Differing Epithelial and Immunologic Activation Patterns Following Food Reintroduction Reveal Differential Transcriptional Profiles in Active Eosinophilic Esophagitis
RNA-seq (gene expression) · human · 28 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
- 28 samples: 28 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
- Differing Epithelial and Immunologic Activation Patterns Following Food Reintroduction Reveal Different Transcriptional Profiles in Active Eosinophilic EsophagitisGastroenterology · 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 GSE278888_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 PRJNA1169364 and SRA study SRP536810. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 28 sample titles: 28 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.
- GSM8556747 18483X2 Recurring low Eos 1
- GSM8556748 18483X5 Recurring High Eos 3
- GSM8556749 18483X6 Recurring High Eos 2
- GSM8556750 18483X7 Recurring High Eos 4
- GSM8556751 18483X10 Recurring High Eos 1
- GSM8556752 18483X13 Recurring Low Eos 3
- GSM8556753 18483X14 Recurring Low Eos 2
- GSM8556754 18483X15 Recurring Low Eos 4
- GSM8556755 18483X18 Ctrl 13
- GSM8556756 18483X20 Ctrl 15
- GSM8556757 18483X25 Recurring Low Eos 5
- GSM8556758 18483X26 Recurring High Eos 5
- GSM8556759 18483X33 Recurring Low Eos 6
- GSM8556760 18483X34 Recurring High Eos 6
- GSM8556761 18483X38 Recurring Low Eos 7
- GSM8556762 18483X40 Recurring High Eos 7
- GSM8556763 18483X42 Recurring High Eos 8
- GSM8556764 18483X44 Recurring Low Eos 8
- GSM8556765 19456X1 Recurring High Eos 9
- GSM8556766 19456X2 Recurring Low Eos 9
- GSM8556767 19456X3 Recurring High Eos 10
- GSM8556768 19456X4 Recurring Low Eos 10
- GSM8556769 19456X7 Baseline Remission 10
- GSM8556770 19456X8 Baseline Remission 2
- GSM8556771 19456X12 Baseline Remission 7
- GSM8556772 19456X13 Baseline Remission 9
- GSM8556773 19456X14 Baseline Remission 8
- GSM8556774 19456X18 Ctrl 21
- GSE250595 Transcriptomic Genes Identified in Familial Eosinophilic Esophagitis 68 samples shares eosinophilic, esophagitis
- GSE264325 Identification of Bronchial Epithelial Genes Associated with Type-2 Eosinophilic Inflammation in Asthma 54 samples shares eosinophilic, epithelial
- GSE303169 RNAseq analyses of Esophageal biopsies from proton pump inhibitor (PPI)-responsive and PPI-unresponsive Pediatric patients with Eosinophilic Esophagitis. 25 samples shares eosinophilic, esophagitis
- GSE289072 Differential expression in colon epithelial organoids post proinflammatory cocktail stimulation 24 samples shares differential, epithelial
- GSE253006 Differential effects of tofacitinib on macrophage activation contribute to lack of response in ulcerative colitis patients 23 samples shares differential, activation
- GSE179420 Normal human bronchial epithelial cell Next Gen sequencing (RNA-seq) for differential gene expression of untreated versus IL4 or IL4+ALOX15 siRNA treated cells 18 samples shares differential, epithelial
- GSE319130 Multi-omic analysis reveals molecular subtypes with distinct immunological phenotypes in SLE [RNA-Seq] 804 samples shares immunologic
- GSE290313 Differentially expressed transcripts associated with depressive symptoms during pregnancy and postpartum 301 samples shares differential
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.