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icbi-lab / luca

Single-cell Lung Cancer Atlas with 1.2M cells

Home Page:https://luca.icbi.at

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Is there rds/Seurat data can be downloaded for extended and Core atlas with the mutation information of STK11?

shawnql08 opened this issue · comments

commented

Hi, I am not a professional bioinformatics person. I am interested in the data with or without STK11 mutations. Could you please let me know which dataset that I can download? It would be great if the dataset include the mutations information of STK11 as well as other key oncogenes mentioned in the paper? I can only start with RDS or Seurat data. Could you please send me the direct link to download the data?

I sincerely appreciate your help.

Regards,
Shawn

commented

Hi @shawnql08,

I'm afraid there is no mutation data for the single-cell datasets (to my knowledge, the only dataset in our atlas with genotypic information is from Maynard et al.).

In our paper, we integrated bulk RNA-seq data from TCGA which has mutation data with the single cell data using scissor to associate cells with mutations.