Question: Does bisulfite sequencing need higher sequencing depth than regular genomic sequencing?
gravatar for Qingyang Xiao
2.1 years ago by
Qingyang Xiao130
Qingyang Xiao130 wrote:

Hello! What's the biggest differences between bisulfite sequencing and regular genomic sequencing?

Is it higher depth for BS-sequencing is nessary to identify methylation signature than other kinds of genotyping?

For the bisulfite treatment, I it will reduce the DNA sequence complexity. Apart from this, are there some other trick points in this library preparation(steps/techniques) than other regular genomic libraries?

Personally, short clear answers in one or two sentences are preferred. And bomb me with the links. Wish you all guys have a nice weekend.

sequencing snp next-gen genome • 483 views
ADD COMMENTlink modified 2.1 years ago by Chris Miller21k • written 2.1 years ago by Qingyang Xiao130
gravatar for Chris Miller
2.1 years ago by
Chris Miller21k
Washington University in St. Louis, MO
Chris Miller21k wrote:

It depends on your experimental design and what information you hope to retrieve.

That said, if anything, lower coverage is needed. 2-3x gives reasonable results when you leverage the fact that the methylation of nearby CpGs are heavily correlated. 10x gives really nice CpG-level resolution across the genome.

Choose your bisulfite read aligner carefully - some are much better than others.

ADD COMMENTlink written 2.1 years ago by Chris Miller21k
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