Expansion of cytotoxic CD4 T-cell clusters in lymph nodes of patients with Common Variable Immunodeficiency
RNA-seq (gene expression) · human · 8 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 8 samples: 4 × CVID LN vs 4 × HD TonsGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Expansion of a distinct cytotoxic CD4 T(FH)-cell cluster in lymph nodes of patients with complicated common variable immunodeficiencyThe Journal of allergy and clinical immunology · 2026
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE274117_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1144977 and SRA study SRP524593. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 8 samples.
How we read this: 2 replicated groups read from 8 sample titles; they account for 8 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8443693 CVID LN 4 CVID LN
- GSM8443694 CVID LN 2 CVID LN
- GSM8443695 HD Tons 2 HD Tons
- GSM8443696 HD Tons 3 HD Tons
- GSM8443697 HD Tons 4 HD Tons
- GSM8443698 CVID LN 1 CVID LN
- GSM8443699 HD Tons 1 HD Tons
- GSM8443700 CVID LN 3 CVID LN
- GSE299706 Transcriptome regulation in T-cells and monocytes in patients with Common Variable Immunodeficiency 20 samples shares immunodeficiency, variable, t-cell, common
- GSE329693 Microbiome-Derived Metabolites Shape CD4⁺ T-Cell Differentiation and Immune Aging in Chronic HIV-1 Infection [RNA-Seq] 36 samples shares cd4, t-cell
- GSE285617 Characterization and effective expansion of CD4-CD8- TCRab+ T cells from individuals living with type 1 diabetes 24 samples shares cd4, expansion
- GSE298578 Single cell RNA profiling of blood CD4+ T cells identifies distinct helper and dysfunctional regulatory clusters in children with SLE (5' PBMC validation dataset) 14 samples shares cd4, clusters
- GSE288989 A distinct subset of stem-cell memory is poised for the cytotoxicity program in CD4+ T cells in humans 290 samples shares cd4, cytotoxic
- GSE266862 Single-cell RNA sequencing comparison of CD4+, CD8+ and T-cell receptor γδ+ cutaneous T-cell lymphomas reveals subset-specific molecular phenotypes 44 samples shares cd4, t-cell
- GSE149652 Intratumoral CD4+ T cells mediate anti-tumor cytotoxicity in human bladder cancer 28 samples shares cd4, cytotoxic
- GSE277428 NKG2D-mediated cytotoxicity of CD4 cytotoxic T cells in multiple myeloma 27 samples shares cd4, cytotoxic
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.