User: umeshtanwar2

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umeshtanwar220
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Posts by umeshtanwar2

<prev • 37 results • page 1 of 4 • next >
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Comment: C: Regarding Barley genome
... Thank you genomax and JC. ...
written 8 weeks ago by umeshtanwar220
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Comment: C: Regarding Barley genome
... Thank you so much. Can you please also suggest any tools that I can use to extract the sequence of my gene of interest. ...
written 8 weeks ago by umeshtanwar220
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Regarding Barley genome
... Hi all, I have recently started working with Barley (Hordeum vulgare) plant - Cultivar Golden Promise. I am interested in some genes and I got their CDS from https://webblast.ipk-gatersleben.de/barley_ibsc/viroblast.php database. But I could not find the genomic sequence. My questions are: 1. How ...
gene assembly genome written 8 weeks ago by umeshtanwar220
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Comment: C: RNA-Seq Differential gene expression
... Thank you WouterDeCoster. Is there any program/tool to assign the DEGs to the reactome or metabolic pathways in plants? ...
written 17 months ago by umeshtanwar220
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Comment: C: RNA-Seq Differential gene expression
... Thank you arup, but it does not support the plants. ...
written 17 months ago by umeshtanwar220
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RNA-Seq Differential gene expression
... Hi all, I am working on the RNAseq analysis in Arabidopsis plant. I have the list of DEGs which I obtained using DESeq2. I have done the annotation using biomaRt package. Now I would like to assign the DEGs to the Reactome pathways with graphical representation. Could you please help me in this? ...
rna-seq written 17 months ago by umeshtanwar220 • updated 17 months ago by shawn.w.foley1.2k
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Comment: C: Differential gene expression analysis by DESeq2
... Thank you very much Carlo. This is really very helpful. ...
written 19 months ago by umeshtanwar220
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Differential gene expression analysis by DESeq2
... Hi all, I am doing Differential Gene Expression Analysis using DESeq2. I have 8 samples in total (4 treated and 4 untreated) with 3 replicates of each. I am using the the code given below: library(DESeq2) dds <- DESeqDataSetFromMatrix(countData=countdata, colData=coldata, design=~genotyp ...
deseq2 rna-seq lfcthreshold written 19 months ago by umeshtanwar220 • updated 19 months ago by Carlo Yague5.5k
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Comment: C: Running GSEA for DEGs
... I am not using the command line but GSEA Desktop Application. The format of these files looks different from the one you posted. I do not know from which source I can get the gene data sets for Arabidopsis. I could not find Arabidopsis on gsea/msigdb. Could you please suggest some link? Other thing ...
written 21 months ago by umeshtanwar220
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Comment: C: Running GSEA for DEGs
... Thank you Kevin, It is working now. I have downloaded the gene data sets files for Arabidopsis thaliana from the website [enter link description here][1]. Is this right to use that? It shows error when the GMT formatted file for all gene sets is uploaded. But works well when some of individual dat ...
written 21 months ago by umeshtanwar220

Latest awards to umeshtanwar2

Popular Question 16 months ago, created a question with more than 1,000 views. For STAR for Genome Index and Alignment
Popular Question 16 months ago, created a question with more than 1,000 views. For DESeq2: Differential gene expression
Popular Question 16 months ago, created a question with more than 1,000 views. For Running GSEA for DEGs

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