User: mail2steff

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mail2steff10
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New User
Location:
Potsdam, Germay
Last seen:
1 week, 3 days ago
Joined:
2 years, 3 months ago
Email:
m*********@gmail.com

Posts by mail2steff

<prev • 24 results • page 1 of 3 • next >
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Identification of Domains altered by alternative splicing
... I am analyzing alternative splicing (AS) events in my samples. I need to find out the functional domain which is altered by AS. When I tested ASTAFUNK with sample data, it worked fine. I have genome annotation file (GTF file generated from cufflinks output) for my samples. But when I tried ASTAFUNK ...
asta-funk domain alternative splicing written 10 days ago by mail2steff10
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Comment: C: How to produce a unimodal distribution of genes expressed genes
... ![Density plot for one sample][1]Thank you for ur hint. I have two doubts: (1)I tried with R and got separate plots for five different samples. I am a new baby to R. How can I combine those plots into the single one? (2) Please bear with me. In the plot, I got one value called bandwidth. Can I cons ...
written 22 days ago by mail2steff10
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How to produce a unimodal distribution of genes expressed genes
... I have executed cuffdiff for five different samples and got the FPKM values of genes across five different samples. Each sample contained a group of genes with very low FPKM values,representing low expression or background. I am planning to identify minimal expression value to avoid false positive e ...
R ggplot2 cuffdiff rna-seq density plot written 24 days ago by mail2steff10 • updated 23 days ago by vinvan10
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Comment: C: How to identify and count multi-exon genes
... Thank you so much for the answer. Ill try this. And there is no cut-off for number of exons for a single gene ...
written 5 weeks ago by mail2steff10
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Comment: C: How to identify and count multi-exon genes
... No. I have not. Will I get the number of "multi-exons" genes from each sample? ...
written 5 weeks ago by mail2steff10
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How to identify and count multi-exon genes
... I am trying to analyze alternative splicing events in five different samples. I've aligned the samples to the reference genome using Tophat and assembled the transcripts using cufflinks. I obtained 5 different gtf files from cufflinks. I have to identify and count muti-exon genes from each samples. ...
cufflinks multi-exon written 5 weeks ago by mail2steff10 • updated 5 weeks ago by EagleEye4.9k
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Comment: C: how to identify which tissue has more alternative splicing?
... Thank you for the reply. I will check on that link. For example, brain tissue has the highest number of alternative splicing compared to other tissues. In a similar way, I am interested to find the tissues in plants. ...
written 3 months ago by mail2steff10
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how to identify which tissue has more alternative splicing?
... Dear all, I am trying to identify AS events from different tissues (5 tissues). and I did that using rMATS. But now I need to know which tissue has the highest number of alternative splicing irrespective of events (mechanisms). I am kind of stuck in this. Can anyone guide me ? ...
rmats cuffdiff alternative splicing written 3 months ago by mail2steff10 • updated 3 months ago by petebio40
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Comment: C: Cuffdiff Says Sam Isn'T Sorted, Although It Handled It Cufflinks
... Hi, I am getting the same error. What should I alter in hits.cpp file? ...
written 3 months ago by mail2steff10
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Comment: C: DEXSeq transcripts per condition
... I am sorry for the trouble. thank you so much for ur reply. I try to understand from the result table. Sorry again ...
written 4 months ago by mail2steff10

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