User: fernandov

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Posts by fernandov

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Comment: C: From COSMIC to MAF files
... thanks for the comment, but the problem in that question seems to be producing the MAF file from raw sequenced data, Am I wrong?, and in my case the data is processed and the mutations described, but in another format. So, the process seems to be different. ...
written 5 months ago by fernandov0
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From COSMIC mutations to MAF files
... Hello, I downloaded the mutation file CosmicMutantExport, containing all mutation from the mutation database COSMIC. From this file I want to discriminate driver mutations from passenger mutations using the program MutSigCV. But this program requiers a MAF file. Now, I believe that the file CosmicMu ...
maf cosmic driver gene mutsigcv written 5 months ago by fernandov0
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Comment: C: How to use the data from Affymetrix Human Exon 1.0 ST Array for microarray gene
... Thank you very much for your answer, but I recently found that the TCGA give you also the gene-level expression values (however, when I don't be working with TCGA I will need the information of the links that you and @st.ph.n wrote). And now I have another problem: I downloaded from TCGA with the D ...
written 17 months ago by fernandov0
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Comment: C: The gene TGFb isn't measured in Affymetrix HT Human Genome U133 Array Plate Set?
... Hello @CharlesWarden and @Helene. Thanks for your help. After reading your answers about that there is TGFB1, I checked again and all of these are in the microarray: TGFB3 TGFBR2 TGFBR3 TGFB1I1 TGFBI TGFBRAP1 TGFB2 TGFBR1 TGFB1 it seems I was doing something wrong and I stayed confuse ...
written 17 months ago by fernandov0
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How to use the data from Affymetrix Human Exon 1.0 ST Array for microarray gene expression analysis?
... Hello, I was Reading [this article][1] from the TCGA research group about multiform glioblastoma and there it is used microarray data of three platforms, one of them is Affymetrix Human Exon 1.0 ST Array, but this platform measure exons. So, I look for the [supplementary data][2] of the article in [ ...
tcga microarray exon written 17 months ago by fernandov0 • updated 17 months ago by Charles Warden4.9k
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Comment: C: The gen TGFb isn't measured in Affymetrix HT Human Genome U133 Array Plate Set?
... The first 6 are: AACS, FSTL1, ELMO2, CREB3L1, RPS11, PNMA1 ...
written 17 months ago by fernandov0
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Comment: C: The gen TGFb isn't measured in Affymetrix HT Human Genome U133 Array Plate Set?
... by aliases you mean TGFB1, TGFB2,... and things like that? If it is, then no, I can't find a gen with the string "TGFB" in its name. ...
written 17 months ago by fernandov0
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The gene TGFb isn't measured in Affymetrix HT Human Genome U133 Array Plate Set?
... Hello, I'm just starting in bioinformatics and bioconductor. It happens that I recently downloaded a microarray of gene expression (Affymetrix HT Human Genome U133 Array Plate Set) from TCGA (data level 3) glioblastoma and I'm interested in the expression of TGFb, but I couldn't find it in any of th ...
gene tcga microarrays written 17 months ago by fernandov0 • updated 17 months ago by Helene390

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