Obtaining RNA seq data from NCBI
Hi,
I am looking for RNA seq data of some pseudomonas aeruginosa (100 genomes). I have assembly number (e.g. Assembly: GCF_000750905.1) for those genomes. I am not sure all of them have publicly available RNA seq data or not. How can I obtain corresponding RNA seq data ( SRA files) for those genomes?
Cheers
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shivangi.agarwal800
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saadleeshehreen
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saadleeshehreen
1 answer
You can find the corresponding genome entry at EBI-ENA here. It appears that the submitter's only submitted finished genome sequence (and not the raw data). According to the linked paper the genome was sequenced on Roche 454.
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For SRA files, you can refer GEO (Gene Expression Omnibus) database.
I understand that. But I can't figure out how to retrieve SRA id of corresponding GCF id? For example, I couldn't manage to find any SRA file for GCF_000750905.1.