Diagenode

ChIP-seq Profiling service

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Catalog Number
Format
G02010000

Chromatin consists of DNA, histones and non-histone proteins. In forming chromatin, DNA is tightly wrapped around histones. Generally, DNA in more highly condensed chromatin is less accessible to transcription factors and other DNA binding proteins, which has consequences for gene expression. Understanding the roles of histones and transcription factors is critical in understanding the regulation of gene expression.

Using ChIP-seq analysis, it is possible to profile histone modifications and transcription factor binding genome-wide to understand the regulation of gene expression in disease or in response to a drug treatment. Diagenode’s Epigenomic Profiling Services offer a wide variety of chromatin analysis options through various ChIP-seq analyses.

Why Diagenode – 12 years of trust

  • Expertise and trust: Recognized epigenetics leader, official partner of BLUEPRINT, IHEC and FAANG
  • Innovative technology: We use the signature Bioruptor® sonication device for optimal chromatin and DNA shearing and IP-Star® Automation for unsurpassable reproducibility
  • Quality: Multiple QC steps and validated antibodies/reagents deliver superior epigenomics profiling data
  • Flexibility: Extensive range of sample species and sample origins
  • Experience in epigenomics profiling for a wide range of applications and fields of interest
Service offered Applications/techniques Standard analyses Additional analyses
ChIP-seq
  • Read filtering and trimming
  • Read specific alignment
  • Enrichment specific peak calling
  • QC metrics
  • Genomic annotation
  • Differentially bound sites (DBS)
  • Gene ontology terms analysis (GO)
  • Pathway analysis

  • Description

    What we give to you - ChIP-sequencing and ChIP-seq analysis

    • Integrative or individual analyses for chromatin with ENCODE standards
    • End-to-end wet lab service and full ChIP-seq analysis
    • Collaborative and customized project design to meet your needs
    • Dedicated in-house expert
    • Integrative epigenomics data analysis and presentation-ready graphs
    • Expert, extensive bioinformatics

    Chromatin shearing
    • Chromatin shearing using Bioruptor® technology
    • Isothermal chromatin shearing, preservation of epitopes
    • Homogeneous fragment size distribution
    • More than 3,000 Bioruptor citations in peer-reviewed publications
    Chromatin Immunoprecipitation
    • Choice of 200 ChIP & ChIP-Seq grade antibodies
    • Sample automation enables reproducibility
    • inputs from as little as 10,000 cells/IP
    • Optimized ChIP protocols maximize signal to noise ratio
    Library Preparation and Sequencing
    • Optimized library preparation for low amounts of DNA (50pg)
    • Minimal PCR amplification to reduce bias
    • Outstanding sequencing results (high coverage, low duplicates)
    • Rapid run available for shorter turnaround time
    Chromatin shearing
    • Chromatin shearing using Bioruptor® technology
    • Isothermal chromatin shearing, preservation of epitopes
    • Homogeneous fragment size distribution
    • More than 3,000 Bioruptor citations in peer-reviewed publications
    Chromatin Immunoprecipitation
    • Choice of 200 ChIP & ChIP-Seq grade antibodies
    • Sample automation enables reproducibility
    • inputs from as little as 10,000 cells/IP
    • Optimized ChIP protocols maximize signal to noise ratio
    Library Preparation and Sequencing
    • Optimized library preparation for low amounts of DNA (50pg)
    • Minimal PCR amplification to reduce bias
    • Outstanding sequencing results (high coverage, low duplicates)
    • Rapid run available for shorter turnaround time
  • Bioinformatic analysis

    Analysis

    Features

    Benefits

    Standard • Read filtering and trimming
    • Read specific alignment
    • Enrichment specific peak calling
    • QC metrics
    • Basis of all analysis
    • Clear and easy to understand
    • Instant evaluation of data set
    • Provides flexibility for your desired downstream analysis
    Comparative • Multi-sample cross-comparison
    • Comparison with reference
    • Differential peak calling with normalization
    • Best quality assessment using comparisons with highly reliable reference data sets
    • Multi-sample comparison allows decisive determination of similarities and differences (e.g. between healthy and tumor cells)
    Custom • Tailored to your project needs
    • Options include
    - Peak profiling
    - Pathway analysis
    - Visualization of regions of interest
    - Annotation - Custom graph (publication-ready)
    ...and much more
    • Your unique project gets its unique analysis
    • No need for your own bioinformatician
    • Our expert consultation and analysis is customized for your project
    • You name your requirements -- we deliver!
  • Applications
    Histone ChIP-seq services
    Use our services to explore ChIP-seq histone modifications down to 10,000 cellsPost-translational modification of histones regulates gene expression. With our Epigenomic Profiling Services, study regulatory elements and their interacting proteins ... Read more
    Transcription factor ChIP-seq services
    Explore the effects of transcription factor binding through ChIP-seq analysis of a multitude of TFs including:CTCF: transcriptional repressor and insulator activityp300/CBP: histone acetyltransferasePol II, p53, and moreEpigenetic writers, readers... Read more
    Custom NGS services
    Low input libraries from picogramsSpecific analysesComplete customized projects Read more
  • Documents
    The Diagenode Epigenetics custom service POSTER
    Complete workflows for genome-scale DNA methylation and histone marks analysis Epigenetics is cr...
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  • Publications

    How to properly cite this product in your work

    Diagenode strongly recommends using this: ChIP-seq Profiling service (Diagenode Cat# G02010000). Click here to copy to clipboard.

    Using our products in your publication? Let us know!

    The epigenetic architecture at gene promoters determines cell type-specific LPS tolerance
    Kerstin Klein , Mojca Frank-Bertoncelj , Emmanuel Karouzakis , Renate E. Gay , Christoph Kolling , Adrian Ciurea , Nagihan Bostanci , Georgios N. Belibasakis , Lih-Ling Lin , Oliver Distler , Steffen Gay , Caroline Ospelt
    Synovial fibroblasts (SF) drive inflammation and joint destruction in chronic arthritis. Here we show that SF possess a distinct type of LPS tolerance compared to macrophages and other types of fibroblasts. In SF and dermal fibroblasts, genes that were non-tolerizable after repeated LPS stimulation included proinfla...

    PPARγ Links BMP2 and TGFβ1 Pathways in Vascular Smooth Muscle Cells, Regulating Cell Proliferation and Glucose Metabolism
    Laurent Calvier, Philippe Chouvarine, Ekaterina Legchenko, Nadine Hoffmann, Jonas Geldner, Paul Borchert, Danny Jonigk, Miklos M. Mozes, Georg Hansmann
    BMP2 and TGFβ1 are functional antagonists of pathological remodeling in the arteries, heart, and lung; however, the mechanisms in VSMCs, and their disturbance in pulmonary arterial hypertension (PAH), are unclear. We found a pro-proliferative TGFβ1-Stat3-FoxO1 axis in VSMCs, and PPARγ as in...

    Epigenetically-driven anatomical diversity of synovial fibroblasts guides joint-specific fibroblast functions
    Mojca Frank-Bertoncelj, Michelle Trenkmann, Kerstin Klein, Emmanuel Karouzakis, Hubert Rehrauer, Anna Bratus, Christoph Kolling, Maria Armaka, Andrew Filer, Beat Michel, Renate E. Gay, Christopher D. Buckley, George Kollias, Steffen Gay & Caroline Ospelt
    A number of human diseases, such as arthritis and atherosclerosis, include characteristic pathology in specific anatomical locations. Here we show transcriptomic differences in synovial fibroblasts from different joint locations and that HOX gene signatures reflect the joint-specific origins of mouse and human synov...

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