User: Jack

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Jack0
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Posts by Jack

<prev • 28 results • page 1 of 3 • next >
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Different results come from GO enrichment analysis with ENSEMBL ID and ENTREZID as keyTypes
... Dears, It makes no sense for me to have different GO enrichment results just because I changed the the type of Gene IDs. Can someone help me out by explaining the reason behind this problem? I got different results of GO enrichement analysis with different keyTypes using clusterprofiler. I used t ...
clusterprofiler functional enrichment go enrichment written 5 months ago by Jack0 • updated 5 months ago by Guangchuang Yu1.1k
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Comment: C: Representative gene expression value in one condition with several replicates
... Yes, you are right. I think it is good to hear your opinion. ...
written 16 months ago by Jack0
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Comment: C: Representative gene expression value in one condition with several replicates
... Thank you very much!! ...
written 16 months ago by Jack0
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Comment: C: Representative gene expression value in one condition with several replicates
... Thank you very much for you advice! ...
written 16 months ago by Jack0
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Representative gene expression value in one condition with several replicates
... Hi all, I want to know how to get a gene expression value for a condition with different replicates. For example, I have condition M and N, each condition with two replicates M1, M2, N1, N2 I want to get one value to represent the gene expression value (FPKM or TPM) of M, can I just use the mean ...
rnaseq edger gene expression written 16 months ago by Jack0 • updated 16 months ago by Gordon Smyth37k
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Comment: C: Strange distribution of logFC
... I wanted to simplify the codes, which made it worse, sorry about that... This is the code I rerun with no saved workspaces, without any changes. It creates the exact the same outputs. ...
written 17 months ago by Jack0
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Comment: C: Strange distribution of logFC
... Yes, I contructed PvsH, sorry about the negligence. This time it is right ...
written 17 months ago by Jack0
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Comment: C: Strange distribution of logFC
... Thank you for your reminding. The codes have been added in the question. ...
written 17 months ago by Jack0
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Strange distribution of logFC
... Dear all, I have RNAseq data of two groups. After doing differential gene expression using edgeR and DESeq2(the results are similar). I found the distribution of logFC is a little strange, having two peaks in the distribution. My guess would be that most genes are equally enriched in both goups, i ...
rnaseq edger deseq2 differential gene expression written 17 months ago by Jack0 • updated 17 months ago by Aaron Lun23k
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featureCounts in-built annotation doesn't match BioMart annotation?
... Hi all I first use the featureCounts in-build annotation (another post) and get the result. There are 20454 genes in the results list: a <- read.table(results_txt, head=TRUE) dim(a) [1] 20454 18 snapshot of the results Since in the featureCounts in-built annotation results, there are ...
rnaseq annotation biomart featurecounts written 18 months ago by Jack0 • updated 18 months ago by James W. MacDonald49k

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Supporter 19 months ago, voted at least 25 times.

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