Question: How to select high quality RNA-seq datasets from SRA database?
gravatar for harrypotterandsbt
10 weeks ago by
harrypotterandsbt10 wrote:

Hi everyone. I have a question about how to find useful datasets from SRA database. I want to built a plant database from RNAs-seq data. But I don't know how to select the datasets which can meet my demand.Because I can find some RNA-seq dataset that every SRA run data has same or less base number compare with the plant species genome . I just need to quantitate the gene expression from RNA-seq datasets , not to find novel transcripts or lncRNA ? So I don't know whether simliar samll dataset can be utilize. Because I know there is a sequencing coverage about the problem. But it is unrealistic to check every dataset's sequencing coverage. How large every SRA run data compared with its genome is suitable for gene expression quantification ?Can someone give some suggestions about the problem?Thanks in advance!

rna-seq sra • 139 views
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