TL1A-activated Tcells as upstream regulators of perianal fistulizing disease-associated changes in the rectum of Crohn's Disease patients [RNA-seq]
Single-cell RNA-seq · human · 28 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
- 28 samples: 10 × CTRL vs 6 × LTB vs 6 × TGFB vs 6 × TNFGroups 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
- TL1A-activated T cells remodel the rectal mucosa in patients with Crohn's disease with perianal fistulising diseaseGut · 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 GSE291014_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 PRJNA1231395 and SRA study SRP567779. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 28 samples.
How we read this: 4 replicated groups read from 28 sample titles; they account for 28 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.
- GSM8827566 LTB10 LTB
- GSM8827567 TGFB11 TGFB
- GSM8827568 TNF12 TNF
- GSM8827569 CTRL13 CTRL
- GSM8827570 LTB14 LTB
- GSM8827571 TGFB15 TGFB
- GSM8827572 TNF16 TNF
- GSM8827573 CTRL17 CTRL
- GSM8827574 TNF18 TNF
- GSM8827575 TGFB19 TGFB
- GSM8827576 CTRL1 CTRL
- GSM8827577 CTRL20 CTRL
- GSM8827578 TNF21 TNF
- GSM8827579 TGFB22 TGFB
- GSM8827580 CTRL26 CTRL
- GSM8827581 TGFB27 TGFB
- GSM8827582 TNF28 TNF
- GSM8827583 CTRL29 CTRL
- GSM8827584 LTB2 LTB
- GSM8827585 TGFB30 TGFB
- GSM8827586 TNF31 TNF
- GSM8827587 CTRL3 CTRL
- GSM8827588 LTB4 LTB
- GSM8827589 CTRL5 CTRL
- GSM8827590 LTB6 LTB
- GSM8827591 CTRL7 CTRL
- GSM8827592 LTB8 LTB
- GSM8827593 CTRL9 CTRL
- GSE290220 TL1A-activated Tcells as upstream regulators of perianal fistulizing disease-associated changes in the rectum of Crohn's Disease patients [scRNA-seq] 29 samples shares disease-associated, tl1a-activated, fistulizing, regulators, upstream, perianal, changes, rna-seq
- GSE291125 TL1A-activated Tcells as upstream regulators of perianal fistulizing disease-associated changes in the rectum of Crohn's Disease patients. 2 samples shares disease-associated, tl1a-activated, fistulizing, regulators, upstream, perianal, changes
- GSE290282 Large-scale tethered screen of RNA-binding proteins reveals novel regulators of poly(A) site selection [RNA-Seq] 92 samples shares regulators, rna-seq
- GSE279032 Genome-wide CRISPR screen identifies Menin and SUZ12 as regulators of human developmental timing [RNA-seq] 60 samples shares regulators, rna-seq
- GSE316395 Human spinal cord organoids recapitulate developmental and disease-associated oligodendrocyte lineage signatures [RNA-Seq] 47 samples shares disease-associated, rna-seq
- GSE256497 COMPARATIVE SINGLE CELL PROFILING OF MUCOSA AND ORGANOIDS IMPLICATES ALTERED EPITHELIAL-MESENCHYMAL INTERACTIONS MEDIATED BY PTGER4 IN PERIANAL FISTULIZING CROHN’S DISEASE 44 samples shares fistulizing, perianal
- GSE301135 3'UTR-dependent activity of transcription factors and chromatin regulators [RNA-seq] 21 samples shares regulators, rna-seq
- GSE280581 Intragenic Epigenetic Deregulation by IDH2 Mutations Synergizes with SRSF2 Mutations Causing Mis-splicing of Key Transcriptional Regulators [RNA-seq] 20 samples shares regulators, rna-seq
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.