User: mohammedtoufiq91

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Posts by mohammedtoufiq91

<prev • 47 results • page 2 of 5 • next >
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Comment: C: Extract Ensembl IDs column using a data file
... Thank you. This was helpful. ...
written 4 months ago by mohammedtoufiq9150
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Extract Ensembl IDs column using a data file
... Hi, I have a normalized data file containing gene symbols as first column followed by various samples (normalized data). I was looking to extract the Ensembl IDs corresponding to the gene symbols. Basically, I would like to have both gene symbols and Ensembl IDs in the data file for further downstr ...
ensembl id annotations rna-seq written 4 months ago by mohammedtoufiq9150 • updated 4 months ago by Erin_Ensembl380
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Comment: C: Tools for qRT-PCR data analysis
... Thank you for the inputs. ...
written 5 months ago by mohammedtoufiq9150
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Comment: C: Writing a batch script for analyzing RNA-Seq data
... Thank you. This was helpful. ...
written 5 months ago by mohammedtoufiq9150
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Writing a batch script for analyzing RNA-Seq data
... Hi, I made use of some of the packages for the analysis of the RNA-Seq data starting from the alignment till the expression analysis. This was just for some of the samples from my large datasets, however, when applying these packages to my large datasets it would be tedious and time consuming, and ...
alignment quantification rna-seq batch script written 5 months ago by mohammedtoufiq9150 • updated 5 months ago by WouterDeCoster40k
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Tools for qRT-PCR data analysis
... Hi, I have the qRT-PCR data and I would like to analyse this data from the Normalisation till the downstream analysis. Basically I would like to perform the calculation of DCt, DDCt, and 2^(-DDCt) including some of the plots. Could you kindly assist me with this. Thank you, Toufiq ...
tools expression qrt-pcr fold change written 5 months ago by mohammedtoufiq9150 • updated 5 months ago by l.souza70
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Comment: C: Identify adapter sequences for trimming from Illumina paired end fastq files
... Thank you. Another question, is it recommended to trim the adapters for the Illumina Paired end data with 150*2 bp ...
written 5 months ago by mohammedtoufiq9150
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Comment: C: Subsampling aligned SAM/BAM files for RNA-seq analysis
... We have generated a set of RNA-seq samples. These are human PE samples with read length of 150bp. We would like to identify the total number of genes that could be detected by reducing the number of reads to 1/2, 1/3rd and 1/4th. After this, identify the differentially expressed genes between the tw ...
written 5 months ago by mohammedtoufiq9150
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Subsampling aligned SAM/BAM files for RNA-seq analysis
... Hi, I would like to know if there are any specific tools to sub-sample aligned SAM or BAM files. What type of files could be considered for the sub-sampling sorted or unsorted SAM or BAM files. Thank you, Toufiq ...
downsampling bam sam rna-seq subsampling written 5 months ago by mohammedtoufiq9150 • updated 5 months ago by WouterDeCoster40k
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Comment: C: Tools for Multi-omics analysis (RNA-Seq, Metagenomics and Metatranscriptomics da
... Yes, each datasets would be analyzed individually. For instance, differentially expressed genes would be identified using RNA-Seq analysis pipeline. Similarly, Metagenomics and Metatranscriptomics data would be analyzed individually. After analysis of each omics, I would like to know how analysis w ...
written 6 months ago by mohammedtoufiq9150

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