User: hudacdif

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hudacdif0
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Posts by hudacdif

<prev • 6 results • page 1 of 1 • next >
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Differential Analysis for gene expression from TCGA (Level 3)
... Hi everyone, I am having a bit difficulties to start doing differential analysis. Can anybody help me on this? Below is my sample dataset which has been taken from TCGA level 3 gene expression dataset of GBM (Cancer). Rownames are the genes names (ID).  ...
microarray limma tcga written 2.6 years ago by hudacdif0 • updated 2.6 years ago by Steve Lianoglou12k
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Comment: C: Gene expression differential analysis using TCGA dataset
... I have read the Chapter 9 of the limma user guide but still kind of confused. Do I have to used the contrast matrix? My design matrix looks like this ​ and my data in expression set is like this ​ On Fri, Mar 20, 2015 at 5:11 AM, Aaron Lun [bioc] <noreply@bioconductor.org> wrote: > Activi ...
written 2.7 years ago by hudacdif0
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Comment: C: Gene expression differential analysis using TCGA dataset
... Thanks for the answer. I am a bit confused about the coefficient. How do I choose the coefficient? On Thu, Mar 19, 2015 at 10:29 PM, Aaron Lun [bioc] <noreply@bioconductor.org> wrote: > Activity on a post you are following on support.bioconductor.org > > User Aaron Lun <https: su ...
written 2.7 years ago by hudacdif0
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Comment: C: Gene expression differential analysis using TCGA dataset
... Thanks for your answer. Now I already have the phenotypic data. But now I have another problem. My TCGA gene expression dataset (GBM) is in level 3, which means it has already been normalized. The data consist of gene names and expression values for each patients. Atached is the example of my data. ...
written 2.7 years ago by hudacdif0
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Comment: C: Gene expression differential analysis using TCGA dataset
... Hi Sean, Thanks for your response.I have already create a minimal expression set for the expression data. My problem is, how can I create the phenotypic data to integrate with my expression data? I have include some data (3 patient samples out of 489) of gene expression level 3 from TCGA and also th ...
written 2.7 years ago by hudacdif0
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Gene expression differential analysis using TCGA dataset
... Hi there, I am having difficuties to integrate the TCGA dataset into Bioconductor, particularly in order to use limma package for differential analysis of gene expression. Can anyone help me please? ...
microarray limma written 2.7 years ago by hudacdif0 • updated 2.7 years ago by jaro.slamecka30

Latest awards to hudacdif

Popular Question 2.6 years ago, created a question with more than 1,000 views. For Gene expression differential analysis using TCGA dataset
Popular Question 2.6 years ago, created a question with more than 1,000 views. For Differential Analysis for gene expression from TCGA (Level 3)

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