GEO series
Genomic Convergence in Hibernating Mammals Elucidates the Genetics of Metabolic Regulation in the Hypothalamus [bulk ATACseq]
GSE295855
Mus musculus (mouse)
ChIP-seq / ATAC-seq (genome binding and open chromatin)
32 samples
Submitted 2025/08/04
Platform GPL24247
At a glance
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 32 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
- 32 samples: 8 conditions, mostly with about 4 replicates eachGroups 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
- Genomic convergence in hibernating mammals elucidates the genetics of metabolic regulation in the hypothalamusScience (New York, N.Y.) · 2025
Summary (written by the submitters)
Extreme metabolic adaptations can elucidate genetic programs governing mammalian metabolism. Here we used convergent evolutionary changes in hibernating lineages to define conserved cis-regulatory elements (CREs) and metabolic programs. We characterized mouse hypothalamus gene expression and chromatin dynamics across fed, fasted, and refed states, then used comparative genomics of hibernating versus non-hibernating lineages to identify cis-elements with convergent changes in hibernators.
Read the full summary ↓
Multi-omics approaches pinpointed CREs, hub genes, regulatory programs, and cell types underlying lineage divergence. Hibernators accumulated loss-of-function effects for CREs regulating hypothalamic responses, and the refeeding period after fasting served as a key phase for molecular processes with convergent evolutionary changes. This work provides a genetic framework for harnessing hibernator adaptations to understand human metabolic control.
Published in
Ferris E, Gonzalez Murcia JD, Rodriguez AC et al.
· Science (New York, N.Y.) 2025
· PMID 40743333
· doi:10.1126/science.adp4025
This dataset
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.
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 GSE295855_RAW.tar (it can run to tens of gigabytes).
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.
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 PRJNA1238491 and SRA study SRP571763. Searching any of these in the dataset finder brings you back here.
Study design
8 conditions, mostly with about 4 replicates each
ATAC-seq of Fed Fasted Refed Adult B6 Mouse H… ×4
ATAC-seq of Fed Fasted Refed Adult B6 Mouse H… ×4
ATAC-seq of Fed Fasted Refed Adult B6 Mouse H… ×4
ATAC-seq of Fed Fasted Refed Adult B6 Mouse H… ×4
ATAC-seq of Fed Fasted Refed Adult B6 Mouse H… ×4
ATAC-seq of Fed Fasted Refed Adult B6 Mouse H… ×4
ATAC-seq of Fed Fasted Refed Adult B6 Mouse H… ×4
ATAC-seq of Fed Fasted Refed Adult B6 Mouse H… ×4
Supports a between-group comparison across 32 samples.
How we read this: 8 replicated groups read from 32 sample titles; they account for 32 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
- GSM8958781 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus 12h Refed 1 ATAC-seq of Fed Fasted …
- GSM8958782 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus 12h Refed 2 ATAC-seq of Fed Fasted …
- GSM8958783 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus 12h Refed 3 ATAC-seq of Fed Fasted …
- GSM8958784 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus 12h Refed 4 ATAC-seq of Fed Fasted …
- GSM8958785 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus 1wk Refed 1 ATAC-seq of Fed Fasted …
- GSM8958786 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus 1wk Refed 2 ATAC-seq of Fed Fasted …
- GSM8958787 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus 1wk Refed 3 ATAC-seq of Fed Fasted …
- GSM8958788 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus 1wk Refed 4 ATAC-seq of Fed Fasted …
- GSM8958789 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Fed 1 ATAC-seq of Fed Fasted …
- GSM8958790 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Fed 3 ATAC-seq of Fed Fasted …
- GSM8958791 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Fed 4 ATAC-seq of Fed Fasted …
- GSM8958792 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Fed 5 ATAC-seq of Fed Fasted …
- GSM8958793 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Fasted 1 ATAC-seq of Fed Fasted …
- GSM8958794 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Fasted 2 ATAC-seq of Fed Fasted …
- GSM8958795 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Fasted 3 ATAC-seq of Fed Fasted …
- GSM8958796 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Fasted 4 ATAC-seq of Fed Fasted …
- GSM8958797 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 Fed 1 ATAC-seq of Fed Fasted …
- GSM8958798 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 Fed 4 ATAC-seq of Fed Fasted …
- GSM8958799 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 Fasted 3 ATAC-seq of Fed Fasted …
- GSM8958800 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 Fasted 4 ATAC-seq of Fed Fasted …
- GSM8958801 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 12hRefed 3 ATAC-seq of Fed Fasted …
- GSM8958802 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 12hRefed 4 ATAC-seq of Fed Fasted …
- GSM8958803 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 1wkRefed 3 ATAC-seq of Fed Fasted …
- GSM8958804 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 1wkRefed 4 ATAC-seq of Fed Fasted …
- GSM8958805 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 Fed 2 ATAC-seq of Fed Fasted …
- GSM8958806 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 Fasted 1 ATAC-seq of Fed Fasted …
- GSM8958807 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 Fasted 2 ATAC-seq of Fed Fasted …
- GSM8958808 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 12hRefed 1 ATAC-seq of Fed Fasted …
- GSM8958809 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 12hRefed 2 ATAC-seq of Fed Fasted …
- GSM8958810 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 1wkRefed 1 ATAC-seq of Fed Fasted …
- GSM8958811 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 1wkRefed 2 ATAC-seq of Fed Fasted …
- GSM8958812 ATAC-seq of Fed Fasted Refed Adult B6 Mouse Hypothalamus Rep 2 Fed 3 ATAC-seq of Fed Fasted …
Datasets on a similar topic
- GSE295866 Genomic Convergence in Hibernating Mammals Elucidates the Genetics of Metabolic Regulation in the Hypothalamus [snATACseq] 20 samples shares hypothalamus, convergence, hibernating, elucidates, genetics, mammals, atacseq
- GSE294478 Genomic Convergence in Hibernating Mammals Elucidates the Genetics of Metabolic Regulation in the Hypothalamus [bulk RNA-seq] 30 samples shares hypothalamus, convergence, hibernating, elucidates, genetics, mammals, bulk
- GSE294476 Genomic Convergence in Hibernating Mammals Elucidates the Genetics of Metabolic Regulation in the Hypothalamus [ChIP-seq_mm] 6 samples shares hypothalamus, convergence, hibernating, elucidates, genetics, mammals
- GSE295856 Genomic Convergence in Hibernating Mammals Elucidates the Genetics of Metabolic Regulation in the Hypothalamus [snRNAseq] 13 samples shares hypothalamus, convergence, hibernating, elucidates, genetics, mammals
- GSE263833 Bulk RNA-seq of plasma-positive microglia and plasma-negative microglia from hypothalamus region in young mice 8 samples shares hypothalamus, bulk
- GSE247447 Epigenomic and Functional Convergence Between Glucocorticoid- and IL4-Driven Macrophage Programming (ChIP-Seq) 28 samples shares convergence
- GSE248042 Epigenomic and Functional Convergence Between Glucocorticoid- and IL4-Driven Macrophage Programming [ATAC-seq] 24 samples shares convergence
- GSE288574 Convergence of aging- and rejuvenation-related epigenetic alterations on PRC2 targets [ChIP-Seq] 17 samples shares convergence
Share this dataset
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.