Bulk RNA-sequencing of human Crohn's disease (CD) enteroids treated with interferon-gamma (IFNγ)
RNA-seq (gene expression) · human · 20 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
- 20 samples: 10 conditions, mostly in duplicateGroups 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
- IFN-γ-Induced intestinal epithelial cell-type-specific programmed cell death: PANoptosis and its modulation in Crohn's diseaseFrontiers in immunology · 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 GSE290417_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 PRJNA1227986. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 10 replicated groups read from 20 sample titles; they account for 20 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.
- GSM8812353 #96 IFN_R 0 #96 IFN
- GSM8812354 #96 IFN_R 100 #96 IFN
- GSM8812355 123 IFNR 0 123 IFN
- GSM8812356 123 IFNR 100 123 IFN
- GSM8812357 293 IFNR 0 293 IFN
- GSM8812358 293 IFNR 100 293 IFN
- GSM8812359 296 IFNR 0 296 IFN
- GSM8812360 296 IFNR 100 296 IFN
- GSM8812361 F#63 IFNR 0 F#63 IFN
- GSM8812362 F#63 IFNR 400 F#63 IFN
- GSM8812363 375 IFNR 0 375 IFN
- GSM8812364 375 IFNR 400 375 IFN
- GSM8812365 376 IFNR 0 376 IFN
- GSM8812366 376 IFNR 400 376 IFN
- GSM8812367 F#35 IFNR 0 F#35 IFN
- GSM8812368 F#35 IFNR 400 F#35 IFN
- GSM8812369 F#18 IFNR 0 F#18 IFN
- GSM8812370 F#18 IFNR 400 F#18 IFN
- GSM8812371 389 IFNR 0 389 IFN
- GSM8812372 389 IFNR 400 389 IFN
- GSE290418 Bulk RNA-sequencing of human non-IBD enteroids treated with interferon-gamma (IFNγ) 12 samples shares ifn, interferon-gamma, rna-sequencing, enteroids, treated, bulk
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- GSE319794 Bulk RNA-sequencing of soft tissue sarcomas from patients undergoing neoadjuvant BO-112 and hypofractionated radiation therapy with or without nivolumab in soft tissue sarcoma 41 samples shares rna-sequencing, bulk
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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.