User: yehchan57

gravatar for yehchan57
yehchan5710
Reputation:
10
Status:
New User
Location:
China
Twitter:
yeh_chan
Last seen:
1 month, 2 weeks ago
Joined:
8 months, 1 week ago
Email:
y********@gmail.com

Green hand bioinformatician

Posts by yehchan57

<prev • 13 results • page 1 of 2 • next >
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Tools to predict the structure change of one protein with one amino acid change
... Now I have the amino acid sequence of one protein, I want to know if the structure of this protein changes when one amino acid changes or modified. Is there any algorithm or website tools existed? ...
proteomics bioinformatics prediction structure written 8 weeks ago by yehchan5710 • updated 8 weeks ago by Mensur Dlakic3.6k
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Comment: C: GWAS result too significant
... qqplot just like this ![][1] [1]: https://i.ibb.co/jLQBMH4/Rplot.jpg ...
written 12 weeks ago by yehchan5710 • updated 12 weeks ago by RamRS25k
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GWAS result too significant
... Recently, I did some genome-wide association study employing PLINK1.9. However, when I analyze the result of association I found it too 'significant'. This must be false! My command is ~/Software/plink --vcf qz_beijing_wes.g.vcf.gz --snps-only --maf 0.001 --hwe 0.0001 --geno 0.1 --make-bed -- ...
genome gwas plink written 12 weeks ago by yehchan5710 • updated 12 weeks ago by chrchang5236.5k
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Variants effect predict
... Now I have some mutation information on some sites in vcf format? How can I predict if these mutation result in loss of function or gain of function? ...
annovar prediction vep mutation written 3 months ago by yehchan5710
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Comment: C: PLINK file format case control status
... The positions are different among this vcf files so how can I handle this problem? ...
written 3 months ago by yehchan5710
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GWAS result display
...  I wonder whether there exists another type of picture that can be employed to display the result of GWAS particularly in displaying the different appearance of SNP among samples apart from Manhattan plot? ...
gwas plot written 3 months ago by yehchan5710 • updated 3 months ago by Kevin Blighe55k
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PLINK file format case control status
... I have the joint vcf file for both case and control samples, I wonder how can I convert it to the ped and map format to be used by PLINK tools. I need to distinguish the case and control sample which I can not find any answers on the internet before! ...
gwas plink written 3 months ago by yehchan5710 • updated 3 months ago by zx87549.0k
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Comment: A: Generating a list of all GI numbers for a genome
... I recommend you using the accession number rather than the GI number due to inconsistency of GI in different versions. ...
written 4 months ago by yehchan5710
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Comment: A: awk extract certain line
... Just remove the -w option in the grep command. It works for me on my macbookpro! ...
written 4 months ago by yehchan5710
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PRM results Interpretation
... Recently I have been read one paper on PDL1 and the authors used PRM to quantify the intensity of PD1, PDL1 and PDL2. However, I have developed problems with interpreting the results produced by PRM. I wonder why three peaks existed in one graph when the peptide sequence is known! ...
proteomics prm pdl1 ms written 4 months ago by yehchan5710

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