Cargando…

Between-array normalization for 450K data

The Illumina Infinium HumanMethylation450 BeadChip is frequently used in epigenetic research. Besides quantile normalization there is currently no standard method to normalize the data between arrays. We describe some properties of the data generated by this platform and present a normalization meth...

Descripción completa

Detalles Bibliográficos
Autores principales:	Heiss, Jonathan A., Brenner, Hermann
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Frontiers Media S.A. 2015
Materias:	Genetics
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4354407/ https://www.ncbi.nlm.nih.gov/pubmed/25806048 http://dx.doi.org/10.3389/fgene.2015.00092

Ejemplares similares

On the Analysis of the Illumina 450k Array Data: Probes Ambiguously Mapped to the Human Genome
por: Zhang, Xu, et al.
Publicado: (2012)

Functional normalization of 450k methylation array data improves replication in large cancer studies
por: Fortin, Jean-Philippe, et al.
Publicado: (2014)

PRECISION.array: An R Package for Benchmarking microRNA Array Data Normalization in the Context of Sample Classification
por: Huang, Huei-Chung, et al.
Publicado: (2022)

A data-driven approach to preprocessing Illumina 450K methylation array data
por: Pidsley, Ruth, et al.
Publicado: (2013)

Stratified randomization controls better for batch effects in 450K methylation analysis: a cautionary tale
por: Buhule, Olive D., et al.
Publicado: (2014)

MGMIN: A Normalization Method for Correcting Probe Design Bias in Illumina Infinium HumanMethylation450 BeadChips
por: Wang, Zhenxing, et al.
Publicado: (2020)

Phylogenetic analysis of the cytochrome P450 (CYP450) nucleotide sequences of the horse and predicted CYP450s of the white rhinoceros (Ceratotherium simum) and other mammalian species
por: Leiberich, Marion, et al.
Publicado: (2018)

Comparison of Data Normalization Strategies for Array-Based MicroRNA Profiling Experiments and Identification and Validation of Circulating MicroRNAs as Endogenous Controls in Hypertension
por: Chekka, Lakshmi Manasa S., et al.
Publicado: (2022)

Comparison of pre-processing methodologies for Illumina 450k methylation array data in familial analyses
por: Cazaly, Emma, et al.
Publicado: (2016)

CopyNumber450kCancer: baseline correction for accurate copy number calling from the 450k methylation array
por: Marzouka, Nour-al-dain, et al.
Publicado: (2016)

Associations Between Genetic Data and Quantitative Assessment of Normal Facial Asymmetry
por: Rolfe, Sara, et al.
Publicado: (2018)

Determination of Zygosity in Adult Chinese Twins Using the 450K Methylation Array versus Questionnaire Data
por: Wang, Biqi, et al.
Publicado: (2015)

Genome-Wide Detection of CNVs and Association With Body Weight in Sheep Based on 600K SNP Arrays
por: Wang, Zhipeng, et al.
Publicado: (2020)

Development of a High-Density 665 K SNP Array for Rainbow Trout Genome-Wide Genotyping
por: Bernard, Maria, et al.
Publicado: (2022)

Infinium Monkeys: Infinium 450K Array for the Cynomolgus macaque (Macaca fascicularis)
por: Ong, Mei-Lyn, et al.
Publicado: (2014)

Comparison of Clustering Methods for Investigation of Genome-Wide Methylation Array Data
por: Clifford, Harry, et al.
Publicado: (2011)

Development and Validation of 58K SNP-Array and High-Density Linkage Map in Nile Tilapia (O. niloticus)
por: Joshi, Rajesh, et al.
Publicado: (2018)

Polymorphism in Cytochrome P450 3A4 Is Ethnicity Related
por: Guttman, Yelena, et al.
Publicado: (2019)

Comparison of Genotype Imputation for SNP Array and Low-Coverage Whole-Genome Sequencing Data
por: Deng, Tianyu, et al.
Publicado: (2022)

Correlation of Infinium HumanMethylation450K and MethylationEPIC BeadChip arrays in cartilage
por: Cheung, Kathleen, et al.
Publicado: (2019)

Clinical Implications of Combinatorial Pharmacogenomic Tests Based on Cytochrome P450 Variant Selection
por: Sayer, Michael, et al.
Publicado: (2021)

Valine-Induced Isoleucine Starvation in Escherichia coli K-12 Studied by Spike-In Normalized RNA Sequencing
por: Gummesson, Bertil, et al.
Publicado: (2020)

Exploring the optimal strategy of imputation from SNP array to whole-genome sequencing data in farm animals
por: Jiang, Yifan, et al.
Publicado: (2022)

shinyMethyl: interactive quality control of Illumina 450k DNA methylation arrays in R
por: Fortin, Jean-Philippe, et al.
Publicado: (2014)

SWAN: Subset-quantile Within Array Normalization for Illumina Infinium HumanMethylation450 BeadChips
por: Maksimovic, Jovana, et al.
Publicado: (2012)

Normalization Methods on Single-Cell RNA-seq Data: An Empirical Survey
por: Lytal, Nicholas, et al.
Publicado: (2020)

A systematic study of normalization methods for Infinium 450K methylation data using whole-genome bisulfite sequencing data
por: Wang, Ting, et al.
Publicado: (2015)

Analysis pipelines and packages for Infinium HumanMethylation450 BeadChip (450k) data
por: Morris, Tiffany J., et al.
Publicado: (2015)

Pharmacogenomics of Cytochrome P450 3A4: Recent Progress Toward the “Missing Heritability” Problem
por: Klein, Kathrin, et al.
Publicado: (2013)

Design and Use of Multiplexed Chemostat Arrays
por: Miller, Aaron W., et al.
Publicado: (2013)

Evaluation of calling algorithms for array-CGH
por: Roy, Siddharth, et al.
Publicado: (2013)

Construction of a novel Wheat 55 K SNP array-derived genetic map and its utilization in QTL mapping for grain yield and quality related traits
por: Fan, Xiaoli, et al.
Publicado: (2022)

Pan-Cancer Analysis of TCGA Data Revealed Promising Reference Genes for qPCR Normalization
por: Krasnov, George S., et al.
Publicado: (2019)

Pharmacogenetics of Praziquantel Metabolism: Evaluating the Cytochrome P450 Genes of Zimbabwean Patients During a Schistosomiasis Treatment
por: Zdesenko, Grace, et al.
Publicado: (2022)

An empirically driven data reduction method on the human 450K methylation array to remove tissue specific non-variable CpGs
por: Edgar, Rachel D., et al.
Publicado: (2017)

D3K: The Dissimilarity-Density-Dynamic Radius K-means Clustering Algorithm for scRNA-Seq Data
por: Liu, Guoyun, et al.
Publicado: (2022)

Quantitative cross-validation and content analysis of the 450k DNA methylation array from Illumina, Inc.
por: Roessler, Jessica, et al.
Publicado: (2012)

Identification and systematic annotation of tissue-specific differentially methylated regions using the Illumina 450k array
por: Slieker, Roderick C, et al.
Publicado: (2013)

Agreement in DNA methylation levels from the Illumina 450K array across batches, tissues, and time
por: Forest, Marie, et al.
Publicado: (2018)

Spatial normalization of array-CGH data
por: Neuvial, Pierre, et al.
Publicado: (2006)

Cannot write session to /tmp/vufind_sessions/sess_m6dm7s84vvp72iges64tna2p3j