User: Timze W
Timze W • 40
- Reputation:
- 40
- Status:
- New User
- Location:
- Last seen:
- 1 week ago
- Joined:
- 1 year, 7 months ago
- Email:
- w******@gmail.com
-- NORMAL --
-- NORMAL --
-- NORMAL --
Posts by Timze W
<prev
• 14 results •
page 1 of 2 •
next >
0
votes
1
answer
65
views
1
answers
... Yes, you are right. My picture just shows a un-methylation C site and its new chains after PCR. And my confusion is that many blogs say methylation C will keep C and un-methylation C will become a T, but during the PCR , it seems there will generate the un-methylation C. ...
written 16 days ago by
Timze W • 40
0
votes
1
answer
65
views
1
answers
... Thanks. But sorry for my superficial understanding of methylation sequencing experiment, what puzzles me actually is how the PCR process prevents a new C synthesis, because there is still a G base in the other chains. ...
written 17 days ago by
Timze W • 40
0
votes
1
answer
65
views
1
answer
... I knew that using bisulfite can turn unmethylated C to U, but I still have a problem about this technology:
Supposed a non-methylated C in the forward chain now becomes U, but then during PCR, with a G in reverse chain, will it re-synthesize the C-base in the new chain (may be something happen jus ...
written 17 days ago by
Timze W • 40
1
vote
2
answers
192
views
2
answers
...
It seems you have the idea that bigger Fold-change expect to smaller p-value.
But P-value and Fold-change are not necessarily related, fold change just reflects mean change, then P-value is not only depended by mean but also variance. (for example, if you perform the two sample students t-test ) ...
written 4 weeks ago by
Timze W • 40
1
vote
4
answers
225
views
4
answers
... The best solution is to ask your sequencing data provider.
Typically, QC software (such as `fastQC`) can report some regular adapter types, while `trim-galore` can automatically detect and cut these adapters. ...
written 5 weeks ago by
Timze W • 40
0
votes
0
answers
124
views
0
answers
... Thank you. And this is my puzzle, if the genotype is '0/0' , Why there are 23 reads for alt allele? ...
written 10 weeks ago by
Timze W • 40
0
votes
0
answers
124
views
0
answers
... Here is part of my VCF file with two samples:
> GT:AD:AF:DP:F1R2:F2R1:SB
0/1:73,4:0.061:77:27,1:46,3:31,42,2,2
0/0:333,23:0.065:356:160,8:166,15:155
I understand that GT stands for genotype, so, 0/1 means heterozygote and 73 reads support ref allele and 4 reads support alt allele ...
0
votes
0
answers
154
views
0
answers
... Hello,
I have noted that, as designed for somatic variants caller, MuTect2 includes some logic to skip variant sites that are very clearly germline based on the evidence present in the Normal sample compared to the Tumor sample, for avoiding spending computational resources on germline events.
An ...
written 3 months ago by
Timze W • 40
0
votes
5
answers
27k
views
5
answers
... As for hg38 data, you can download it through FTP annotation database directly. ...
written 6 months ago by
Timze W • 40
0
votes
1
answer
628
views
1
answers
... Thanks for your help. I have finally solved this problem, but what I use is the other tool called ChAMP., it can accept the beta value matrix as input.
AND for the TCGAbiolinks, I have noticed it have this function, but when I read its code in GitHub, it seems do the same works for DMRs just as fo ...
written 12 months ago by
Timze W • 40
Latest awards to Timze W
Popular Question
9 weeks ago,
created a question with more than 1,000 views.
For Some symbols share the same ensembl ID in org.Hs.eg.db but not in ensembl website, how to deal with it?
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 1259 users visited in the last hour