Bulk ATAC-Seq Analysis Services
Gene regulation and chromatin structure across the genome
Bulk ATAC-seq is a versatile technique that has contributed significantly to the understanding of gene regulation and chromatin structure across the genome. SeqMatic offers cost-efficient bulk ATAC-seq analysis services for comparative studies of chromatin states between conditions, gene regulation for changing chromatin accessibility during development and identification of biomarkers and therapeutic oncology targets.
The use of bulk ATAC-seq analysis services versus single cell ATAC-seq services depends on several factors, including your experimental design, the biological question you want to resolve, and your assigned budget considerations.
(A) Schematic of Library preparation
(B) Visual of transposition results in fragmented DNA. Adapters have to be completed with a 72°C extension step prior to amplification. Then, during PCR, additional sequence is incorporated into the adapters (including common sequencing ends and a sequencing barcode).
At SeqMatic, bioinformatic analysis services of bulk ATAC-seq applications include:
- Nucleosome mapping for identification of nucleosome positions and occupancy across the genome.
- Transcription factor binding analysis to enable the identification of transcription factor binding sites and the study of their role in gene regulation.
- Novel enhancer identification to study enhancer’s role in gene expression.
- Exploration of disease-relevant regulatory mechanisms to understand the role of chromatin accessibility in complex diseases.
- Cell type-specific regulation analysis to provide insights into cell type-specific regulatory mechanisms.
- Evolutionary studies to understand the evolution of chromatin accessibility across different species.
- Comparative epigenomics to compare profiles between different cell types or conditions.
- Biomarker discovery to identify potential biomarkers associated with specific diseases or conditions
If your research goals is to get insights about cell lines or tissues composed of a single cell type, bulk ATAC-seq is a good choice. It helps measure chromatin accessibility in cell populations with a high degree of homogeneity.
We can process full workflows or accept your tissue, cells, fresh/frozen nuclei for library preparation or your prepared libraries for sequencing.
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- Elizaldi, Sonny R., et al. “CCR7+ CD4 T Cell Immunosurveillance Disrupted in Chronic SIV-Induced Neuroinflammation in Rhesus Brain.” bioRxiv (2023): 2023-08.
- Mich, John K., et al. “Functional enhancer elements drive subclass-selective expression from mouse to primate neocortex.” Cell reports 34.13 (2021).
- Cambier, Linda, et al. “Extracellular vesicle-associated repetitive element DNAs as candidate osteosarcoma biomarkers.” Scientific Reports 11.1 (2021): 94.
- Rajan, Saravanan, et al. “Recombinant human B cell repertoires enable screening for rare, specific, and natively paired antibodies.” Communications Biology 1.1 (2018): 5.
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