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I have performed PCR validation of an ATAC-seq library targeting known/expected accessible chromatin regions (100bp) but 90% of the products have a smearing banding pattern. Do you perhaps know what could cause this? Could this be inherent to an ATAC-seq library considering that the template is not just one length size but varying lengths?
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Last edited by MzwaneleN; 10-09-2020, 02:12 PM.
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I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.
Here are nine questions we think about, in roughly the order they matter, before...06-18-2026, 07:11 AM -
Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.
The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
...06-02-2026, 10:05 AM