Huge single cell fastq dataset
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5 weeks ago
jys01012 • 0

Hi, i'm looking for upper 1TB human singe cell fastq or fastq.gz files but actually i'm noob about ncbi so it is so hard to find it. Can anybody give my links or even if how to find huge dataset in ncbi?

sequencing cell single count fastq rna cellranger • 229 views
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5 weeks ago
Evan ▴ 150

Hi, Here is few ressources to find Single-Cell datasets for human and different species :

If you don't find what you want, I advice you to search an article related to your research subject and find accession of data in the materials and methods (GSEXXXX for Gene Expression Omnibus for example).

Are you looking for something more precise than a big dataset like an organ to study or cancer specific ? Generally, if you want to process scRNA-Seq data, it's easier to get the ouput of alignment tools with these 3 files :

  • matrix.mtx
  • features.tsv
  • barcodes.tsv

After downloading it you can process them with Seurat : https://satijalab.org/seurat/

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Thanks for your help 👍

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