User: seta
seta • 1.0k
- Reputation:
- 1,040
- Status:
- Trusted
- Location:
- Sweden
- Last seen:
- 1 day, 4 hours ago
- Joined:
- 4 years ago
- Email:
- s*********@gmail.com
Posts by seta
<prev
• 647 results •
page 1 of 65 •
next >
0
votes
2
answers
151
views
2
answers
Comment:
C: VEP output and stop gain mutation
... Thank you friend! I checked the variation database (track: All SNPs (150) from Table browser, but I didn't find GERP score. ...
written 4 days ago by
seta • 1.0k
0
votes
2
answers
151
views
2
answers
Comment:
C: VEP output and stop gain mutation
... Hi Ben,
Thank you very much for your feedback. Regarding the BLOSUM62 amino acid conservation score, although I read about it, I am not sure for correct interpretation, could you please help me out about it? Also, please kindly let me know if there is any association between this score and Condel r ...
written 4 days ago by
seta • 1.0k
4
votes
2
answers
151
views
2
answers
... Hi all,
I annotated some variations (SNP) using VEP, there are two stop gain mutations, one at 2nd amino acid and another at the 110th amino acid position (the protein has about 300 amino acid). While the VEP says their impact is "HIGH", but it didn't return any value for SIFT or polyphen, could yo ...
written 5 days ago by
seta • 1.0k
• updated
4 days ago by
Ben_Ensembl • 760
0
votes
1
answer
139
views
1
answers
... Thanks for your help. I have both, the ref and alt allele count for each SNP from both population, however, I'm not sure how to set and feed them to R for multiple fisher's exact tests and get the p-value for each one. Could please someone help me more on this issue? ...
written 12 days ago by
seta • 1.0k
0
votes
1
answer
139
views
1
answers
... Thank you for the response. Could you please kindly tell me how I should run multiple, here 3000, Fisher's exact test and store the related p-value for each SNP? ...
written 12 days ago by
seta • 1.0k
1
vote
1
answer
139
views
1
answer
... Dear friends,
I would like to compare the allele frequency of a list containing 3000 SNPs related to a given trait between my population and 1000 genome populations (super populations). For my population, the SNPs derived from whole genome sequencing of about 1000 individuals. But, due to missing ...
written 13 days ago by
seta • 1.0k
0
votes
0
answers
141
views
0
answers
... Hi all,
I would like to determine allele frequency difference of a set of SNPs (say 2500 SNPs) between various populations as my first experience in this regard. I think of using the statistical test (Fisher’exact or chi-square test) with the allele count for it. However, I see the estimating Fst v ...
written 22 days ago by
seta • 1.0k
0
votes
1
answer
123
views
1
answer
... Hi all,
I would like to compare the Alt allele frequency of a list of thousands SNPs derived from my project with the various populations of 1000 genome project. So, I need alt allele count, could you please help me out how to find this infromation based on GRCh38? here, I read [this post][1] abou ...
0
votes
2
answers
182
views
2
answers
... Thanks Emily, it sounds easier, however, I tested BioMart with 10 gene names (and also with Entrez ID) and it returned many variants with no information about minor allele, minor allele count and frequency for most of them. Also, I could not find these variants came from 1000 genome (and which popul ...
written 4 weeks ago by
seta • 1.0k
0
votes
2
answers
182
views
2
answers
... Thanks Pedro, yes, I used all sub features of the genes as you mentioned that I corrected with your help. Just two questions, maybe silly one. In your awk command, why you put ".", "." ? and for promoter section, I think using -l 1000 -r 500, please kindly share me your idea about it? ...
written 4 weeks ago by
seta • 1.0k
Latest awards to seta
Popular Question
5 days ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
26 days ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
4 weeks ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
6 weeks ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
6 weeks ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
7 weeks ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
8 weeks ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Voter
9 weeks ago,
voted more than 100 times.
Popular Question
9 weeks ago,
created a question with more than 1,000 views.
For Differentially expressed gene clustering
Popular Question
11 weeks ago,
created a question with more than 1,000 views.
For Differentially expressed gene clustering
Popular Question
12 weeks ago,
created a question with more than 1,000 views.
For Differentially expressed gene clustering
Popular Question
3 months ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
3 months ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
3 months ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
3 months ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
3 months ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
3 months ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
4 months ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Popular Question
4 months ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Guru
4 months ago,
received more than 100 upvotes.
Great Question
4 months ago,
created a question with more than 5,000 views.
For Remove unwanted characters from FASTA file
Popular Question
4 months ago,
created a question with more than 1,000 views.
For How to know the position of various transcripts of a given gene in the genomic sequence of that gene?
Student
4 months ago,
asked a question with at least 3 up-votes.
For rRNA contamination in poly A-enriched libraries
Popular Question
4 months ago,
created a question with more than 1,000 views.
For Please help with comparing several gene ontology (GO) list
Popular Question
4 months ago,
created a question with more than 1,000 views.
For Please help with comparing several gene ontology (GO) list
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 936 users visited in the last hour