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Chromatin Accessibility Sequencing Service

Background Services Features Q&As Resource

With world renowned expertise in cancer epigenomic researches, Creative Biolabs developed advanced epigenomic sequencing platforms to deep your understanding in oncology. Our scientists operates in state-of-the-art facilities to provide superior quality data to support your epigenomic studies.

Background

The whole genome is efficiently packaged as nucleosomes and high-order chromatin architecture. This structure prevents the binding of transcription factors, and other DNA-binding factors, leading to gene silencing. Transcription activation is highly associated with disruption of nucleosome organization through cis-acting DNA elements including enhancer, promoters, insulators and other chromatin-binding factors. Chromatin accessibility across the genome is actively and dynamically remodeled (see Fig.1) to regulate the gene expression and cell programming which is regulated by various cis-acting DNA elements. Therefore, studying the chromatin accessibility reveals the epigenomic mechanisms involved in specific cellular processes in healthy and diseased states.

Our Chromatin Accessibility Sequencing Service

Empowered by our advanced and innovative epigenomic platforms, our scientists developed chromatin accessibility sequencing services to measure the chromatin accessibility, explore the mechanism of transcription factors in accessibility remodeling, illustrate the role of chromatin accessibility in controlling regulatory DNA elements, and unravel the mechanism of gene expression regulation.

Fig.1 Different accessibility states reflect the distribution of chromatin dynamics across the genome. (Klemm, 2019)

To measure the chromatin accessibility, we provide different strategies to meet your specific requirements. Please reach out to our scientists for detailed communication about your program.

ATAC-seq (Assay for Transposase-accessible Chromatin Using Sequencing)

Relying on the transposase-mediated insertion of sequencing primers into specific chromatin regions, ATAC-seq can provide genome-wide profiles of accessible regions of chromatin. We offer this technology to help our clients profile the active regulatory regions of chromatin.

Fig.2 ATAC-seq principal to measure the chromatin accessibility. (Klemm, 2019)

DNase-seq (DNase I Hypersensitive Site Sequencing)

Using DNase to cleave DNA within accessible chromatin (the cleavage is greatly attenuated at the protein-binding location), accessible library fragments can be generated to evaluate the chromatin accessibility. We provide this traditional technology to advance your chromatin accessibility research.

Fig.3 DNase-seq principal to measure the chromatin accessibility. (Klemm, 2019)

MNase-seq (Micrococcal Nuclease Sequencing)

MNase-seq uses MNase to cleave and eliminate accessible DNA. We are dedicated to providing MNase-seq approach to measure the chromatin accessibility through the sensitivity to MNase digestion.

Fig.4 MNase-seq principal to measure the chromatin accessibility. (Klemm, 2019)

NOMe-seq ( Nucleosome Occupancy and Methylome Sequencing)

Chromatin accessibility is measured using a GpC methyltransferase. Accessible DNA is methylated and nonmethylated DNA is sequenced, providing a single-molecule measure of accessibility. With extensive expertise in epigenomic services and DNA sequencing services, Creative Biolabs is committed to providing the most accurate data about chromatin accessibility.

Fig.5 NOMe-seq principal to measure the chromatin accessibility. (Klemm, 2019)

Highlight Features

Superior data quality;
Dedicated Ph.D. scientists;
Comprehensive bioinformatics for chromatin accessibility;
Industry-leading turnaround time.

As a leading international partner of the scientific research institutes and biopharmaceutical companies, Creative Biolabs has accumulated extensive experiences in epigenomic sequencing services. We are dedicated to helping our clients advance the progress and accelerate the success of your programs. If you are interested in our services, please feel free to contact us.

References

Klemm, Sandy L., Zohar Shipony, and William J. Greenleaf. "Chromatin accessibility and the regulatory epigenome." Nature Reviews Genetics 20.4 (2019): 207-220.
Tsompana, Maria, and Michael J. Buck. "Chromatin accessibility: a window into the genome." Epigenetics & chromatin 7.1 (2014): 33.

Q&As

Q: What are the applications of chromatin accessibility sequencing in cancer research?

A: Applications include identifying regulatory elements, understanding tumor heterogeneity, discovering biomarkers, and studying the mechanisms of drug resistance. This information is vital for developing targeted therapies and improving cancer treatment strategies.

Q: What sample types are required for chromatin accessibility sequencing?

A: Common sample types include fresh, frozen, or cryopreserved cells, as well as frozen tissue samples. For single-cell ATAC-seq, a single nuclei suspension from fresh or frozen tissues is required.

Q: What is the role of bioinformatics in chromatin accessibility sequencing?

A: Bioinformatics is essential for processing and analyzing the large datasets generated by chromatin accessibility sequencing. It involves quality control, alignment, peak calling, motif analysis, and differential accessibility analysis to extract meaningful insights from the data.

Q: How does chromatin accessibility data complement other genomic data in cancer research?

A: Chromatin accessibility data complements genomic and transcriptomic data by providing insights into the regulatory mechanisms controlling gene expression. Integrating these datasets helps build a comprehensive understanding of cancer biology and supports the discovery of novel therapeutic targets.

Q: What are some challenges in chromatin accessibility sequencing?

A: Challenges include the need for high-quality starting material, the complexity of data analysis, and the requirement for advanced bioinformatics tools to interpret the results accurately. Additionally, single-cell chromatin accessibility studies require careful handling and processing of samples.