GSE247544 scRNA-seq Data Processing

scRNA-seq geo_data_processing 3 steps

Publication

Foxo1 regulates intestinal tissue-resident memory CD8 T cell biology in an anatomic compartment- and context-specific manner.

Science immunology (2025) — PMID 40215325

Dataset

GSE247544

Foxo1 regulates intestinal tissue-resident memory CD8 T cell biology in an anatomic compartment- and context-specific manner

Warning: Pipeline descriptions and code snippets may be inferred or AI-generated. Use them only as a starting point to guide analysis, and validate before use.

Processing Steps

Generate Jupyter Notebook
  1. 1

    Cell Ranger (v6.1.2) was used to process sequencing information and single cell barcodes.

    Cell Ranger v6.1.2
  2. 2

    Gene and cell filtering, clustering, differential and average expression using Seurat (v4.1.1)

    Seurat v4.1.1
  3. 3

    Library strategy: CITE-seq

Raw Source Text 
Cell Ranger (v6.1.2) was used to process sequencing information and single cell barcodes.
Gene and cell filtering, clustering, differential and average expression using Seurat (v4.1.1)
Assembly: mm10
Supplementary files format and content: 10x Genomics output files: barcodes.tsv.gz, features.tsv.gz, matrix.mtx.gz
Library strategy: CITE-seq
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