Question

annotation and genetic variants

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5.8 years ago

deeksha3696 ▴ 10

Hey!!

We have differential expressed genes. Now we need to find the markers, genetic variants, and annotations. What should we do to do the further process?

We have RNA seq data of rice from this we extracted differentially expressed genes.

Thank you!

snp RNA-Seq • 1.1k views

ADD COMMENT • link updated 17 months ago by Ram 44k • written 5.8 years ago by deeksha3696 ▴ 10

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we have differential expressed genes. now we need to find the markers, genetic variants, and annotations.

It is unclear which data exactly you have and what you aim to achieve. Please elaborate.

ADD REPLY • link 5.8 years ago by WouterDeCoster 47k

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what are molecular markers?

ADD REPLY • link 5.8 years ago by deeksha3696 ▴ 10

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is it SSR ,SNP,MARKER ID,annotation

ADD REPLY • link 5.8 years ago by deeksha3696 ▴ 10

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Please paste a small example of the results that you have. Is it just a list of genes?

What do you mean by "markers"? What do you mean by "genetic variants" in the context of differentially expressed genes?

Please put yourself in our situation. You have not helped us to understand what you want to do.

ADD REPLY • link 5.8 years ago by Kevin Blighe 88k

score 0 · Answer 1 · 2019-03-04

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5.7 years ago

pltbiotech_tkarthi ▴ 180

You can try to generate VCF file from your sequences using reference genome sequence and follow this link for more info. A: Allele frequency visualization

ADD COMMENT • link 5.7 years ago by pltbiotech_tkarthi ▴ 180