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User: SamGG

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SamGG • 20
Reputation:
20
Status:
New User
Location:
France
Last seen:
10 months, 1 week ago
Joined:
6 years, 1 month ago
Email:
s***************@inserm.fr

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Posts by SamGG

<prev • 7 results • page 1 of 1 • next >
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Comment: C: Enrichment analysis for class comparison
... Hi, column PRE + column POST = column ADDITIONAL So, I am unsure whether it makes sense to compare one PRE or POST column to the margin column. My two cents. ...
written 2.3 years ago by SamGG • 20
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Answer: A: determining cutoff for Kaplan Meier
... Hi, I'm not sure I will answer your question. In a first approach, I split the experimental data (gene expression) according the quartiles leading to 3 groups: samples with levels below 25th percentile, higher than 75th percentile and samples in between. From that grouping I get a KM plot and p-val ...
written 2.4 years ago by SamGG • 20
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gene expression from CCLE, GDSC, CTRP: independent repeats or data merge?
... Hi, I am confused with gene expression data concerning cell lines available from those resources: CCLE, GDSC1000, CTRP. Are the gene expression available to download at those data portals independent experiments or some integration? All those data seems to be Affymetrix data. Is there RNAseq data ...
cancer cell lines ccle gdsc1000 written 2.4 years ago by SamGG • 20
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Comment: C: How to correctly calculate Storey-Tibshriani FDR Q Values using R Package "QValu
... Hi, I am not an expert, but I have the feeling that you mix fdr and bootstrap. May be those articles could help you with FDR. http://www.nature.com/nmeth/journal/v11/n4/full/nmeth.2900.html http://www.nature.com/nbt/journal/v27/n12/full/nbt1209-1135.html Best. ...
written 2.8 years ago by SamGG • 20
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Comment: C: TCGA clinical data: stage of tumor at time biopsy was taken
... Hi, I am trying to validate some genes using RNAseq levels. I am facing the same questions and feel confused. I am used to work with samples obtained at the diagnosis. But a lot of samples of the SKCM dataset are obtained at a date later than the diagnosis. As stated above, the range is huge. Rachel ...
written 2.8 years ago by SamGG • 20
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Comment: A: Extract genes from gene list
... Please, do provide a list of ten gene identifiers. It could help ;-) ...
written 2.8 years ago by SamGG • 20
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From Distance Matrix To Network
... Hi, I would like to represent the linkage (or correlation) of some data (let say genes) with Cytoscape. So I would like a way to transform a distance (or so) into a network (one-to-one links). Distance filtering is certainly needed in order to avoid a dense and ugly network graphics. a/ is there a ...
network cytoscape distance written 6.1 years ago by SamGG • 20 • updated 7 months ago by Kevin Blighe ♦ 50k

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Popular Question 6.1 years ago, created a question with more than 1,000 views. For From Distance Matrix To Network
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