Longitudinal bulk RNA-seq of murine Il10KO colitis
Single-cell RNA-seq · mouse · 18 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
- Mus musculus (mouse)
- Samples
- 18 samples: 6 conditions, mostly in triplicateGroups 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
- Spatiotemporal analysis reveals distinct inflammatory programs underlying chronic colitisImmunity · 2026
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 GSE260595_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 PRJNA1082287 and SRA study SRP492598. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8120422 Colon, WT W6, replicate 1 Colon, WT W6,
- GSM8120423 Colon, WT W6, replicate 2 Colon, WT W6,
- GSM8120424 Colon, WT W6, replicate 3 Colon, WT W6,
- GSM8120425 Colon, Il10KO W6, replicate 1 Colon, Il10KO W6,
- GSM8120426 Colon, Il10KO W6, replicate 2 Colon, Il10KO W6,
- GSM8120427 Colon, Il10KO W6, replicate 3 Colon, Il10KO W6,
- GSM8120428 Colon, Il10KO W8, replicate 1 Colon, Il10KO W8,
- GSM8120429 Colon, Il10KO W8, replicate 2 Colon, Il10KO W8,
- GSM8120430 Colon, Il10KO W8, replicate 3 Colon, Il10KO W8,
- GSM8120431 Colon, Il10KO W10, replicate 1 Colon, Il10KO W10,
- GSM8120432 Colon, Il10KO W10, replicate 2 Colon, Il10KO W10,
- GSM8120433 Colon, Il10KO W10, replicate 3 Colon, Il10KO W10,
- GSM8120434 Colon, Il10KO W12, replicate 1 Colon, Il10KO W12,
- GSM8120435 Colon, Il10KO W12, replicate 2 Colon, Il10KO W12,
- GSM8120436 Colon, Il10KO W12, replicate 3 Colon, Il10KO W12,
- GSM8120437 Colon, Il10KO W14, replicate 1 Colon, Il10KO W14,
- GSM8120438 Colon, Il10KO W14, replicate 2 Colon, Il10KO W14,
- GSM8120439 Colon, Il10KO W14, replicate 3 Colon, Il10KO W14,
- GSE255423 Longitudinal scRNA-seq of murine Il10KO colitis 24 samples shares il10ko, longitudinal, rna-seq, colitis
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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.