User: Bayram Sarilmaz

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Posts by Bayram Sarilmaz

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(Closed) what is the difference between those mutation types
... I'm a newbie in genetics, and I'm struggling to understand the difference between those terms: 1. Rare Mutation 2. De Novo Mutation 3. Mosaic Mutation 4. Germline Mutation Also, is every rare mutation considered de novo? Your help is highly appreciated! ...
mosaic terminology mutation denovo rare written 18 days ago by Bayram Sarilmaz0
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Interpretation of Overlapping p-value = 0 and Odss ratio = Inf
... I would like to conduct an enrichment analysis between two lists using GeneOverlap package in R. I am comparing gene IDs from each list, and there is no NAs in there. This is the code I'm using: go.obj <- newGeneOverlap(listA$ID,listB$ID) go.obj go.obj <- testGeneOverlap(go.obj) ...
R odds-ratio fisher's-exact geneoverlap written 9 weeks ago by Bayram Sarilmaz0 • updated 9 weeks ago by Santosh Anand4.0k
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Comment: C: Enrichment Analysis in R
... Thanks for explaining this! Then if the p-value from the above geneoverlap test is equal 0, it means there is no significant overlap between A and B? ...
written 10 weeks ago by Bayram Sarilmaz0
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Enrichment Analysis in R
... I have two gene sets: A and B. I would like to check which genes in B are enriched in A. As a result of the enrichment analysis, I to have a p-value for each gene in B. Here is a reproducible example that you can use: I'm performing the analysis of gene IDs. A = data.frame(c(100,200,300,400,50 ...
R genetics enrichment written 10 weeks ago by Bayram Sarilmaz0
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Comment: C: Enrichment Analysis in R
... Thanks for your answer! Could you please explain a bit more on how to use this package to end up with a set of genes that are enriched for category A? ...
written 11 weeks ago by Bayram Sarilmaz0
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Comment: C: Enrichment Analysis in R
... Edit added to the question. Please have a look ...
written 11 weeks ago by Bayram Sarilmaz0
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Enrichment Analysis in R
... I have two lists of cancer genes, the genes of list-1 belong to category A, while the genes in list-2 belong to category B. I would like to perform an enrichment analysis to check whether or not category A has a enrichment of cancer genes. Some genes are present in both categories A & B, so I t ...

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