Question

Eukaryotic genome annotation steps

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9.7 years ago

prp291 ▴ 70

Hi,

I have some whole genome shot gun contigs. Now I want to annotate those contigs. So my question is what are exacty protocol to annotate a eukarotic genome. Should I clean the contigs by removing the non coding RNA sequences, transposable lemnets etc. and then go for gene prediction programs or I can directly go gene prediction programs

sequencing genome • 4.2k views

ADD COMMENT • link updated 2.4 years ago by Ram 43k • written 9.7 years ago by prp291 ▴ 70

Ram · Answer 1 · 2014-08-18

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9.7 years ago

Zev.Kronenberg 12k

"A beginner's guide to eukaryotic genome annotation"

ADD COMMENT • link updated 2.4 years ago by Ram 43k • written 9.7 years ago by Zev.Kronenberg 12k

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I know this paper but they haven't mentioned aboout transposable element prediction or non coding RNA sequence removal. Is this not a necessary step?

ADD REPLY • link 9.7 years ago by prp291 ▴ 70

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Look at the section in the paper: STEP 1

ADD REPLY • link updated 2.4 years ago by Ram 43k • written 9.7 years ago by Zev.Kronenberg 12k