Finding matched RNA-seq and Ribo-seq datasets for Nicotiana benthamiana under the same condition

Question

[Farshid]

Hello, I am working on translation efficiency analysis in Nicotiana benthamiana. To do this properly, I need paired RNA-seq and Ribo-seq datasets collected under the same biological condition (same tissue, treatment, and time point).

What is the best way to find such matched datasets specifically for N. benthamiana? Are there databases, repositories, or projects you would recommend? Or should I manually search places like NCBI GEO or ENA? Also, are there specific metadata fields I should check to make sure RNA-seq and Ribo-seq samples are compatible?

I would appreciate any advice or pointers. Thank you very much!

Answer 1

[colindaven]

This might be very tricky.

Try here

https://sra-explorer.info/

Search for:

("Nicotiana benthamiana"[Organism] OR Nicotiana benthamiana[All Fields]) AND Ribo-seq[All Fields]

The top few hits might be of interest, you'll need to check in detail.