Declining FXR expression coordinates neonatal beta cell mass development with microbial bile acid metabolism maturation in mice
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 12 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Mus musculus (mouse)
- Samples
- 12 samples: 12 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
- Declining FXR expression coordinates neonatal beta cell mass development with microbial bile acid metabolism maturation in miceDiabetologia · 2026
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 GSE241408_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1008083 and SRA study SRP456568. 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 12 sample titles: 12 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.
- GSM7728441 Control1_scATACseq
- GSM7728442 Control2_scATACseq
- GSM7728443 Control3_scATACseq
- GSM7728444 FxrKI1_scATACseq
- GSM7728445 FxrKI2_scATACseq
- GSM7728446 FxrKI3_scATACseq
- GSM7728447 Control1_scRNAseq
- GSM7728448 Control2_scRNAseq
- GSM7728449 Control3_scRNAseq
- GSM7728450 FxrKI1_scRNAseq
- GSM7728451 FxrKI2_scRNAseq
- GSM7728452 FxrKI3_scRNAseq
- GSE288751 Bile acid receptor FXR promotes intestinal epithelial ferroptosis and subsequent ILC3 dysfunction in neonatal necrotizing enterocolitis [scRNA-seq] 4 samples shares fxr, neonatal
- GSE137145 Transcriptional coactivator MED15 is required for beta cell maturation 31 samples shares maturation, beta
- GSE337230 A transient neurodevelopmental microglial state governs cortical maturation and is disrupted by neonatal inflammation in mouse 13 samples shares maturation, neonatal
- GSE290309 Prevention of cholestatic liver disease through BCL6-FXR enterohepatic crosstalk [RNA-seq] 16 samples shares fxr
- GSE263255 FXR Agonism with Bile Acid Mimetic Reduces Pre-Clinical Triple-Negative Breast Cancer Burden 13 samples shares fxr
- GSE281035 PAR3-mediated coordination of hepatocyte proliferation, maturation, and architecture in liver development and regeneration 128 samples shares maturation
- GSE261485 RYBP coordinates with Trithorax complex and selectively recruits Polycomb complex for cell fate control 96 samples shares coordinates
- GSE240860 Hmgb2 improves astrocyte to neuron conversion by increasing the chromatin accessibility of genes associated with neuronal maturation in a proneuronal factor-dependent manner 54 samples shares maturation
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.