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Comparing RNAseq expressions in cancer cell lines to patient population in order to pick cell lines to work with

cancer cell lines tcga written 19 months ago by shaban.hiba8 • 10 • updated 19 months ago by ATpoint ♦ 40k

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CCLE normalized/processed RNA-seq data

cancer cell lines rna-seq written 5.6 years ago by BIOTIN • 50 • updated 2.4 years ago by Biostar ♦♦ 20

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gene expression from CCLE, GDSC, CTRP: independent repeats or data merge?

cancer cell lines ccle gdsc1000 written 3.4 years ago by SamGG • 20

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How to get the differentially expressed genes in cancer cell lines

cancer cell lines differentially expressed genes written 5.4 years ago by liuyang • 20 • updated 5.4 years ago by Jautis • 290

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Recent Replies

C: Questions about the Getting-started of wtdbg2 by boymin2020 • 20
Thanks, h, your answer helped me a lot.
C: Access metadata in GEO expression datasets by svp • 240
Your data is shared between two platforms [GPL5175][1] [GPL5188][2] You can download it manually...
C: Is it possible to estimate the proportion of contamination from GC contents ? by jared.andrews07 ♦ 7.6k
As genomax mentioned, no, you are not going to be able to determine this from GC content. If you ...
A: Reason for excessive relocation misassemblies by pcvgt • 0
I'm having this problem myself. Did you identify the source of the problem?
C: De novo assembly misassembly correction by pcvgt • 0
I'm having this problem myself. Did you figure out what the problem was?
C: Geom_bar plot with several x-axis variables by sking • 0
I also tried to reshape the data as described in [this post][1], but since I have three non-conti...
C: Taqman miRNA cards normalization by danielle • 0
This was listed a long time ago, but I was wondering what you ended up doing? I am not convinced ...
C: Geom_bar plot with several x-axis variables by sking • 0
I've tried this but I get stacked bars because of the treatment. I just don't know how to add in ...
C: Looping in R to perform a GSEA analysis by ATpoint ♦ 40k
If you `c()` lists then you concat them together. By the way `c` is a bad variable name because t...
C: Folding RNA on python by Jason H • 20
I ran your example: dg("GGGAGGTCGTTACATCTGGGTAACACCGGTACTGATCCGGTGACCTCCC", temp = 37.0) # -12.9...
C: Is it possible to estimate the proportion of contamination from GC contents ? by doinelpierrot • 0
a significant **different** GC plot, my bad !!
C: How to deduplicate UMI with mapping shift ? by i.sudbery ♦ 9.4k
So there IS an increase in the fraction of intersecting UMIs in the +1 and -1 positions. But that...

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