Cathepsin L-Dependent Positive Selection Shapes Clonal Composition and Functional Fitness of CD4 T Cells [RNA]
RNA-seq (gene expression) · mouse · 13 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
- Mus musculus (mouse)
- Samples
- 13 samples: 7 × M2_CtslΔTEC mouse vs 6 × M2_WT mouseGroups 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
- Cathepsin L-dependent positive selection shapes clonal composition and functional fitness of CD4(+) T cellsNature immunology · 2025
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 GSE269197_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 PRJNA1120487 and SRA study SRP512065. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 13 samples.
How we read this: 2 replicated groups read from 13 sample titles; they account for 13 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.
- GSM8308362 M2_CtslΔTEC mouse1 M2_CtslΔTEC mouse
- GSM8308363 M2_CtslΔTEC mouse3 M2_CtslΔTEC mouse
- GSM8308364 M2_WT mouse4 M2_WT mouse
- GSM8308365 M2_CtslΔTEC mouse4 M2_CtslΔTEC mouse
- GSM8308366 M2_CtslΔTEC mouse5 M2_CtslΔTEC mouse
- GSM8308367 M2_CtslΔTEC mouse2 M2_CtslΔTEC mouse
- GSM8308368 M2_WT mouse1 M2_WT mouse
- GSM8308369 M2_WT mouse2 M2_WT mouse
- GSM8308370 M2_WT mouse3 M2_WT mouse
- GSM8308371 M2_CtslΔTEC mouse6 M2_CtslΔTEC mouse
- GSM8308372 M2_CtslΔTEC mouse7 M2_CtslΔTEC mouse
- GSM8308373 M2_WT mouse5 M2_WT mouse
- GSM8308374 M2_WT mouse6 M2_WT mouse
- GSE317035 Tissue-specific clonal selection and differentiation of CD4⁺ T cells during infection. 23 samples shares cd4, selection
- GSE255409 Single-cell RNA sequencing of CD45 positive cells in spleen, bone marrow, colon and periphral blood from WT and Wnt5 DKO mice under DSS treatment 10 samples shares cd4, positive
- GSE275471 Proximity-dependent labeling identifies dendritic cells that prime the antitumor CD4+ T cell response 857 samples shares cd4
- GSE278003 Single cell RNA sequencing of CD45+ immune cells from tumor and tumor-adjacent mammary adipose tissue in a postmenopausal breast cancer model of lean, obese, and weight loss Trem2+/+ and Trem2-/- mice 92 samples shares cd4
- GSE235059 ICOSL, OX40L, and CD30L Control Persistence of Asthmatic CD4 Trm Cells 80 samples shares cd4
- GSE201228 CD4+ T cell activation in absence of WNK1 72 samples shares cd4
- GSE227937 MicroRNA-150 controls experimental autoimmune encephalomyelitis by regulating CD4 T cell differentiation and function 69 samples shares cd4
- GSE226649 The immune landscape of the “deregulated host response” in sepsis: newly emerging MDSCs with high expression of CD47 leads to B cell suppression via App-CD74 signaling 64 samples shares cd4
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.