RNAseq analyses of Esophageal biopsies from proton pump inhibitor (PPI)-responsive and PPI-unresponsive Pediatric patients with Eosinophilic Esophagitis.
RNA-seq (gene expression) · human · 25 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
- 25 samples: 25 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
- Unique epithelial proliferative transcriptomic signature in proton pump inhibitor-responsive pediatric eosinophilic esophagitisJCI insight · 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 GSE303169_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 PRJNA1294278 and SRA study SRP602392. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 10 samples read as cases, 5 as controls.
How we read this: Read from 25 sample titles: 25 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.
- GSM9119693 Healthy control esophageal biopsy (ATP)
- GSM9119694 Healthy control esophageal biopsy (BIK)
- GSM9119695 Healthy control esophageal biopsy (BOP)
- GSM9119696 Healthy control esophageal biopsy (CDA)
- GSM9119697 Healthy control esophageal biopsy (CBM)
- GSM9119698 Patient ID: MSH027 – Pre-PPI unresponsive patient esophageal biopsy (BBZ)
- GSM9119699 Patient ID: MSH020 – Pre-PPI unresponsive patient esophageal biopsy (BEL)
- GSM9119700 Patient ID: MSH028 – Pre-PPI unresponsive patient esophageal biopsy (BFH)
- GSM9119701 Patient ID: MSH029 – Pre-PPI unresponsive patient esophageal biopsy (BKK)
- GSM9119702 Patient ID: MSH022 – Pre-PPI unresponsive patient esophageal biopsy (BJW)
- GSM9119703 Patient ID: MSH027 – Post-PPI unresponsive patient esophageal biopsy (BEQ)
- GSM9119704 Patient ID: MSH020 – Post-PPI unresponsive patient esophageal biopsy (BGX)
- GSM9119705 Patient ID: MSH028 – Post-PPI unresponsive patient esophageal biopsy (BMS)
- GSM9119706 Patient ID: MSH022 – Post-PPI unresponsive patient esophageal biopsy (BNW)
- GSM9119707 Patient ID: MSH029 – Post-PPI unresponsive patient esophageal biopsy (BPY)
- GSM9119708 Patient ID: MSH005 – Pre-PPI responsive esophageal biopsy (BNT)
- GSM9119709 Patient ID: MSH004 – Pre-PPI responsive esophageal biopsy (CCI)
- GSM9119710 Patient ID: MSH010 –Pre-PPI responsive esophageal biopsy (CCQ)
- GSM9119711 Patient ID: MSH008 –Pre-PPI responsive esophageal biopsy (CDS)
- GSM9119712 Patient ID: MSH009 – Pre-PPI responsive esophageal biopsy (CFV)
- GSM9119713 Patient ID: MSH005 – Post-PPI responsive esophageal biopsy (BQZ)
- GSM9119714 Patient ID: MSH004 – Post-PPI responsive esophageal biopsy (CGE)
- GSM9119715 Patient ID: MSH010 – Post-PPI responsive esophageal biopsy (CHH)
- GSM9119716 Patient ID: MSH008 – Post-PPI responsive esophageal biopsy (CHX)
- GSM9119717 Patient ID: MSH009 – Post-PPI responsive esophageal biopsy (CKA)
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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.