Is there an easy way to retrieve gene expression profile along with survival information from Gene Expression Omnibus (GEO) database?

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Ulrich Pfeffer

No. We had the same problem and had to curate clinical data manually. If anybody has a solution I would be eager to hear it.

Venil N Sumantran

This does not answer the question directly. But, the free BRB tool (developed by NCI) can do Class prediction, Class comparison, and Quantitative trait analysis (Survival is one of them). There are good papers which have used this tool. Hope this helps

Ruhul Amin

Thanks everyone for their helpful information.

Alain Coletta

Try InSilico DB (https://insilicodb.org) GEO data is imported, manually curated, and formatted ready to be analyzed. Search for "survival" and press the "edit/show clinical annotations" button for details on the resulting datasets. you can export to GenePattern to analyze the data and you can also export the clinical annotation including survival data to .txt format.

Hope this helps.