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SRX5057647: GSM3486911: CD4+ T cells #6; Homo sapiens; RNA-Seq
1 ILLUMINA (Illumina HiSeq 4000) run: 205.8M spots, 37.9G bases, 21.5Gb downloads

Submitted by: NCBI (GEO)
Study: Single cell profiling of CD4+ T cells from human fetal intestine
show Abstracthide Abstract
The fetus is thought to be protected from exposure to foreign antigens, yet CD45RO+ T-cells reside in the fetal intestine. We combined functional assays with mass cytometry, single-cell RNA-sequencing, and high-throughput TCR-sequencing to characterize the fetal intestinal CD4+ T-cell compartment. We identified 22 CD4+ T-cell clusters, including naive-like, regulatory-like, and memory-like subpopulations, which were confirmed and further characterized at the transcriptional level. Memory-like cells expressed high levels of Ki-67, indicating cell division, and CD5, a surrogate marker of TCR-avidity, and produced IFN-? and IL-2. Pathway analysis revealed a differentiation trajectory associated with cellular activation and proinflammatory effector functions, and TCR-repertoire analysis demonstrated clonal expansions, distinct repertoire characteristics, and interconnections between subpopulations of memory-like CD4+ T-cells. Imaging-mass cytometry further showed that memory-like CD4+ T-cells colocalized with antigen-presenting cells. Collectively, these results provided evidence for the generation of memory-like CD4+ T-cells in the human fetal intestine, consistent with exposure to foreign antigens. Overall design: Single, live, CD3+CD8a–TCR?d–CD4+/– T-cells from one human fetal intestines were processed on the Chromium 3' single cell platform (10x Genomics) and sequenced on an Illumina HiSeq 4000.
Sample: GEO accession GSM3486911 is currently private and is scheduled to be released on Nov 24, 2018.
SAMN10471169 • SRS4073850 • All experiments • All runs
Organism: Homo sapiens
Instrument: Illumina HiSeq 4000
Strategy: RNA-Seq
Selection: cDNA
Layout: PAIRED
Construction protocol: A single-cell suspension was prepared following the 10X Genomics single cell sample preparation protocol. Droplet-based single-cell partitioning and single-cell RNA-Seq libraries were generated using the Chromium Single-Cell 3′ Reagent v2 Kit (10X Genomics, Pleasanton, CA) as per the manufacturer's protocol. R2 contains the biological information. R1 has 16bp of 10x barcode and 10bp of UMI. I1 contains the sample index barcode (8bp).
Experiment attributes:
GEO Accession: GSM3486911
Runs: 1 run, 205.8M spots, 37.9G bases, 21.5Gb
Run# of Spots# of BasesSizePublished


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