Question: One BioSample per single cell ?
gravatar for Charles Plessy
22 months ago by
Charles Plessy2.4k
Charles Plessy2.4k wrote:

In a single-cell analysis project we are about to deposit transcriptome data in the INSDC through DDBJ. Looking at prior art in NCBI's GEO, I see some examples where each single cell is registered as one BioSample. But I wonder if this defeats the purpose of BioSamples, that allow to link multiple records Barrett et al., 2012, whereas in such cases each BioSample is associated with a single data record only. In our case we have replicates batches of cell culture, and I wonder if it would make more sense to register these cell culture replicates as BioSamples, and link each single-cell transcriptome to their BioSample. What are Biostars' opinions ?

ADD COMMENTlink modified 21 months ago by Biostar ♦♦ 20 • written 22 months ago by Charles Plessy2.4k

I thought GEO handles the BioProject and BioSample creation part? At least that's why I prefer GEO >>> SRA

ADD REPLYlink written 22 months ago by fanli.gcb640
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