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Bile acids bind to exposed cavities in the glucocorticoid receptor

GSE287351 Mus musculus (mouse) RNA-seq (gene expression) 24 samples Submitted 2025/06/16 Platform GPL34290
At a glance

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: 8 conditions, mostly in triplicateGroups 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
Bile acids target an exposed cavity in the glucocorticoid receptor modulating receptor self-assembly, chromatin binding and transcriptional activitybioRxiv : the preprint server for biology · 2025
Summary (written by the submitters)
We propose certain bile acids bind to a highly conserved pocket in the glucocorticoid receptor ligand binding domain, interfere with receptor multimerization and modulate its transcriptional activity.
Published in
Bile acids target an exposed cavity in the glucocorticoid receptor modulating receptor self-assembly, chromatin binding and transcriptional activity
Jiménez-Panizo A, Johnson TA, Wagh K et al. · bioRxiv : the preprint server for biology 2025 · PMID 40463087 · doi:10.1101/2025.05.13.653693
This dataset
Open GSE287351 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE287351_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1212188 and SRA study SRP558161. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40463087) ↗
Study design
8 conditions, mostly in triplicate
GRKO GFP-mGRwt Veh ×3 GRKO GFP-mGRwt 100nM Cort 2h ×3 GRKO GFP-mGRwt 100uM TCA 2h ×3 GRKO GFP-mGRwt 100uM TCA/100nM Cort 2h ×3 GRKO GFP-mGRtetra Veh ×3 GRKO GFP-mGRtetra 100nM Cort 2h ×3 GRKO GFP-mGRtetra 100uM TCA 2h ×3 GRKO GFP-mGRtetra 100uM TCA/100nM Cort 2h ×3

Supports a between-group comparison across 24 samples.

How we read this: 8 replicated groups read from 24 sample titles; they account for 24 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.

Samples in this study
Datasets on a similar topic

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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.