The role of RUNX2 and BHLHE40 in pathologically relevant CD4-positive tissue-resident T-cells in Crohn's disease.
RNA-seq (gene expression) · human · 12 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
- 12 samples: 3 × C vs 3 × B vs 3 × RBGroups 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
- Multi-omics uncovers transcriptional programs of gut-resident memory CD4+ T cells in Crohn's diseaseThe Journal of experimental medicine · 2025
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 GSE275362_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 PRJNA1150537 and SRA study SRP527780. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 9 samples.
How we read this: 3 replicated groups read from 12 sample titles; they account for 9 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.
- GSM8475572 C_1 C
- GSM8475573 C_2 C
- GSM8475574 C_3 C
- GSM8475575 R_1
- GSM8475576 R_2
- GSM8475577 R_3
- GSM8475578 B_1 B
- GSM8475579 B_2 B
- GSM8475580 B_3 B
- GSM8475581 RB_1 RB
- GSM8475582 RB_2 RB
- GSM8475583 RB_3 RB
- GSE300850 The role of RUNX2 and BHLHE40 in pathologically relevant CD4-positive tissue-resident T-cells in Crohn's disease. (RNA-seq, CD4+ T cell, part2) 6 samples shares bhlhe40, runx2, tissue-resident, pathologically, cd4-positive, relevant, t-cells, crohn
- GSE300848 The role of RUNX2 and BHLHE40 in pathologically relevant CD4-positive tissue-resident T-cells in Crohn's disease. (RNA-seq, CD4+ T cell, part1) 3 samples shares bhlhe40, runx2, tissue-resident, pathologically, cd4-positive, relevant, t-cells, crohn
- GSE281504 The role of RUNX2 and BHLHE40 in pathologically relevant CD4-positive tissue-resident T-cells in Crohn's disease. (CITE-seq, CD4+ T cell) 18 samples shares bhlhe40, runx2, tissue-resident, pathologically, cd4-positive, relevant, t-cells, crohn
- GSE280714 The role of RUNX2 and BHLHE40 in pathologically relevant CD4-positive tissue-resident T-cells in Crohn's disease. (scMultiome) 12 samples shares bhlhe40, runx2, tissue-resident, pathologically, cd4-positive, relevant, t-cells, crohn
- GSE303141 The role of RUNX2 and BHLHE40 in pathologically relevant CD4-positive tissue-resident T-cells in Crohn's disease. (CUT&RUN) 12 samples shares bhlhe40, runx2, tissue-resident, pathologically, cd4-positive, relevant, t-cells, crohn
- GSE301689 The role of RUNX2 and BHLHE40 in pathologically relevant CD4-positive tissue-resident T-cells in Crohn's disease. (CITE-seq, CD4+ T cell) II 9 samples shares bhlhe40, runx2, tissue-resident, pathologically, cd4-positive, relevant, t-cells, crohn
- GSE281509 The role of RUNX2 and BHLHE40 in pathologically relevant CD4 positive tissue-resident T-cells in Crohn's disease. (CITE-seq, CD4+ CD103+ T cell) 6 samples shares bhlhe40, runx2, tissue-resident, pathologically, relevant, t-cells, crohn
- GSE232239 CD49a expression and induction of cytotoxicity on human tissue-resident CD8+ T cells is controlled by RUNX2 and RUNX3 transcription factor activity 55 samples shares runx2, tissue-resident
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.