide association studies

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Charting a dynamic DNA methylation landscape of the human genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Blood-based profiles of DNA methylation predict the underlying distribution of cell types: a validation analysis.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

The Genotype-Tissue Expression (GTEx) project

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

A cross-platform analysis of 14,177 expression quantitative trait loci derived from lymphoblastoid cell lines

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in rheumatoid arthritis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Genome-wide methylation profiles reveal quantitative views of human aging rates

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Genetic analysis of DNA methylation and gene expression levels in whole blood of healthy human subjects

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Differential DNA methylation in purified human blood cells: implications for cell lineage and studies on disease susceptibility

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Peripheral blood immune cell methylation profiles are associated with nonhematopoietic cancers

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Functions of DNA methylation: islands, start sites, gene bodies and beyond

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

DNA methylation arrays as surrogate measures of cell mixture distribution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Epigenome-wide scans identify differentially methylated regions for age and age-related phenotypes in a healthy ageing population

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Cigarette smoking behaviors and time since quitting are associated with differential DNA methylation across the human genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Two-step epigenetic Mendelian randomization: a strategy for establishing the causal role of epigenetic processes in pathways to disease.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Age-associated DNA methylation in pediatric populations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Gene-environment interactions in genome-wide association studies: a comparative study of tests applied to empirical studies of type 2 diabetes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

A promoter DNA demethylation landscape of human hematopoietic differentiation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Neutrophils in the activation and regulation of innate and adaptive immunity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Eosinophils: multifaceted biological properties and roles in health and disease

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Cell type-specific DNA methylation at intragenic CpG islands in the immune system.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Chromosome-wide DNA methylation analysis predicts human tissue-specific X inactivation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Tobacco-smoking-related differential DNA methylation: 27K discovery and replication

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Odds ratios for mediation analysis for a dichotomous outcome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

A study of the influence of sex on genome wide methylation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Understanding mechanisms underlying human gene expression variation with RNA sequencing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Human aging-associated DNA hypermethylation occurs preferentially at bivalent chromatin domains

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Age-dependent DNA methylation of genes that are suppressed in stem cells is a hallmark of cancer.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

The transcriptional network for mesenchymal transformation of brain tumours.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

The relationship of DNA methylation with age, gender and genotype in twins and healthy controls

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Molecular networks as sensors and drivers of common human diseases

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Mapping complex disease traits with global gene expression

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

WGCNA: an R package for weighted correlation network analysis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Variations in DNA elucidate molecular networks that cause disease

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Capturing heterogeneity in gene expression studies by surrogate variable analysis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Calcium signalling in lymphocyte activation and disease

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Stability and flexibility of epigenetic gene regulation in mammalian development

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

DNA methylation profiling of human chromosomes 6, 20 and 22

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Adjusting batch effects in microarray expression data using empirical Bayes methods

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

X-inactivation profile reveals extensive variability in X-linked gene expression in females

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

DNA methylation patterns and epigenetic memory

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Genomic control for association studies

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Estimating the proportion of treatment effect explained by a surrogate marker.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

The moderator–mediator variable distinction in social psychological research: Conceptual, strategic, and statistical considerations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Human eosinophils have prolonged survival, enhanced functional properties, and become hypodense when exposed to human interleukin 3.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4170720

Periconceptional maternal micronutrient supplementation is associated with widespread gender related changes in the epigenome: a study of a unique resource in the Gambia

5 July 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDU284

Direct and indirect effects in a survival context

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDU284

Distinct responses of monocytes to Toll-like receptor ligands and inflammatory cytokines.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDU284

Independent surrogate variable analysis to deconvolve confounding factors in large-scale microarray profiling studies.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDU284

Epigenome-wide association studies without the need for cell-type composition

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDU284

Heritable rather than age-related environmental and stochastic factors dominate variation in DNA methylation of the human IGF2/H19 locus

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24927738

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Genomic surveys by methylation-sensitive SNP analysis identify sequence-dependent allele-specific DNA methylation

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24927738

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Surrogate variable analysis using partial least squares (SVA-PLS) in gene expression studies

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24927738

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/HMG/DDU284

1 reference

31 July 2017

1 reference

31 July 2017

1 reference

PubMed ID

24927738