This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Retrieve "Abstract" of SRP accession from SRA

From SRA, how can I retrieve the "abstract" information for each SRP project in a list SRP projects?

For example, for SRP241771 I need "RNAseq data for Candida glabrata strain BG2 under different conditions".

SRA-toolkit and SRA Selector do not seems to have this function to download "abstracts".

Thanks

sra
• 1,859 views • link
updated by GenoMax GenoMax • written by grant.hovhannisyan grant.hovhannisyan

the loading of metadata hangs for some reason. also it does not seem to have the abstract info there

• 0 views • link
written by grant.hovhannisyan grant.hovhannisyan

1 answer

Using Entrezdirect :

$ esearch -db sra -query "SRP241771" | esummary -format native | xtract -pattern STUDY_ABSTRACT -element STUDY_ABSTRACT
RNAseq data for Candida glabrata strain BG2 under different conditions
RNAseq data for Candida glabrata strain BG2 under different conditions
• 0 views • link
written by GenoMax GenoMax

Log in to answer this question.

More posts like this