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A comprehensive overview of Infinium HumanMethylation450 data processing

A comprehensive overview of Infinium HumanMethylation450 data processing

http://www.wikidata.org/entity/Q34976889

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Current and Future Prospects for Epigenetic Biomarkers of Substance Use Disorders Base resolution methylome profiling: considerations in platform selection, data preprocessing and analysis A statistical model for the analysis of beta values in DNA methylation studies.Functional normalization of 450k methylation array data improves replication in large cancer studies.A systematic study of normalization methods for Infinium 450K methylation data using whole-genome bisulfite sequencing data.An evaluation of processing methods for HumanMethylation450 BeadChip data Statistical challenges in analyzing methylation and long-range chromosomal interaction data Statistical method evaluation for differentially methylated CpGs in base resolution next-generation DNA sequencing data.Comprehensive characterization, annotation and innovative use of Infinium DNA methylation BeadChip probes Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays DMRforPairs: identifying differentially methylated regions between unique samples using array based methylation profiles Dynamic imbalance between cancer cell subpopulations induced by transforming growth factor beta (TGF-β) is associated with a DNA methylome switch.Dietary flavanols modulate the transcription of genes associated with cardiovascular pathology without changes in their DNA methylation state.Intraindividual variation and short-term temporal trend in DNA methylation of human blood Impact of SNPs on methylation readouts by Illumina Infinium HumanMethylation450 BeadChip Array: implications for comparative population studies.Substantial DNA methylation differences between two major neuronal subtypes in human brain.System-Wide Associations between DNA-Methylation, Gene Expression, and Humoral Immune Response to Influenza Vaccination.A Molecular Clock Infers Heterogeneous Tissue Age Among Patients with Barrett's Esophagus Epigenetic silencing of neurofilament genes promotes an aggressive phenotype in breast cancer.DNA methylation analysis of Homeobox genes implicates HOXB7 hypomethylation as risk factor for neural tube defects RELIC: a novel dye-bias correction method for Illumina Methylation BeadChip.Maternal BMI as a predictor of methylation of obesity-related genes in saliva samples from preschool-age Hispanic children at-risk for obesity DNA methylation assessment as a prognostic factor in invasive breast cancer using methylation-specific multiplex ligation dependent probe amplification.Identification of a new locus and validation of previously reported loci showing differential methylation associated with smoking. The REGICOR study.DNA methylation of cord blood cell types: Applications for mixed cell birth studies Validation of differential GDAP1 DNA methylation in alcohol dependence and its potential function as a biomarker for disease severity and therapy outcome Genome-scale methylation assessment did not identify prognostic biomarkers in oral tongue carcinomas Genome-wide profiling identifies associations between lupus nephritis and differential methylation of genes regulating tissue hypoxia and type 1 interferon responses.Integrative genomic analysis identifies epigenetic marks that mediate genetic risk for epithelial ovarian cancer.Reducing the risk of false discovery enabling identification of biologically significant genome-wide methylation status using the HumanMethylation450 array.Epigenetic Biomarkers of Breast Cancer Risk: Across the Breast Cancer Prevention Continuum.The Genomic Impact of DNA CpG Methylation on Gene Expression; Relationships in Prostate Cancer Trends in DNA Methylation with Age Replicate Across Diverse Human Populations.Comparison of Pre-processing Methods for Infinium HumanMethylation450 BeadChip Array.Prenatal exposures and DNA methylation in newborns: a pilot study in Durban, South Africa.Characterization of the nasopharyngeal carcinoma methylome identifies aberrant disruption of key signaling pathways and methylated tumor suppressor genes.Dietary phytochemical PEITC restricts tumor development via modulation of epigenetic writers and erasers.Tools and Strategies for Analysis of Genome-Wide and Gene-Specific DNA Methylation Patterns.Global methylation profiling to identify epigenetic signature of gallbladder cancer and gallstone disease.Identification and validation of seven new loci showing differential DNA methylation related to serum lipid profile: an epigenome-wide approach. The REGICOR study.

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A comprehensive overview of Infinium HumanMethylation450 data processing

http://www.wikidata.org/entity/Q34976889

description

2013 nî lūn-bûn

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2013 թուականի Օգոստոսին հրատարակուած գիտական յօդուած

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2013 թվականի օգոստոսին հրատարակված գիտական հոդված

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2013年の論文

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2013年論文

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2013年论文

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name

A comprehensive overview of Infinium HumanMethylation450 data processing

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A comprehensive overview of Infinium HumanMethylation450 data processing

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A comprehensive overview of Infinium HumanMethylation450 data processing

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A comprehensive overview of Infinium HumanMethylation450 data processing

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A comprehensive overview of Infinium HumanMethylation450 data processing

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A comprehensive overview of Infinium HumanMethylation450 data processing

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A comprehensive overview of Infinium HumanMethylation450 data processing

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A comprehensive overview of Infinium HumanMethylation450 data processing

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A comprehensive overview of Infinium HumanMethylation450 data processing

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Briefings in Bioinformatics

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A comprehensive overview of Infinium HumanMethylation450 data processing

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Emilie Calonne

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François Fuks

http://www.w3.org/2001/XMLSchema#string

Martin Bizet

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Sarah Dedeurwaerder

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P2860

BSmooth: from whole genome bisulfite sequencing reads to differentially methylated regions

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

Significance analysis of microarrays applied to the ionizing radiation response

Epigenome-wide association studies for common human diseases

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

lumi: a pipeline for processing Illumina microarray

Adjusting batch effects in microarray expression data using empirical Bayes methods

Tackling the widespread and critical impact of batch effects in high-throughput data

DNA methylation arrays as surrogate measures of cell mixture distribution.

OSAT: a tool for sample-to-batch allocations in genomics experiments.

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929-941

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scholarly article

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10.1093/BIB/BBT054

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6

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15

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Gianluca Bontempi

Matthieu Defrance

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2013-08-29T00:00:00Z

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256291155

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