Hey All,
I have been trying to QC my user submitted ChIP-seq samples via Bioanalyzer. Multiple different PIs have submitted samples which have been supposedly IPed and yet the Bioanalyzer trace shows their material to all be around 1kb (making size selection at the end of the Illumina protocol at ~225bp unsuccessful).
One point of view that has been expressed is that incomplete removal of crosslinks would categorically prevent proper migration of the material, rendering Bioanalyzer inappropriate and unreliable for QCing the original submitted sample.
Does this make sense? Or is it more likely that the samples submitted were not fragmented to the right size?
Thanks
I have been trying to QC my user submitted ChIP-seq samples via Bioanalyzer. Multiple different PIs have submitted samples which have been supposedly IPed and yet the Bioanalyzer trace shows their material to all be around 1kb (making size selection at the end of the Illumina protocol at ~225bp unsuccessful).
One point of view that has been expressed is that incomplete removal of crosslinks would categorically prevent proper migration of the material, rendering Bioanalyzer inappropriate and unreliable for QCing the original submitted sample.
Does this make sense? Or is it more likely that the samples submitted were not fragmented to the right size?
Thanks
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