Inflammatory transcriptomic signatures and cell type compositions in inflamed and non-inflamed colonic mucosa of ulcerative colitis
Single-cell RNA-seq · human · 45 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 45 samples: 15 × N vs 15 × I vs 15 × AGroups 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
- Inflammatory transcriptomic signatures and cell type compositions in inflamed and non-inflamed colonic mucosa of ulcerative colitisGenes & diseases · 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 GSE243625_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1019284 and SRA study SRP461950. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 45 samples.
How we read this: 3 replicated groups read from 45 sample titles; they account for 45 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.
- GSM7791977 N1 N
- GSM7791978 N2 N
- GSM7791979 N3 N
- GSM7791980 N4 N
- GSM7791981 N5 N
- GSM7791982 N6 N
- GSM7791983 N7 N
- GSM7791984 N8 N
- GSM7791985 N9 N
- GSM7791986 N10 N
- GSM7791987 N11 N
- GSM7791988 N12 N
- GSM7791989 N13 N
- GSM7791990 N14 N
- GSM7791991 N15 N
- GSM7791992 I1 I
- GSM7791993 I2 I
- GSM7791994 I3 I
- GSM7791995 I4 I
- GSM7791996 I5 I
- GSM7791997 I6 I
- GSM7791998 I7 I
- GSM7791999 I8 I
- GSM7792000 I9 I
- GSM7792001 I10 I
- GSM7792002 I11 I
- GSM7792003 I12 I
- GSM7792004 I13 I
- GSM7792005 I14 I
- GSM7792006 I15 I
- GSM7792007 A1 A
- GSM7792008 A2 A
- GSM7792009 A3 A
- GSM7792010 A4 A
- GSM7792011 A5 A
- GSM7792012 A6 A
- GSM7792013 A7 A
- GSM7792014 A8 A
- GSM7792015 A9 A
- GSM7792016 A10 A
+ 5 more — browse all 45 samples with per-sample file links →
- GSE311760 IL-22 induces Paneth cell metaplasia in the colonic epithelium of ulcerative colitis, promoting wound healing via REG3A 18 samples shares ulcerative, colonic, colitis
- GSE296969 Gene expression at single cell level of stromal cells from the distal colon of normal sites of colorectal cancer and inflamed sites of ulcerative colitis. 13 samples shares ulcerative, inflamed, colitis
- GSE334803 RNA sequencing of colonic tissues from ulcerative colitis patients and healthy controls 12 samples shares ulcerative, colonic, colitis
- GSE190564 Divergent spatial microdomains drive inflammation and repair in Ulcerative and Immune Checkpoint Therapy Colitis - whole tissue scRNA-Seq 62 samples shares ulcerative, colitis
- GSE282580 Colon tissue gene expression associated with vedolizumab treatment effectiveness in ulcerative colitis. 60 samples shares ulcerative, colitis
- GSE245890 Analysis of rectal transcriptome in ulcerative colitis (UC) patients who received tofacitinib 51 samples shares ulcerative, colitis
- GSE288617 Paired transcriptomics reveals similarities between cytokine-stimulated organoids and ulcerative colitis epithelial responses 41 samples shares ulcerative, colitis
- GSE284191 Pathogenesis elucidation of Ulcerative Colitis Focusing on Appendix Immunity 27 samples shares ulcerative, colitis
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.