Question: Lgrc Dataset
0
gravatar for dutta.tridib
7.6 years ago by
dutta.tridib0 wrote:

Hello, I am very new to this area/field of study and my background is not biology. But I need to download data from LGRC database which contains data regarding DNA methylation (charm normalized ? a term unknown to me ). The matrix of data I am looking is a matrix whose rows are methylation values of genes and columns are from patients (with COPD, ILD or CLTR).

Is there a tool / script available which will extract these information from LGRC database ? Any help regarding this would be greatly appreciated.

Thanks

dataset • 1.7k views
ADD COMMENTlink written 7.6 years ago by dutta.tridib0

Does the data portal introduction video help? https://www.lung-genomics.org/auth/login?service=https%3a%2f%2fwww.lung-genomics.org%2fresearch%2f If that doesn't help, sometimes you can email the db maintainers & ask for more information about their data structure -- it may help you parse it.

Also, CHARM is an R package. http://www.biostars.org/post/show/11293/identify-differentially-methylated-regions-from-medip-tiling-array-data/

http://www.biostat.jhsph.edu/~maryee/charm/

ADD REPLYlink modified 7.6 years ago • written 7.6 years ago by Alex Paciorkowski3.3k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1926 users visited in the last hour