Diagenode

WGBS service (Whole Genome Bisulfite Sequencing)

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  •  描述
  •  文档
  •  相关
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目录号
格式
G02040000

Whole-genome bisulfite sequencing (WGBS) is the most comprehensive next generation sequencing  for DNA methylation profiling, allowing single-base resolution of 5-mC within the whole genome. By comparing treated and untreated sequences, the location of the methylated cytosines are determined.

Highest coverage for DNA methylation studies

  • Genome-wide screening for DNA methylation and single-base resolution
  • High coverage for 5-mC in low density and repeat regions
  • Dedicated scientist drives each project with high touch communication

  • Comprehensive service – Bisulfite conversion, library preparation, sequencing, and analysis

  • Description

    WGBS Service includes:

    QC of the genomic DNA

    • Measurement of DNA concentration
    • Assessment of DNA quality

    Library Preparation

    WGBS

    • gDNA shearing on Bioruptor Pico (not necessary for cfDNA or FFPE)
    • Bisulfite conversion
    • Library preparation
    • QC of the WGBS libraries (DNA concentration, analysis of the profile)
    EM-seq
    • gDNA shearing on Bioruptor Pico (not necessary for cfDNA or FFPE)
    • Library preparation with Enzymatic conversion
    • QC of EM-seq libraries (DNA concentration, analysis of the profile)

    Deep sequencing

    • Samples are sequenced on Illumina platform, paired-end reads of 150bp length (PE150)  
    • 400M raw reads on average per samples (when pooling 6 samples/lane)
    • Theoretical Coverage >30X for human, mouse and rat samples
    • Detection of >50 million CpGs with 6-9X average CpG coverage for human samples 
  • Bioinformatic analysis

    Analysis

    Features

    Standard
    • FASTQ raw data
    • FASTQC quality control insights
    • Alignment of bisulfite sequencing data against reference genome
    • Methylation calling and extraction
    • Summary statistics
    Differential methylation analysis
    • Methylation level analysis
    • Differentially methylated CpGs (DMCs) analysis
    • Differentially methylated regions (DMRs) analysis
    • Annotation of DMCs and DMRs for genomic regions (exons, introns, …) and for CpG island locations (islands, shores, shelves, ...)
    • Clustering analysis

    Gene ontology terms analysis

    • Enrichment analysis on gene associated with DMCs and DMRs
    • Get functional insights

    Pathway analysis

    • Identification of biological pathways in which genes associated with DMCs and DMRs may be over-represented (or under-represented)
    • Get mechanistic insights

    Data mining

    • Biomarker discovery
    • Determination of methylation pattern/signature that can be predictive and discriminate between different groups/conditions

  •  文档
    Epigenomics Profiling Services FLYER
    Chromatin analysis DNA methylation services RNA-seq analysis
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  •  出版物

    How to properly cite this product in your work

    Diagenode strongly recommends using this: WGBS service (Whole Genome Bisulfite Sequencing) (Diagenode Cat# G02040000). Click here to copy to clipboard.

    Using our products in your publication? Let us know!

    Development and epigenetic plasticity of murine Müller glia.
    Dvoriantchikova G, Seemungal RJ, Ivanov D
    The ability to regenerate the entire retina and restore lost sight after injury is found in some species and relies mostly on the epigenetic plasticity of Müller glia. To understand the role of mammalian Müller glia as a source of progenitors for retinal regeneration, we investigated changes in gene expres...

    The epigenetic basis for the impaired ability of adult murine retinal pigment epithelium cells to regenerate retinal tissue.
    Dvoriantchikova G, Seemungal RJ, Ivanov D
    The epigenetic plasticity of amphibian retinal pigment epithelium (RPE) allows them to regenerate the entire retina, a trait known to be absent in mammals. In this study, we investigated the epigenetic plasticity of adult murine RPE to identify possible mechanisms that prevent mammalian RPE from regenerating retinal...

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