How to extract Isolation source Attributes from Biosample db using NCBI eutils

Question

[Prasad]

Hello,

I am trying extract Isolation source attributes from ncbi Biosample database using ncbi eutils. I used following command but it's not returning empty

esearch -db biosample -query "SAMN02850961" | efetch -format xml | xtract -pattern BioSampleSet -element Attributes display_source

Please let me know what I am doing wrong.

Thanks in Advance.

Answer 1

[GenoMax]

$ esearch -db biosample -query "SAMN02850961" | efetch -format xml | xtract -pattern BioSampleSet -element Attribute
DNF00037    missing missing HMP2129 Corynebacterium tuscaniense DNF00037    vagina  Homo sapiens    missing

or

$ esearch -db biosample -query "SAMN02850961" | efetch -format native | grep isolation
    /isolation source="vagina"