Intraesophageally challenge of OVA to epicutaneously sensitized mice with loss of epithelial Ikkβ results in experimental EoE that is faithful to human EoE esophageal mucosal pathology. [I]
RNA-seq (gene expression) · mouse · 24 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
- Mus musculus (mouse)
- Samples
- 24 samples: 24 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.
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 GSE270219_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 PRJNA1125429 and SRA study SRP514722. 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 24 sample titles: 24 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.
- GSM8337011 6266 IkkβL/L, replicate 1, scRNAseq
- GSM8337012 6957 IkkβL/L, replicate 2, scRNAseq
- GSM8337014 7428 IkkβL/L, replicate 3, scRNAseq
- GSM8337015 5984 IkkβL/L Vehicle, replicate 1, scRNAseq
- GSM8337017 7881 IkkβL/L Vehicle, replicate 2, scRNAseq
- GSM8337019 7467 IkkβL/L Vehicle, replicate 3, scRNAseq
- GSM8337021 7291 IkkβL/L Sensitization, replicate 1, scRNAseq
- GSM8337023 7713 IkkβL/L Sensitization, replicate 2, scRNAseq
- GSM8337024 7971 IkkβL/L Sensitization, replicate 3, scRNAseq
- GSM8337026 7559 IkkβL/L EoE, replicate 1, scRNAseq
- GSM8337028 7872 IkkβL/L EoE, replicate 2, scRNAseq
- GSM8337030 8023 IkkβL/L EoE, replicate 3, scRNAseq
- GSM8337031 7400 Cre+; IkkβL/L, replicate 1, scRNAseq
- GSM8337033 7798 Cre+; IkkβL/L, replicate 2, scRNAseq
- GSM8337035 7414 Cre+; IkkβL/L, replicate 3, scRNAseq
- GSM8337037 7469 Cre+; IkkβL/L Vehicle, replicate 1, scRNAseq
- GSM8337039 7851 Cre+; IkkβL/L Vehicle, replicate 2, scRNAseq
- GSM8337040 6827 Cre+; IkkβL/L Vehicle, replicate 3, scRNAseq
- GSM8337042 7320 Cre+; IkkβL/L Sensitization, replicate 1, scRNAseq
- GSM8337043 7849 Cre+; IkkβL/L Sensitization, replicate 2, scRNAseq
- GSM8337045 7852 Cre+; IkkβL/L Sensitization, replicate 3, scRNAseq
- GSM8337046 6510 Cre+; IkkβL/L EoE, replicate 1, scRNAseq
- GSM8337048 6828 Cre+; IkkβL/L EoE, replicate 2, scRNAseq
- GSM8337049 7558 Cre+; IkkβL/L EoE, replicate 3, scRNAseq
- GSE271971 Pulmonary microvascular endothelial cells support alveolar epithelial growth via bone morphogenetic protein 6 secretion 72 samples shares ova, epithelial
- GSE307881 Mouse Offspring Conceived by In Vitro Fertilization Exhibit Accelerated Reproductive Aging Through Early Ovarian Failure 151 samples shares ova
- GSE317348 Impaired removal of dying brain cells by microglia in GPR34 deficient mice 125 samples shares ova
- GSE333820 Transcriptome profiling of ovaries in aged mice administered additional Samul-tang-associated compounds 96 samples shares ova
- GSE212473 Effects of Nova1 Deletion on Gene Expression in Tissues and Cells 62 samples shares ova
- GSE314244 Inhibition of oogenic JNK prevents primary ovarian insufficiency and infertility induced by DNA-damaging anti-cancer agents 61 samples shares ova
- GSE235586 Transcriptomic analysis of 30dpp ovaries and 35dpp testes exposed to the cocktails of pharmaceuticals ibuprofen (IBU), 2hydroxyIBU (2hIBU), diclofenac (DCF) and 17a ethinyl-estradiol (EE2) in mice 54 samples shares ova
- GSE318897 L-DOPA treatment promotes sustained neurovascular and synaptic homeostasis in the diabetic retina 53 samples shares ova
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.