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Bisulphite-sequencing of chromatin immunoprecipitated DNA (BisChiP-seq) directly informs methylation status

ABSTRACT: Bisulphite sequencing enables DNA methylation analysis of every cytosine residue. We have optimized conditions for combining chromatin immunoprecipation (ChIP) with high throughput bisulphite sequencing to study the relationship between histone modifications and DNA methylation.

ORGANISM(S): Homo sapiens

PROVIDER: GSE30558 | GEO | 2012/01/18

SECONDARY ACCESSION(S): PRJNA155495

REPOSITORIES: GEO

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Bisulphite-sequencing of chromatin immunoprecipitated DNA (BisChiP-seq) directly informs methylation status

Project description:Bisulphite sequencing enables DNA methylation analysis of every cytosine residue. We have optimized conditions for combining chromatin immunoprecipation (ChIP) with high throughput bisulphite sequencing to study the relationship between histone modifications and DNA methylation. Paired-end bisulphite sequencing of H3K27me3-ChIP DNA for LNCaP and PrEC cell lines

2012-01-18 | E-GEOD-30558 | biostudies-arrayexpress

Bisulphite-sequencing of chromatin immunoprecipitated DNA directly informs methylation status of histone-modified DNA

Project description:This SuperSeries is composed of the following subset Series: GSE30558: Bisulphite-sequencing of chromatin immunoprecipitated DNA (BisChiP-seq) directly informs methylation status GSE34340: Bisulphite sequencing of native LNCaP and PrEC DNA [methylation array] Refer to individual Series

2012-01-18 | E-GEOD-34403 | biostudies-arrayexpress

Bisulphite-sequencing of chromatin immunoprecipitated DNA directly informs methylation status of histone-modified DNA

Project description:This SuperSeries is composed of the SubSeries listed below.

2012-01-18 | GSE34403 | GEO

Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA.

Project description: Not available

| S-EPMC3371705 | biostudies-literature

DNA methylation during seed development in large-seeded chickpea

Project description:In this study, we performed bisulphite of five stages of seed development in a large-seeded chickpea cultivar (JGK 3) using Illumina platform. Paired-end reads were generated from 11 libraries. Data obtained in FASTQ files were pre-processed to remove adapters and low-quality reads. We identified methylation level at each cytosine residue covered in sequencing and differentially methylated regions (DMRs) between stages of seed development.

2020-07-13 | GSE131665 | GEO

DNA methylation during seed development in small-seeded chickpea

Project description:In this study, we performed bisulphite of two stages of seed development in a small-seeded chickpea cultivar (Himchana 1) using Illumina platform. Paired-end reads were generated from 5 libraries. Data obtained in FASTQ files were pre-processed to remove adapters and low-quality reads. We identified methylation level at each cytosine residue covered in sequencing and differentially methylated regions (DMRs) between stages of seed development.

2020-07-13 | GSE131669 | GEO

Splinted Ligation Adapter Tagging, a novel library preparation for whole genome bisulphite sequencing

Project description:Library preparation for whole genome bisulphite sequencing (WGBS) is challenging due to side effects of the bisulphite treatment, which leads to extensive DNA damage. Recently, a new generation of methods for bisulphite sequencing library preparation have been devised. They are based on initial bisulphite treatment of the DNA, followed by adaptor tagging of single stranded DNA fragments, and enable WGBS using low quantities of input DNA. In this study, we present a novel approach for quick and cost effective WGBS library preparation that is based on splinted adaptor tagging (SPLAT) of bisulphite-converted single-stranded DNA. Moreover, we validate SPLAT against three commercially available WGBS library preparation techniques, two of which are based on bisulphite treatment prior to adaptor tagging and one is a conventional WGBS method.

2016-10-27 | GSE89213 | GEO

Bisulphite MPN colonies

Project description:Swift kit whole genome bisulphite of MPN colonies

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Whole genome bisulphite sequencing using the Illumina X system [Infinium MethylationEPIC]

Project description:While Illumina X technology has helped to reduce the cost of whole genome sequencing substantially, its application for bisulphite sequencing is not straightforward. We describe the optimization of a library preparation and sequencing approach that maximizes the yield and quality of sequencing, and how to eliminate a previously unrecognized artefact affecting several percent of bisulphite sequencing reads.

2018-07-12 | GSE103498 | GEO

Whole genome bisulphite sequencing using the Illumina X system [ATAC-Seq]

2018-07-12 | GSE103301 | GEO

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