User: mathavanbioinfo

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60
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Trusted
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India
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https://scholar.google...
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1 week, 1 day ago
Joined:
4 years, 10 months ago
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Posts by mathavanbioinfo

<prev • 60 results • page 1 of 6 • next >
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How to handle "perbase quality failed" issue?
... ![enter image description here][1] Hi I have performed RNA fastqc analysis, the resulting plot attached here please share your idea how to handle "perbase quality failed" issue [1]: https://ibb.co/yS52BXp https://ibb.co/yS52BXp ...
rna-seq fastqc written 4 weeks ago by mathavanbioinfo60
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How to identify the 300 kb upstream and downstream genes of lncRNAs?
... Hi I have a list of human lncRNAs expressed in the blood sample. I want to know the upstream and downstream of genes in the range of ± 300 kb. please guide me on how to find out. ---------- **lncRNAs** ENSG00000269794, ENSG00000273472 ENSG00000279066 ENSG00000279926 ENSG00000280047 ENSG0000028 ...
target genes lncrna upstream rna-seq downstream written 6 weeks ago by mathavanbioinfo60 • updated 6 weeks ago by JC12k
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How to extract upstream and downstream of lncRNA in particular range?
... Hello All I am trying to extract the upstream and downstream genes of differentially expressed lncRNAs. Initially, I converted the merged gtf file to bed file using bedops tool, then I used hommer Perl script to convert it annotation file using the following command **perl annotatePeaks.pl sample_p ...
gtf bed rna-seq hommer lncrna written 7 weeks ago by mathavanbioinfo60 • updated 7 weeks ago by jordi.planells330
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Comment: A: How to perform the lncRNA enrichment analysis?
... https://www.nature.com/articles/srep34161 ...
written 9 weeks ago by mathavanbioinfo60
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How to perform the lncRNA enrichment analysis?
... Hello All I want to do the enrichment analysis for list of lncRNAs (500 lncRNA), is there any tool or methods available for doing it. ...
enrichment gene ontology lncrna written 9 weeks ago by mathavanbioinfo60 • updated 5 weeks ago by Qiongyi100
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How to find the gene name and classification using Ensembl ID?
... Hello All I have a file containing a list of onding and non- coding genes (2500 numbers). I want to know the name of those genes as text or CSV format. How to convert it Thank you ...
genome ensembl lncrna written 9 weeks ago by mathavanbioinfo60 • updated 9 weeks ago by Jean-Karim Heriche24k
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(Closed) Problem for installing arrayQualityMetrics package?
... Hello All, I am trying to install the package arrayQualityMetrics Package, I got the error mentioned below library(arrayQualityMetrics) Error: package or namespace load failed for ‘arrayQualityMetrics’ in rbind(info, getNamespaceInfo(env, "S3methods")): number of columns of matrices mu ...
R microarray written 4 months ago by mathavanbioinfo60 • updated 4 months ago by GenoMax94k
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Comment: C: How create annotation file for WGCNA for RNA-Seq data?
... Thank you very much for your response I used to follow this protocol https://www.nature.com/articles/nprot.2016.095 at one step I have to make stringTie merge to combine all the samples with the reference annotation file of h38 downloaded from Ensembl ftp. $ stringtie --merge -p 8 -G chrX_data/gene ...
written 6 months ago by mathavanbioinfo60
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How create annotation file for WGCNA for RNA-Seq data?
... Hello Biostars, I am currently working on WGCNA analysis for RNA-Seq data, the input gene count matrix files contain Ensemble gene ids and MSTRG ids. Now I want to create the annotation files. I have stringTie merged files, can I use it as annotation file? If possible means that file contains many ...
wgcna rna-seq annotaion file written 6 months ago by mathavanbioinfo60 • updated 6 months ago by Kevin Blighe69k
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How to make annotation file for WGCNA analysis of RNA Seq data?
... hello all, I want to study the co-expression analysis using RNA seq data by WGCNA analysis ( Organism- Homosapiens). I created the gene count matrix file (Package - Subread ) as the input file. For mapping the Ensemble ID into the gene symbol, I need a **gene annotation file**. Please share your kno ...
next-gen written 9 months ago by mathavanbioinfo60 • updated 9 months ago by Kevin Blighe69k

Latest awards to mathavanbioinfo

Popular Question 6 months ago, created a question with more than 1,000 views. For Up and Down regulated genes
Scholar 11 months ago, created an answer that has been accepted. For A: How to get GTF file for Rousettus_aegyptiacus?
Popular Question 16 months ago, created a question with more than 1,000 views. For Up and Down regulated genes
Popular Question 19 months ago, created a question with more than 1,000 views. For Up and Down regulated genes
Popular Question 20 months ago, created a question with more than 1,000 views. For Up and Down regulated genes
Popular Question 21 months ago, created a question with more than 1,000 views. For Up and Down regulated genes
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Up and Down regulated genes
Popular Question 2.9 years ago, created a question with more than 1,000 views. For Up and Down regulated genes
Popular Question 3.8 years ago, created a question with more than 1,000 views. For Microarray adata Normalization using GEO2R?

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