Message-ID: <CAGxFJbS5n1KgPSinvfi6_zYLPkPOHmqT9o7qeghOTvFTjWkkzg@mail.gmail.com>
Date: 2017-01-11T22:38:10Z
From: Bert Gunter
Subject: co-expression network of coding-noncoding genes
In-Reply-To: <614878929.2220375.1484172880081@mail.yahoo.com>
Wrong list.
Post on the Bioconductor list.
-- Bert
On Jan 11, 2017 5:15 PM, "Elham - via R-help" <r-help at r-project.org> wrote:
hello all,
I have 9 experiments (human RNAseq data (control/treatment)),I did RNAseq
analysis by CLC genomics,after normalization I calculated correlation, I
have many pairs of coding and lncoding molecules that correlate according
to their expression,I filtered them (> 0.9 and < -0.9). Additionally, I've
considered the pairs that have p-values < 0.001,but they are many pairs yet.
now for more filtering I want to consider the pairs of coding-non coding,
which are both deferentially expressed.
how can I have DE for all treated vs all controls samples for coding and DE
for all treated vs all controls samples for noncoding?
I should say that each experiment is effect of one drug on one cancer
(drugs and cancers are different in each experiment ) but the platform is
similar and all of them are Illumina HiSeq 2000 (Homo sapiens)
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