(Q41313805)

29 September 2017

An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform (English)

1 reference

29 September 2017

0 references

11

1 reference

29 September 2017

Maléne E Lindholm

3

0 references

Francesco Marabita

Francesco Marabita

1

0 references

Carl Johan Sundberg

Carl J Sundberg

7

0 references

Jesper Tegnér

10

Jesper Tegnér

1 reference

29 September 2017

2

Malin Almgren

1 reference

29 September 2017

8

Tomas J Ekström

1 reference

PMCID

3669124

29 September 2017

Andrew E Teschendorff

9

Andrew E Teschendorff

1 reference

29 September 2017

4

Sabrina Ruhrmann

1 reference

29 September 2017

6

Maja Jagodic

1 reference

29 September 2017

Fredrik Fagerström-Billai

5

1 reference

29 September 2017

19 February 2013

1 reference

29 September 2017

1 reference

29 September 2017

8

1 reference

29 September 2017

333-346

1 reference

29 September 2017

3

1 reference

PMCID

3669124

describes a project that uses

29 September 2017

limma

1 reference

22 June 2022

https://europepmc.org/article/PMC/3669124

based on heuristic

inferred from PubMed Central ID database lookup

cites work

A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

DNA methylation biomarkers and their utility for solid cancer diagnostics

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

DNA methylation profiling in the clinic: applications and challenges

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

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

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Cancer epigenetics: from mechanism to therapy

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

SWAN: Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Complete pipeline for Infinium(®) Human Methylation 450K BeadChip data processing using subset quantile normalization for accurate DNA methylation estimation.

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

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

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Bump hunting to identify differentially methylated regions in epigenetic epidemiology studies.

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

IDH1 mutation is sufficient to establish the glioma hypermethylator phenotype

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Batch effect correction for genome-wide methylation data with Illumina Infinium platform

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Genome-wide DNA methylation profiling using Infinium® assay

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

High resolution detection and analysis of CpG dinucleotides methylation using MBD-Seq technology

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Epigenome-wide association studies for common human diseases

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Mapping and analysis of chromatin state dynamics in nine human cell types

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

DNMT3A Mutations in Acute Myeloid Leukemia

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Epigenomics reveals a functional genome anatomy and a new approach to common disease

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications.

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Principles and challenges of genomewide DNA methylation analysis

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

MBD-isolated Genome Sequencing provides a high-throughput and comprehensive survey of DNA methylation in the human genome

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Human DNA methylomes at base resolution show widespread epigenomic differences

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Lineage-specific DNA methylation in T cells correlates with histone methylation and enhancer activity.

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

CpG islands--'a rough guide'.

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

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

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Genome-scale DNA methylation maps of pluripotent and differentiated cells

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

lumi: a pipeline for processing Illumina microarray

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Capturing heterogeneity in gene expression studies by surrogate variable analysis

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Increased methylation variation in epigenetic domains across cancer types

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Comprehensive high-throughput arrays for relative methylation (CHARM).

14 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Evaluation of diagnostic tests without gold standards.

14 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

High density DNA methylation array with single CpG site resolution

14 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Epigenetics as a unifying principle in the aetiology of complex traits and diseases.

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Methylated DNA immunoprecipitation (MeDIP).

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Random effects models in latent class analysis for evaluating accuracy of diagnostic tests.

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

5-Methylcytosine as an Endogenous Mutagen in the Human LDL Receptor and p53 Genes

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3669124

Evaluation of the Infinium Methylation 450K technology

19 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23422812

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Methylated DNA immunoprecipitation (MeDIP) from low amounts of cells

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23422812

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.4161/EPI.24008

1 reference

29 September 2017

1 reference

29 September 2017

1 reference

PMCID

3669124