User: mbyvcm

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mbyvcm330
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Cardiff, UK
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7 hours ago
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2 years, 5 months ago
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Posts by mbyvcm

<prev • 54 results • page 1 of 6 • next >
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Comment: C: gTEX normalize counts by genotype
... What do you plan to do with the normalized data? The notion of "correcting" an analysis for the effect of a specific genotype is not uncommon, and this can be done by adding it as a covariate in your regression model. I'm sure it is technically possible to do this correction / "normalization" upfron ...
written 5 days ago by mbyvcm330
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Answer: A: Gene synonyms/aliases - Is there a way to collect them programmatically
... This [post][1] may be of use to you [1]: https://www.biostars.org/p/126277/ ...
written 6 weeks ago by mbyvcm330
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Answer: A: p-value and FDR
... Your Bonferroni corrected threshold for n=15000 will be; 0.05/15000 = 3.33e-06. While it is reasonable to reduce the multiple testing burden by selecting a subset of genes, this should have been decided upfront (not ad-hoc). Otherwise it becomes a fishing exercise. You may want to consider doing a f ...
written 7 weeks ago by mbyvcm330
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Answer: A: Bacterial genome annotation
... [RAST][1] [1]: http://www.nmpdr.org/FIG/wiki/view.cgi/FIG/RapidAnnotationServer ...
written 8 weeks 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 11 weeks 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 11 weeks 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 11 weeks 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 3 months 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 3 months 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 3 months ago by mbyvcm330

Latest awards to mbyvcm

Scholar 8 months ago, created an answer that has been accepted. For C: merging plink files
Teacher 8 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 10 months ago, created an answer that has been accepted. For C: merging plink files
Teacher 10 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 10 months ago, created an answer that has been accepted. For C: merging plink files

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