An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform. - Wikidata - awgldk - TriplyDB

An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform.

An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform.

http://www.wikidata.org/entity/Q41313805

about

Lessons learned in the analysis of high-dimensional data in vaccinomics Establishing an analytic pipeline for genome-wide DNA methylation DNA Methylation Analysis: Choosing the Right Method Base resolution methylome profiling: considerations in platform selection, data preprocessing and analysis Epigenetic epidemiology: promises for public health research Guidelines for the design, analysis and interpretation of 'omics' data: focus on human endometrium Review of processing and analysis methods for DNA methylation array data Tumor hypomethylation at 6p21.3 associates with longer time to recurrence of high-grade serous epithelial ovarian cancer Quality control and statistical modeling for environmental epigenetics: a study on in utero lead exposure and DNA methylation at birth Epigenomics and allergic disease Considerations for normalization of DNA methylation data by Illumina 450K BeadChip assay in population studies.Exploring the molecular causes of hepatitis B virus vaccination response: an approach with epigenomic and transcriptomic data.Analysis pipelines and packages for Infinium HumanMethylation450 BeadChip (450k) data Between-array normalization for 450K data.Identification of functionally methylated regions based on discriminant analysis through integrating methylation and gene expression data.Removing unwanted variation in a differential methylation analysis of Illumina HumanMethylation450 array data.A systematic study of normalization methods for Infinium 450K methylation data using whole-genome bisulfite sequencing data.The Role of DNA Methylation in Cardiovascular Risk and Disease: Methodological Aspects, Study Design, and Data Analysis for Epidemiological Studies.seqlm: an MDL based method for identifying differentially methylated regions in high density methylation array data.An evaluation of processing methods for HumanMethylation450 BeadChip data Comparison of pre-processing methodologies for Illumina 450k methylation array data in familial analyses.TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages DNA Methylation Profiles of Blood Cells Are Distinct between Early-Onset Obese and Control Individuals.Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays Seminoma and embryonal carcinoma footprints identified by analysis of integrated genome-wide epigenetic and expression profiles of germ cell cancer cell lines Comprehensive mapping of the effects of azacitidine on DNA methylation, repressive/permissive histone marks and gene expression in primary cells from patients with MDS and MDS-related disease.DMRforPairs: identifying differentially methylated regions between unique samples using array based methylation profiles Using high-density DNA methylation arrays to profile copy number alterations.Dynamic imbalance between cancer cell subpopulations induced by transforming growth factor beta (TGF-β) is associated with a DNA methylome switch.Loss of DIP2C in RKO cells stimulates changes in DNA methylation and epithelial-mesenchymal transition Evaluation of microarray-based DNA methylation measurement using technical replicates: the Atherosclerosis Risk In Communities (ARIC) Study.Immortalization of T-cells is accompanied by gradual changes in CpG methylation resulting in a profile resembling a subset of T-cell leukemias.A comprehensive overview of Infinium HumanMethylation450 data processing Association of DNA methylation with age, gender, and smoking in an Arab population.An epigenetic map of age-associated autosomal loci in northern European families at high risk for the metabolic syndrome Pan-cancer stratification of solid human epithelial tumors and cancer cell lines reveals commonalities and tissue-specific features of the CpG island methylator phenotype Genome wide DNA methylation profiles provide clues to the origin and pathogenesis of germ cell tumors.Independent genomewide screens identify the tumor suppressor VTRNA2-1 as a human epiallele responsive to periconceptional environment Intra-Monozygotic Twin Pair Discordance and Longitudinal Variation of Whole-Genome Scale DNA Methylation in Adults.Epigenetic modifications of the glucocorticoid receptor gene are associated with the vulnerability to psychopathology in childhood maltreatment.

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An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform.

http://www.wikidata.org/entity/Q41313805

description

2013 nî lūn-bûn

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An evaluation of analysis pipe ...... hylation450 BeadChip platform.

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An evaluation of analysis pipe ...... hylation450 BeadChip platform.

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An evaluation of analysis pipe ...... hylation450 BeadChip platform.

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An evaluation of analysis pipe ...... hylation450 BeadChip platform.

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Andrew E Teschendorff

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Fredrik Fagerström-Billai

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Maja Jagodic

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Malin Almgren

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Sabrina Ruhrmann

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Tomas J Ekström

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P2860

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

Genome-scale DNA methylation maps of pluripotent and differentiated cells

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

Human DNA methylomes at base resolution show widespread epigenomic differences

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

DNMT3A Mutations in Acute Myeloid Leukemia

Capturing heterogeneity in gene expression studies by surrogate variable analysis

Epigenome-wide association studies for common human diseases

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

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

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3

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8

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David Gomez-Cabrero

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Maléne E Lindholm

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235669264

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23422812

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DNA methylation

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3669124

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