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location Copenhagen, Denmark
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seen Oct 8 at 16:13

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asked Nucleotide frequencies in Kimura's two-parameter model
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answered Introductory literature for synthetic / systems biology?
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comment What is the tRNA gene copy variation between different yeast strains?
I don't think the coverage is deep enough (1-4x) for de novo assembly but I'll try running tRNAscan-SE on the unassembled reads and maybe try to see if there's a difference in coverage of some tRNA genes which would suggest that duplicated genes have been mapped on the same locus.
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revised What is the tRNA gene copy variation between different yeast strains?
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Feb
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comment What is the tRNA gene copy variation between different yeast strains?
I don't think this will work since it's NGS data assembled against a reference genome. In fact I ran tRNAscan-SE and all strains have exactly the same tRNA GCN as the reference strains but this is a consequence of the assembly process.
Feb
20
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Feb
17
comment What is the tRNA gene copy variation between different yeast strains?
The data I have is for over forty Sc strains so it wouldn't be possible to do those experiments within my timeframe/budget. I'm limited to computational approaches and my best guess was that some copy number variation detection algorithm could be applied to the raw read data.
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asked What is the tRNA gene copy variation between different yeast strains?
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