module membership p-value cutoff

Dear all,

I have run WGCNA and I got 10 distinct modules.

I want to know if I should apply a filter on module membership p-values (for example p-values <=0.5) before further analysis?

What about k_module score? Do I have to filter genes in each module based on k_module score?

I will appreciate any help in advance.

Regards

Nazanin Hosseinkhan

wgcna module membership p-value cutoff

• 2,527 views • link

updated 5.5 years ago by Biostar

• written 8.9 years ago by nazaninhoseinkhan

• 0 views • link

written 8.9 years ago by Kevin Blighe

0 answers

No answers yet.

More posts like this

WGCNA hub genes VS. DEG
written 3.4 years ago by Penny •

Hi Im a newbie in Bioinfo field. I am now doing WGCNA and DEG on RNA-seq data. I was wondering if DE genes should be …
Can a pathogenic mutation results in the up-regulation of a gene?
written 4.2 years ago by nazaninhoseinkhan

Dear all, I have a basic question. I found a pathogenic mutation in a cancer gene and I expected to see a decreased expression (down-regulation). …
problem in interpretation of Gistic copy number analysis
written 7.8 years ago by nazaninhoseinkhan

Dear all, I want to filter the final results of Gistic program. Strangely all aberrations have G-scores=0, however large number of aberrations have significant q-values …
no significant FDR in gene enrichment analysis
written 8.0 years ago by nazaninhoseinkhan

Dear all, I have a large list of DEGs (around 400). However when I tried to do pathway enrichment analysis using DAVID, PANTHER or Enrichr, …
removing outliers before running DESeq2
written 8.0 years ago by nazaninhoseinkhan

Dear all, After running DESeq2 program successfully I found out that I had to detect and remove outliers from my htseq count datasets before running …
StringTie error: list index out of range
written 8.5 years ago by nazaninhoseinkhan

Dear all, I am trying to run StringTie on a aligned RNASeq data. However it ends with this error: ***"Fatal error: Exit code 1 () …
Is it correct to consider the genes of grey module resulted from consensus network analysis (WGCNA)…
written 8.6 years ago by nazaninhoseinkhan

Dear all, I have pre and post treatment microarray samples. I performed differential expression analysis to find list of differential expressed genes. In parallel I …
lncRNA target identification
written 9.9 years ago by nazaninhoseinkhan

Dear all, I am trying to find out if any of my lncRNA sets (278) can interact with my candidate gene sets (28). I have …
WGCNA module membership cutoff
written 10.8 years ago by nazaninhoseinkhan

Dear all, It is my first time to work with WGCNA to investigate and compare co-expression networks of two organisms. I want to use a …
Getting Information From Go
written 12.6 years ago by nazaninhoseinkhan

<p>Dear all, I need to construct functional categories of about 5000 genes using GO database. Is any program already available to do this task for …