For single CpG site, what may cause the partial methylation/intermediate methylation in BS-seq data?
What I know are:
- allelic methylation difference in diploid cell.
- sequencing/bisulfite error (after trim lower quality bps, filter out low bisulfite conversion rate reads)
- Inter-cell variation for mix cells sample.
- inter-cell variation even for a single cell type (Suggested by Devon Ryan)
Is there any thoughts about how to distinguish each type? And is there any literature about this topic?
Thanks
Thanks for your reply. The stochastic nature of biology is the charming part, right? I am from CS background, just want to get some biological ideas for this topic.
Yeah, it's both charming and under appreciated.