User: mbyvcm

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mbyvcm330
Reputation:
330
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Trusted
Location:
Cardiff, UK
Last seen:
13 hours ago
Joined:
2 years, 3 months ago
Email:
c****************@gmail.com

Posts by mbyvcm

<prev • 51 results • page 1 of 6 • next >
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Answer: A: Bacterial genome annotation
... [RAST][1] [1]: http://www.nmpdr.org/FIG/wiki/view.cgi/FIG/RapidAnnotationServer ...
written 1 day ago by mbyvcm330
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Comment: C: A confusion regarding haplotype
... So you are starting with the assumption that these three variants only form two haplotypes; i) A-B-X and ii) A-B-C (X is the reference allele) - which I will work with here. You can use resources such as the HapMap project to check the relative frequencies of each haplotype in your population of int ...
written 22 days ago by mbyvcm330
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Answer: A: A confusion regarding haplotype
... If you have genotyped three SNPs within a single sample, you would not be able to infer the haplotypes without additional information - so you are basically correct. If you have a large number of samples genotyped at these three SNPs, you can begin to ascribe probabilities to each haplotype. For exa ...
written 26 days ago by mbyvcm330
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Comment: C: A confusion regarding haplotype
... Do you mean "allele A and B define **haplotype** 1. allele A, B and C define **haplotype** 2"? ...
written 26 days ago by mbyvcm330
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Comment: C: Problem with LARGE MATRIX
... What does the "dat" matrix/table contain? Does it have column names? How is missing data coded? Are you sure the table only contains numerical data? ...
written 8 weeks ago by mbyvcm330
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Answer: A: PCR : genes vs pseudogenes
... There will be differences in the sequence - so you have to get clever when designing your primers. Probably not the best forum for a PCR design based question. Try [Protocol Online][1] or similar. [1]: http://www.protocol-online.org/ ...
written 8 weeks ago by mbyvcm330
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Answer: A: Help with Fisher test between drug-targets
... You could redefine the question; *"is gene "X" targeted by one or more disease-specific drugs?"* Each gene will have a binary answer, which will be appropriate for FET. ...
written 8 weeks ago by mbyvcm330
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Comment: C: Help with Fisher test between drug-targets
... So you are saying that a single gene is targeted by multiple drugs, some disease-specific and some disease non-specific? ...
written 8 weeks ago by mbyvcm330
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Comment: C: plink epistasis result
... you used *--epi1 0.05*. What happens with *--epi1 1*? If you use 0.05 threshold, then your output file we be missing all pairwise interactions that do not report a p-value <=0.05. ...
written 8 months ago by mbyvcm330
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Comment: C: plink epistasis result
... If you post your log here that would help. It could be because, by default, PLINK will only output SNP x SNP interactions which pass a given p-value threshold, which is controlled with the *--epi1* flag. Does setting '--epi1 1' work? ...
written 8 months ago by mbyvcm330

Latest awards to mbyvcm

Scholar 6 months ago, created an answer that has been accepted. For C: merging plink files
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: Is there a quick method to extract regularly-spaced features/SNPs from a VCF fil
Scholar 9 months ago, created an answer that has been accepted. For C: merging plink files
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: Is there a quick method to extract regularly-spaced features/SNPs from a VCF fil
Scholar 9 months ago, created an answer that has been accepted. For C: merging plink files

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