Epigenetic Memory of Intestinal Epithelial Cells in Inflammatory Bowel Disease [RNA-seq]
RNA-seq (gene expression) · human · 56 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
- 56 samples: 22 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
- Intestinal Stem Cells From Patients With Inflammatory Bowel Disease Retain an Epigenetic Memory of InflammationCellular and molecular gastroenterology and hepatology · 2026
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 GSE282444_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 PRJNA1188591 and SRA study SRP546540. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 12 samples read as cases, 8 as controls.
How we read this: 22 replicated groups read from 56 sample titles; they account for 56 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.
- GSM8643373 Subject 115 Noninflamed Rep 1 Subject 115 Noninflamed
- GSM8643374 Subject 115 Noninflamed Rep 2 Subject 115 Noninflamed
- GSM8643375 Subject 115 Noninflamed Rep 3 Subject 115 Noninflamed
- GSM8643376 Subject 115 Inflamed Rep 1 Subject 115 Inflamed
- GSM8643377 Subject 115 Inflamed Rep 2 Subject 115 Inflamed
- GSM8643378 Subject 115 Inflamed Rep 3 Subject 115 Inflamed
- GSM8643379 Subject 13 Noninflamed Rep 1 Subject 13 Noninflamed
- GSM8643380 Subject 13 Noninflamed Rep 2 Subject 13 Noninflamed
- GSM8643381 Subject 13 Noninflamed Rep 3 Subject 13 Noninflamed
- GSM8643382 Subject 13 Inflamed Rep 1 Subject 13 Inflamed
- GSM8643383 Subject 13 Inflamed Rep 2 Subject 13 Inflamed
- GSM8643384 Subject 13 Inflamed Rep 3 Subject 13 Inflamed
- GSM8643385 Subject 3 Noninflamed Rep 1 Subject 3 Noninflamed
- GSM8643386 Subject 3 Noninflamed Rep 2 Subject 3 Noninflamed
- GSM8643387 Subject 3 Noninflamed Rep 3 Subject 3 Noninflamed
- GSM8643388 Subject 3 Inflamed Rep 1 Subject 3 Inflamed
- GSM8643389 Subject 3 Inflamed Rep 2 Subject 3 Inflamed
- GSM8643390 Subject 3 Inflamed Rep 3 Subject 3 Inflamed
- GSM8643391 Subject 4 Noninflamed Rep 1 Subject 4 Noninflamed
- GSM8643392 Subject 4 Noninflamed Rep 2 Subject 4 Noninflamed
- GSM8643393 Subject 4 Noninflamed Rep 3 Subject 4 Noninflamed
- GSM8643394 Subject 4 Noninflamed + Treated with TNF100 Rep 1 Subject 4 Noninflamed +…
- GSM8643395 Subject 4 Noninflamed + Treated with TNF100 Rep 2 Subject 4 Noninflamed +…
- GSM8643396 Subject 4 Noninflamed + Treated with TNF10 Rep 1 Subject 4 Noninflamed +…
- GSM8643397 Subject 4 Noninflamed + Treated with TNF10 Rep 2 Subject 4 Noninflamed +…
- GSM8643398 Subject 4 Noninflamed Control Rep 1 Subject 4 Noninflamed C…
- GSM8643399 Subject 4 Noninflamed Control Rep 2 Subject 4 Noninflamed C…
- GSM8643400 Subject 4 Inflamed Rep 1 Subject 4 Inflamed
- GSM8643401 Subject 4 Inflamed Rep 2 Subject 4 Inflamed
- GSM8643402 Subject 4 Inflamed Rep 3 Subject 4 Inflamed
- GSM8643403 Subject 4 Inflamed + Treated with TNF100 Rep 1 Subject 4 Inflamed + Tr…
- GSM8643404 Subject 4 Inflamed + Treated with TNF100 Rep 2 Subject 4 Inflamed + Tr…
- GSM8643405 Subject 4 Inflamed + Treated with TNF10 Rep 1 Subject 4 Inflamed + Tr…
- GSM8643406 Subject 4 Inflamed + Treated with TNF10 Rep 2 Subject 4 Inflamed + Tr…
- GSM8643407 Subject 4 Inflamed Control Rep 1 Subject 4 Inflamed Cont…
- GSM8643408 Subject 4 Inflamed Control Rep 2 Subject 4 Inflamed Cont…
- GSM8643409 Subject 83 Noninflamed + Treated with TNF10 Rep 1 Subject 83 Noninflamed …
- GSM8643410 Subject 83 Noninflamed + Treated with TNF10 Rep 2 Subject 83 Noninflamed …
- GSM8643411 Subject 83 Noninflamed Rep 1 Subject 83 Noninflamed
- GSM8643412 Subject 83 Noninflamed Rep 2 Subject 83 Noninflamed
+ 16 more — browse all 56 samples with per-sample file links →
- GSE310058 Single-nucleus transcriptomic profiling of human lung tissue in chronic obstructive pulmonary disease (COPD) [snRNA-seq] 149 samples shares rna-seq
- GSE303271 RNA-seq of liver biopsies from patients with pediatric autoimmune liver disease 64 samples shares rna-seq
- GSE202379 Single Nuclei RNA-Seq to map progression of non-alcoholic fatty liver disease (NAFLD) in patients II 59 samples shares rna-seq
- GSE210077 Single nuclei RNA-sequencing of normal and diseased liver 40 samples shares rna-seq
- GSE319641 RNA-Seq profiling of pre- and on-treatment tumor samples from breast cancer patients enrolled in the NeoTRIP trial. 401 samples shares rna-seq
- GSE205154 Bulk RNA-Seq gene expression data for 289 primary and metastatic pancreatic ductal adenocarcinoma (PDAC) tumor samples from FFPE blocks. 289 samples shares rna-seq
- GSE309595 Longitudinal Analysis of Multiple Myeloma: Therapeutic Response and Immune Microenvironment Dynamics in the Context of Tumor Heterogeneity [scRNA-seq] 270 samples shares rna-seq
- GSE297742 Bulk RNA-seq of primary tumor biopsy samples from prostate adenocarcinoma patients 234 samples shares 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.