FFPE ChIP-Seq


Formalin-fixed, paraffin-embedded (FFPE) tissue stocks a large amount of biological information. This valuable preservation technique allows researchers to perform histological and even genetic analysis several years after collecting samples. To fully realize the potential of global histone modifications and transcription factor profiling for the progress in disease biology and clinical outcomes, it is necessary to generate profiles utilizing FFPE tissue samples. However, the introduction of extensive cross-linking during routine tissue fixation of clinical pathology specimens severely impedes chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-Seq) analysis from archived tissue samples. This limits the ability to study the epigenome of valuable, clinically annotated tissue resources. To address this limitation, the technical team of Creative BioMart has developed FFPE ChIP-Seq, which is able to reliably extract soluble chromatin from FFPE tissue samples for accurate detection of histone markers or transcription factors. This approach reveals the epigenome of the FFPE tissue samples and allows many previously impossible translation studies of chromatin status to be performed in archived clinical specimens.

Advantages of Choosing Creative BioMart

  1. Experienced, all-round custom service & tech support: with more than 10 years of experience in epigenetics research, our technical team provides state-of-art service throughout the project. We will tailor the solution to the specific situation and work closely with our customers to ensure the most satisfactory results.
  2. Flexible and one-stop service: Creative BioMart offers flexible and one-stop services to all your custom research needs. You only need to provide samples, and we will complete full FFPE ChIP-Seq experiment. We can provide free project consultation if you need it.
  3. Stringent quality control: full-scale monitoring of FFPE ChIP-Seq to ensure that customers receive reliable data. And we guarantee that more than 80% of bases with a ≥Q30 quality score, exceeding Illumina’s official guarantee of ≥ 75%.
  4. Professional data analysis: we have a professional technical team of bioinformatics analysis to provide you data analysis upon request.

Workflow of FFPE ChIP-Seq Service at Creative BioMart

Our FFPE ChIP-Seq service includes but not limited in tissue preparation (such as FFPE blocks, slides or sections), chromatin solubilization, immunoprecipitation using a specific histone modification or transcription factor antibody, library preparation, on-machine sequencing and data analysis. Creative BioMart stringently controls each step in the FFPE ChIP-Seq workflow to ensure access to reliable data quality.

Workflow of Formalin-fixed, paraffin-embedded (FFPE) tissue ChIP-Seq service at Creative BioMart

Figure 1. Workflow of FFPE ChIP-Seq service at Creative BioMart

At Creative BioMart, we provide you with high-quality sequencing and comprehensive bioinformatics analysis for your FFPE ChIP-Seq project, enabling accurately screen and determine the protein binding sites in the whole genome from FFPE tissue samples, thus ensuring the objectives are met and accelerate your epigenetic research. If you have any additional questions or requirements, please don’t hesitate to contact us.

Reference
1. Cejas P.; et al. Chromatin immunoprecipitation from fixed clinical tissues reveals tumor-specific enhancer profiles. Nature Medicine. 2016, 22(6): 685-691.

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