Identification and systematic annotation of tissue-specific differentially methylated regions using the Illumina 450k array (Q37113642)

18 August 2017

Identification and systematic annotation of tissue-specific differentially methylated regions using the Illumina 450k array (English)

1 reference

18 August 2017

10

Erik B van den Akker

0 references

Roderick C Slieker

Roderick C Slieker

1

0 references

Jelle J Goeman

Jelle J Goeman

3

0 references

Ingrid Meulenbelt

Ingrid Meulenbelt

14

0 references

Judith Bovée

Judith Vmg Bovée

4

0 references

Bastiaan T Heijmans

15

Bastiaan T Heijmans

1 reference

18 August 2017

13

P Eline Slagboom

1 reference

18 August 2017

12

J Wouter Jukema

1 reference

18 August 2017

9

Hein Putter

1 reference

18 August 2017

7

H Eka D Suchiman

1 reference

18 August 2017

2

Steffan D Bos

1 reference

18 August 2017

5

Rudolf P Talens

1 reference

18 August 2017

6

Ruud van der Breggen

1 reference

18 August 2017

8

Eric-Wubbo Lameijer

1 reference

18 August 2017

Yanju Zhang

11

1 reference

18 August 2017

6 August 2013

1 reference

18 August 2017

Epigenetics & Chromatin

1 reference

18 August 2017

6

1 reference

18 August 2017

1

1 reference

18 August 2017

26

1 reference

PMCID

3750594

describes a project that uses

18 August 2017

ggplot2

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=3750594

R package ggplot2

2 references

10 June 2022

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

exact match

https://scigraph.springernature.com/pub.10.1186/1756-8935-6-26

0 references

cites work

The Genotype-Tissue Expression (GTEx) project

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Systematic localization of common disease-associated variation in regulatory DNA

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

The accessible chromatin landscape of the human genome

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

An integrated encyclopedia of DNA elements in the human genome

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Functional annotation of the human brain methylome identifies tissue-specific epigenetic variation across brain and blood

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Quantitative cross-validation and content analysis of the 450k DNA methylation array from Illumina, Inc.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Epigenetic features are significantly associated with alternative splicing

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Programming of DNA methylation patterns

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

CpG methylation recruits sequence specific transcription factors essential for tissue specific gene expression

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

DNA methylation signatures in development and aging of the human prefrontal cortex

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Commentary: The seven plagues of epigenetic epidemiology

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

REVIGO summarizes and visualizes long lists of gene ontology terms

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

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

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Genome-wide survey reveals dynamic widespread tissue-specific changes in DNA methylation during development.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

The DNA methylome of human peripheral blood mononuclear cells

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Conserved role of intragenic DNA methylation in regulating alternative promoters

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

GREAT improves functional interpretation of cis-regulatory regions

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Redefining CpG islands using hidden Markov models

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Dynamic changes in the human methylome during differentiation

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Epigenetic profiling of somatic tissues from human autopsy specimens identifies tissue- and individual-specific DNA methylation patterns

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Genetics and epigenetics: stability and plasticity during cellular differentiation

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Dynamic regulation of Pdx1 enhancers by Foxa1 and Foxa2 is essential for pancreas development.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

ASTD: The Alternative Splicing and Transcript Diversity database

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Alternative isoform regulation in human tissue transcriptomes

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

DNA methylation profile of tissue-dependent and differentially methylated regions (T-DMRs) in mouse promoter regions demonstrating tissue-specific gene expression

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Tissue specific differentially methylated regions (TDMR): Changes in DNA methylation during development.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Male-pattern baldness susceptibility locus at 20p11.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

An integrated resource for genome-wide identification and analysis of human tissue-specific differentially methylated regions (tDMRs)

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

TiGER: a database for tissue-specific gene expression and regulation

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

A novel CpG island set identifies tissue-specific methylation at developmental gene loci

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

CG dinucleotide clustering is a species-specific property of the genome

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

CpGcluster: a distance-based algorithm for CpG-island detection

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

The human genome browser at UCSC

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Gene Expression Omnibus: NCBI gene expression and hybridization array data repository

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

DNA-binding factors shape the mouse methylome at distal regulatory regions

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Variation, patterns, and temporal stability of DNA methylation: considerations for epigenetic epidemiology

3 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750594

Buccal swabs but not mouthwash samples can be used to obtain pretransplant DNA fingerprints from recipients of allogeneic bone marrow transplants

3 September 2018

1 reference

12 December 2020

High microsatellite and SNP genotyping success rates established in a large number of genomic DNA samples extracted from mouth swabs and genotypes

1 reference

12 December 2020

Tissue-specific demethylation in CpG-poor promoters during cellular differentiation

1 reference

12 December 2020

Docosahexaenoic acid suppresses apolipoprotein A-I gene expression through hepatocyte nuclear factor-3β

1 reference

12 December 2020

Evaluation of the Infinium Methylation 450K technology

1 reference

12 December 2020

Identifiers

DOI

10.1186/1756-8935-6-26

1 reference

PMCID

3750594

Dimensions Publication ID

18 August 2017

0 references

1 reference

18 August 2017

1 reference

PMCID

3750594