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Inquiry about of Integrated Camellia-seq data joint profiling 4 kinds of data #9

Open Zhklu2003 opened 3 weeks ago

Zhklu2003 commented 3 weeks ago

Hi Dr. Wang,

I have just read your paper "A mouse model with high clonal barcode diversity for joint lineage, transcriptomic, and epigenomic profifiling in single cells" and fairly interested in the Camellia-seq data. Is this data offered in this post? Could you give a guidance to find it? Thanks!

ShouWenWang commented 3 weeks ago

You can find it here https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE222486

-- Shou-Wen Wang, Ph.D. Principal Investigator School of Life Sciences | School of Science Westlake University Shilongshan ST #18, Xihu, Hangzhou, Zhejiang https://www.shouwenwang-lab.com/

From: Zhklu2003 @.> Date: Friday, July 5, 2024 at 7:30 AM To: ShouWenWang-Lab/snakemake_DARLIN @.> Cc: Subscribed @.***> Subject: [ShouWenWang-Lab/snakemake_DARLIN] Inquiry about of Integrated Camellia-seq data joint profiling 4 kinds of data (Issue #9)

Hi Dr. Wang,

I have just read your paper "A mouse model with high clonal barcode diversity for joint lineage, transcriptomic, and epigenomic profifiling in single cells" and fairly interested in the Camellia-seq data. Is this data offered in this post? Could you give a guidance to find it? Thanks!

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Zhklu2003 commented 3 weeks ago

Thanks! But I still puzzled with conncetions between files.

  1. Why is there so many scATACseq as well as DNA methylation corresponding to one scRNA file? For example, Camellia-seq-lineage_LL744-P1-CC, Camellia_AGM-HSC_LL744EP1_RNA, Camellia_AGM-HSC_LL744EP1_DNA_A1(2,3,...11)

Are they the corresponding joint profile?

  1. What does the TC/CC/RC,_rep mean? They appear in the file names of barcode information.

Could you give me some guidances or is there any introduction to how each file gets its name? Thanks a lot!!!