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A few questions... #4

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CharlotteAnne opened this issue Apr 17, 2018 · 0 comments
Open

A few questions... #4

CharlotteAnne opened this issue Apr 17, 2018 · 0 comments

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@CharlotteAnne
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Hi! I am starting to use MINTmap and I have what are probably very obvious questions from reading the paper and getting to grips with tRNA mapping:

  1. How can we make the assumption that sequences from small-RNASeq are derived from tRNA fragments rather than full length tRNAs? Is this down to size selection at the level of library preparation?
  2. Is it reasonable to use MINTmap to approximate read proportions to full length tRNAs ie. by mapping to the lookup table and then summing unambiguous reads to a reasonable level of abstraction (ie. amino acid or isoacceptor)? Or are there inherent assumptions of MINTmap that would make this invalid?
    Thank you for any help you can give. Also please add mouse lookup!! ;)
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@CharlotteAnne