Question: lncRNA target interaction prediction
gravatar for nazaninhoseinkhan
15 months ago by
Iran, Islamic Republic Of
nazaninhoseinkhan190 wrote:

Dear all,

As a part of a project I tried to find out if there is any interaction between a list of mRNAs and a list of lncRNAs.

The list of my lncRNAs has been obtained from a microarray platform (GSE58828).

In this platform like other lncRNA platforms, the names of lncRNAs is some thing like: ASHG19A3A045113.

Moreover I have only the sequence of the 60nt probes used in microarray.

My first question is: How can I get the gene symbol for my lncRNAs from their IDs?

and is it possible that I check the interaction of these 60nt probes with my mRNAs instead of total length of lncRNAs?

If yes, what cutoff should I apply on "normalized detaG"? is <= -0.2 is reasonable?

I will appreciate any help in advance



target lncrna deltag • 1.2k views
ADD COMMENTlink written 15 months ago by nazaninhoseinkhan190
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