User: amnahsiddiqa

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Posts by amnahsiddiqa

<prev • 9 results • page 1 of 1 • next >
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RNA-Seq:How to know RNA-seq data is Strand-Specific or not based on only fastq files available in public data repositories such as SRA?
... How To Find RNA-seq data is Strand-Specific or not based on only fastq files from information available in public databases. I am looking for information because I might not know if such information is also deposited in public repositories. Right now I am interested in knowing this information abou ...
rna-seq written 7 days ago by amnahsiddiqa0 • updated 7 days ago by swbarnes24.7k
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Comment: C: RNA seq stranded
... Ok caggtaagtat. I got it. I have already read this paper but I still have the confusions. I have another question then. When we get one of the strands (with uracil which is complementary to mRNA) removed/digested. We have the other strand left. And when they say in sequencing protocol that we will a ...
written 7 days ago by amnahsiddiqa0
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Comment: A: RNA seq stranded
... Ok caggtaagtat. I got it. I have another question then. When we get one of the strands (with uracil which is complementary to mRNA) removed/digested. We have the other strand left. And when they say in sequencing protocol that we will amplify it and sequence it I understand that the amplification (c ...
written 7 days ago by amnahsiddiqa0
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RNA seq stranded
... HI everybody. I am trying to understand a concept in RNA seq analysis if somebody could help. As far as i understand, in a stranded method (as in illumina true seq) first cDNA strand is sequenced in the dUTP method which is a reverse complement of sense strand/mRNA/coding strand. But I dont get one ...
rna-seq written 7 days ago by amnahsiddiqa0
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WGCNA export network into cytoscape : problem
... The threshold (which corresponds to adjacency threshold for including edges in the output.) in the function “exportNetworkToCytoscape” (WGCNA) affects the results in which manner? I wanted to export the network of 461 module size into cutoscape network format and it gave me the 447 nodes in the res ...
R network export cytoscape wgcna written 19 months ago by amnahsiddiqa0 • updated 19 months ago by WouterDeCoster35k
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Comment: C: Illumina microarray dataset analysis
... Alright I will try that and posy back if it works. Thak you ...
written 2.6 years ago by amnahsiddiqa0
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Comment: C: Illumina microarray dataset analysis
... Alright but for example that is not the possibility then what I can do with it. ...
written 2.6 years ago by amnahsiddiqa0
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Illumina microarray dataset analysis
... I have to analyze an illumina microarray data set. i have pasted the image of the data i have regarding it. usually we see aveg signal ,stdeerr, p detection value etc in illumin achip data. but this has only avg signal and p detection value for each sample . How I can analyze this data. I have alr ...
microarray illumina chip data written 2.6 years ago by amnahsiddiqa0 • updated 2.6 years ago by hrenchert74750
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How to use TPM from RNA seq data analysis for differential gene expression analysis? which statistical methods are reuired to be performed.
... i am a newbie in RNA seq data analysis. I want to check a gene as DEG in a dataset of RNA-chip seq experiment. The data provided is in the form of a single column for each treatment type and lists the expression level of each gene normalized to transcripts per million (TPM).i need help on using wha ...
rna-seq written 2.7 years ago by amnahsiddiqa0 • updated 8 months ago by Biostar ♦♦ 20

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