Cargando…

Identification of cell type-specific methylation signals in bulk whole genome bisulfite sequencing data

BACKGROUND: The traditional approach to studying the epigenetic mechanism CpG methylation in tissue samples is to identify regions of concordant differential methylation spanning multiple CpG sites (differentially methylated regions). Variation limited to single or small numbers of CpGs has been ass...

Descripción completa

Detalles Bibliográficos
Autores principales:	Scott, C. Anthony, Duryea, Jack D., MacKay, Harry, Baker, Maria S., Laritsky, Eleonora, Gunasekara, Chathura J., Coarfa, Cristian, Waterland, Robert A.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2020
Materias:	Research
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7329512/ https://www.ncbi.nlm.nih.gov/pubmed/32605651 http://dx.doi.org/10.1186/s13059-020-02065-5

Ejemplares similares

Comparison and quantitative verification of mapping algorithms for whole-genome bisulfite sequencing
por: Kunde-Ramamoorthy, Govindarajan, et al.
Publicado: (2014)

DNA methylation in AgRP neurons regulates voluntary exercise behavior in mice
por: MacKay, Harry, et al.
Publicado: (2019)

Systemic interindividual epigenetic variation in humans is associated with transposable elements and under strong genetic control
por: Gunasekara, Chathura J., et al.
Publicado: (2023)

A machine learning case–control classifier for schizophrenia based on DNA methylation in blood
por: Gunasekara, Chathura J., et al.
Publicado: (2021)

A genomic atlas of systemic interindividual epigenetic variation in humans
por: Gunasekara, Chathura J., et al.
Publicado: (2019)

Sex-specific epigenetic development in the mouse hypothalamic arcuate nucleus pinpoints human genomic regions associated with body mass index
por: MacKay, Harry, et al.
Publicado: (2022)

DNA methylation at a nutritionally sensitive region of the PAX8 gene is associated with thyroid volume and function in Gambian children
por: Candler, Toby, et al.
Publicado: (2021)

Efficiently quantifying DNA methylation for bulk- and single-cell bisulfite data
por: Fischer, Jonas, et al.
Publicado: (2023)

MethylStar: A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing data
por: Shahryary, Yadollah, et al.
Publicado: (2020)

Coverage recommendations for methylation analysis by whole genome bisulfite sequencing
por: Ziller, Michael J., et al.
Publicado: (2014)

Methylated DNA is over-represented in whole-genome bisulfite sequencing data
por: Ji, Lexiang, et al.
Publicado: (2014)

Beadchip technology to detect DNA methylation in mouse faithfully recapitulates whole-genome bisulfite sequencing
por: Martin, Elizabeth M, et al.
Publicado: (2023)

Amplification-free whole-genome bisulfite sequencing by post-bisulfite adaptor tagging
por: Miura, Fumihito, et al.
Publicado: (2012)

BSmooth: from whole genome bisulfite sequencing reads to differentially methylated regions
por: Hansen, Kasper D, et al.
Publicado: (2012)

Early postnatal overnutrition accelerates aging-associated epigenetic drift in pancreatic islets
por: Li, Ge, et al.
Publicado: (2019)

Identification and analysis of methylation call differences between bisulfite microarray and bisulfite sequencing data with statistical learning techniques
por: Döring, Matthias, et al.
Publicado: (2015)

MethylExtract: High-Quality methylation maps and SNV calling from whole genome bisulfite sequencing data
por: Barturen, Guillermo, et al.
Publicado: (2014)

Statistically robust methylation calling for whole-transcriptome bisulfite sequencing reveals distinct methylation patterns for mouse RNAs
por: Legrand, Carine, et al.
Publicado: (2017)

Detection of differentially methylated regions from whole-genome bisulfite sequencing data without replicates
por: Wu, Hao, et al.
Publicado: (2015)

Benchmarking DNA methylation analysis of 14 alignment algorithms for whole genome bisulfite sequencing in mammals
por: Gong, Wentao, et al.
Publicado: (2022)

Whole-genome bisulfite sequencing reveals the function of DNA methylation in the allotransplantation immunity of pearl oysters
por: Gu, Zefeng, et al.
Publicado: (2023)

RNA cytosine methylation analysis by bisulfite sequencing
por: Schaefer, Matthias, et al.
Publicado: (2009)

BSMAP: whole genome bisulfite sequence MAPping program
por: Xi, Yuanxin, et al.
Publicado: (2009)

Whole-genome bisulfite sequencing with improved accuracy and cost
por: Suzuki, Masako, et al.
Publicado: (2018)

Early Postnatal Nutrition Determines Adult Physical Activity and Energy Expenditure in Female Mice
por: Li, Ge, et al.
Publicado: (2013)

Meeting summary: the inaugural meeting of the US DOHaD society
por: MacKay, Harry, et al.
Publicado: (2017)

epiG: statistical inference and profiling of DNA methylation from whole-genome bisulfite sequencing data
por: Vincent, Martin, et al.
Publicado: (2017)

Epigenetic supersimilarity of monozygotic twin pairs
por: Van Baak, Timothy E., et al.
Publicado: (2018)

Library-free Methylation Sequencing with Bisulfite Padlock Probes
por: Diep, Dinh, et al.
Publicado: (2012)

Comparison of Bisulfite Pyrosequencing and Methylation-Specific qPCR for Methylation Assessment
por: De Chiara, Loretta, et al.
Publicado: (2020)

Data quality of whole genome bisulfite sequencing on Illumina platforms
por: Raine, Amanda, et al.
Publicado: (2018)

Identification of differentially methylated regions using streptavidin bisulfite ligand methylation enrichment (SuBLiME), a new method to enrich for methylated DNA prior to deep bisulfite genomic sequencing
por: Ross, Jason P., et al.
Publicado: (2013)

BoostMe accurately predicts DNA methylation values in whole-genome bisulfite sequencing of multiple human tissues
por: Zou, Luli S., et al.
Publicado: (2018)

Analysis of DNA methylation profiles during sheep skeletal muscle development using whole-genome bisulfite sequencing
por: Fan, Yixuan, et al.
Publicado: (2020)

Comprehensive benchmarking of software for mapping whole genome bisulfite data: from read alignment to DNA methylation analysis
por: Nunn, Adam, et al.
Publicado: (2021)

Analysis of DNA Methylation Profiles in Mandibular Condyle of Chicks With Crossed Beaks Using Whole-Genome Bisulfite Sequencing
por: Shi, Lei, et al.
Publicado: (2021)

Season of Conception in Rural Gambia Affects DNA Methylation at Putative Human Metastable Epialleles
por: Waterland, Robert A., et al.
Publicado: (2010)

MethylScore, a pipeline for accurate and context-aware identification of differentially methylated regions from population-scale plant whole-genome bisulfite sequencing data
por: Hüther, Patrick, et al.
Publicado: (2022)

Kismeth: Analyzer of plant methylation states through bisulfite sequencing
por: Gruntman, Eyal, et al.
Publicado: (2008)

Recovery of bisulfite-converted genomic sequences in the methylation-sensitive QPCR
por: Munson, Kristofer, et al.
Publicado: (2007)

Cannot write session to /tmp/vufind_sessions/sess_n6mkphup807ao175trhbqv95g5