Question: One BioSample per single cell ?
0
gravatar for Charles Plessy
2.2 years ago by
Charles Plessy2.5k
Japan
Charles Plessy2.5k 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 2.1 years ago by Biostar ♦♦ 20 • written 2.2 years ago by Charles Plessy2.5k

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

ADD REPLYlink written 2.2 years ago by fanli.gcb650
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 908 users visited in the last hour