The key to a successful project is starting with high quality samples. Depending on the experiment and application (DNA methylation or chromatin analyses), investigators will submit DNA or tissues/cells.
Below are our requirements for genomic DNA. For any questions about DNA preparation, please email email@example.com
For all methylation assays we require high-quality genomic DNA:
- 260 / 280 = 1.8 - 2.0
- 260 / 230 > 2
DNA specifications for each assay are reported in table below.
The Gene Profile Shared Resources (GPSR) is a great resource that supports DNA extractions and/or QA here at OHSU. The team at the GPSR works closely with our team to obtain high quality DNA suitable for our assays. DNA specifications for each DNA methylation assay are reported in the table below.
ChIP-seq, ATAC-seq, and Hi-C experiments start from tissues or cells. The sample requirements are dependent on the assay to be performed. Please contact firstname.lastname@example.org before preparing your samples.
|Assay||Recommended DNA Input Range||Minimum concentration||Maximum concentration||Species Restriction||FFPE Compatible|
|Whole Genome Bisulfite Sequencing||2-50 ng||1 ng/ul||100 ng/ul||None||Yes|
|Reduced Representation Bisulfite Sequencing||100-300 ng||15 ng/ul||100 ng/ul||None||Yes|
|TruSeq Methyl Capture EPIC Sequencing||600-1,000ng||11 ng/ul||100 ng/ul||Human||No|
|Enzymatic Methyl Sequencing||20-200 ng||1 ng/ul||100 ng/ul||None||Yes|
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