Characterisation of the regulatory landscape in Crohn’s disease reveals miRNA-associated alterations that shape anti-TNF response (CIBER-120)
RNA-seq (gene expression) · human · 119 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
- 119 samples: 119 samples, each with a distinct title — no replicated groupsGroups 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
- Characterization of the Regulatory Landscape in Crohn's Disease Reveals microRNA-Associated Alterations that Shape Anti-TNF ResponseInflammatory bowel 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 GSE270661_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 PRJNA1127647 and SRA study SRP515699. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 79 samples read as cases, 40 as controls.
How we read this: Read from 119 sample titles: 119 distinct titles with little repetition. 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.
- GSM8349488 Healthy control-1, terminal ileum, basal
- GSM8349489 Healthy control-1, terminal ileum, infliximab
- GSM8349490 Healthy control-1, left colon, basal
- GSM8349491 Healthy control-1, left colon, infliximab
- GSM8349492 Healthy control-2, terminal ileum, basal
- GSM8349493 Healthy control-2, terminal ileum, infliximab
- GSM8349494 Healthy control-2, left colon, basal
- GSM8349495 Healthy control-2, left colon, infliximab
- GSM8349497 Healthy control-3, terminal ileum, basal
- GSM8349500 Healthy control-3, terminal ileum, infliximab
- GSM8349502 Healthy control-3, left colon, basal
- GSM8349503 Healthy control-3, left colon, infliximab
- GSM8349504 Healthy control-4, terminal ileum, basal
- GSM8349505 Healthy control-4, terminal ileum, infliximab
- GSM8349506 Healthy control-4, left colon, basal
- GSM8349507 Healthy control-4, left colon, infliximab
- GSM8349508 Healthy control-5, terminal ileum, basal
- GSM8349509 Healthy control-5, terminal ileum, infliximab
- GSM8349510 Healthy control-5, left colon, basal
- GSM8349511 Healthy control-5, left colon, infliximab
- GSM8349512 Healthy control-6, terminal ileum, basal
- GSM8349513 Healthy control-6, terminal ileum, infliximab
- GSM8349514 Healthy control-6, left colon, basal
- GSM8349515 Healthy control-6, left colon, infliximab
- GSM8349516 Healthy control-7, terminal ileum, basal
- GSM8349517 Healthy control-7, terminal ileum, infliximab
- GSM8349518 Healthy control-7, left colon, basal
- GSM8349519 Healthy control-7, left colon, infliximab
- GSM8349520 Healthy control-8, terminal ileum, basal
- GSM8349521 Healthy control-8, terminal ileum, infliximab
- GSM8349522 Healthy control-8, left colon, basal
- GSM8349523 Healthy control-8, left colon, infliximab
- GSM8349524 Healthy control-9, terminal ileum, basal
- GSM8349525 Healthy control-9, terminal ileum, infliximab
- GSM8349526 Healthy control-9, left colon, basal
- GSM8349527 Healthy control-9, left colon, infliximab
- GSM8349528 Healthy control-10, terminal ileum, basal
- GSM8349529 Healthy control-10, terminal ileum, infliximab
- GSM8349530 Healthy control-10, left colon, basal
- GSM8349531 Healthy control-10, left colon, infliximab
+ 79 more — browse all 119 samples with per-sample file links →
- GSE282496 CD38 expression by neonatal human naïve CD4+ T cells shapes their unique metabolic state and high regulatory T cell potential 41 samples shares regulatory, shape
- GSE341753 Cohesin loading at regulatory elements shapes 3D genome folding during erythropoiesis [RNA-Seq] 12 samples shares regulatory, shape
- GSE294458 Single-Cell RNA-Seq uncovers lineage-specific regulatory alterations of fibroblasts and endothelial cells in ligamentum flavum hypertrophy 2 samples shares alterations, regulatory
- GSE269335 Single-cell multimodal profiling of monocytes reveals diverse phenotypes and alterations linked to cardiovascular disease risks 118 samples shares alterations
- GSE239897 Mucosal immune alterations at the early onset of tissue destruction in Chronic Obstructive Pulmonary Disease 82 samples shares alterations
- GSE289843 The molecular landscape in autosomal dominant polycystic kidney disease is characterized by common alterations in purine metabolism 55 samples shares alterations
- GSE264237 Age-dependent alterations in the human striatum identify a PPP1R15B-miR-196a node as a modifier of Huntington’s disease phenotypes 30 samples shares alterations
- GSE295449 Single-cell epigenetic landscape, microenvironment interactions, and gene regulatory modules of non-functioning pituitary adenomas (non-diseased controls, bulkRNAseq) 22 samples shares regulatory
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.