Question: Is is possible to find "SureSelectXT Human Methyl-Seq Capture Library" somewhere?
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gravatar for daisy.ko
13 months ago by
daisy.ko30
daisy.ko30 wrote:

I am new will dealing with the SSMethylSeq data and when I want to further analyse a sample, I found that different from other samples which the sequenced fragments were targeted at the bottom strand, that sample have a quite large number of reads from the top strand. Just shown as below:

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:       5495873 ((converted) top strand)
GA/CT/CT:       0       (complementary to (converted) top strand)
GA/CT/GA:       0       (complementary to (converted) bottom strand)
CT/GA/GA:       11278214        ((converted) bottom strand)

I think it is really unusual for SSMethylSeq data as the data should be "biased" to the bottom strand so I want to check with the targeted CpG sites for the SSMethylSeq. However, all the things I can find it that SSMethylSeq is targeting at "over 3.7 million individual CpG dinucleotide sequences for their methylation state". I would like to know whether there is a full list for the CpG sites/ sequences this protocol targeted at. Thank you very much!! :)

ADD COMMENTlink modified 12 months ago by Biostar ♦♦ 20 • written 13 months ago by daisy.ko30
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