WGBS Annotation Related
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2.1 years ago

Hello

I have a list of differentially methylated CpGs. I just want to upload or paste these coordinates in browser like UCSC etc to get gene name corresponding to these. I just have coordinates of these, not any identifier.

Is there any direct method, so that I will get gene names as output when I put coordinate as input..

My file looks like this

chr start   end strand  pvalue  qvalue  meth.diff
chr3    17839   17839   +   1.30E-08    1.00E-07    32.7554577141809
chr3    19841   19841   +   2.30E-12    2.63E-11    -25.5849232744034
chr3    21413   21413   +   2.63E-17    4.46E-16    -35.064886911383
chr3    22096   22096   +   2.25E-18    4.11E-17    -29.4962402436703
chr3    22097   22097   +   1.86E-09    1.58E-08    -38.936764170409
next-gen sequencing • 321 views
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Intersect with bed file from UCSC.

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