Epigenome Sequencing

Bulk ATAC-Seq

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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 also, for identification of biomarkers and therapeutic oncology targets.

Due to the versatility of this technique, it is noteworthy to mention that 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.

Workflow for Bulk ATAC-seq Analysis:

Stringent Quality Controls –

SeqMatic qualifies RNA with a TapeStation Electropherogram for each RNA sample submitted. TapeStation analysis includes RNA Integrity Number (RIN) and DV200 for each sample. Results are shared for review and approval prior to proceeding to library preparation.

Scientific considerations for read depth –

SeqMatic recommends a read depth of 25-30M reads per sample for standard transcriptome analysis. Higher and lower read depths are available depending on model organism requirements and/or project needs.

Preliminary Sequencing –

After library preparation, SeqMatic prepared libraries are pooled to customer requirements and the final QC is checked via preliminary sequencing (MiSeq). Libraries are then normalized and re-pooled based on the read count from the preliminary sequencing dataset.

World-class validation standard & practices –

SeqMatic is equipped to ensure accurate, repeatable and reproducible results. SeqMatic’s quality program has been audited and approved as part of becoming a Clinical Laboratory Improvement Amendments (CLIA) and College of American Pathologists (CAP) certified sequencing facility. Our CLIA quality program requires the use of well-defined protocols to maintain the consistency and reproducibility of our NGS workflows. Thus, the samples will be processed in a CLIA environment.

Custom assay services –

Our highly personalized sequencing services can be adapted to almost any (high and/or low throughput) sequencing workflow required by our customers so that we optimize the quality and quantity of data output.

Service Highlights for Bulk mRNA Sequencing

Comprehensive Services

RNA workflow services include extraction from virtually any source, library generation, sequencing, and a full suite of bioinformatics support.

Expert Volume Handling

From small projects with a few samples or low input to large scale high-throughput projects

Prepared Libraries From Difficult Samples

We have experience working with low input, archival, non-model organisms, FFPE, etc.

Wide Range of Sample Types

Human, animal, plant, fish, bacteria, yeast, viruses, environmental material, etc.

Bioinformatics

Full suite of custom analytic pipelines available for individual project needs, including support for non-model organisms
Comprehensive differential expression report available as part of SeqMatic’s standard bioinformatics pipeline