Multiscale analysis and functional validation of the cellular and genetic determinants of skeletal disease
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 47 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
- 47 samples: 47 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
- Multiscale analysis and functional validation of the cellular and genetic determinants of skeletal diseaseNature genetics · 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 GSE317069_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 PRJNA1405729 and SRA study SRP665012. 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 47 sample titles: 47 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.
- GSM6552945 Diaphysis, replicate 1, scRNAseq
- GSM6552946 Diaphysis, replicate 2, scRNAseq
- GSM6552947 Diaphysis, replicate 3, scRNAseq
- GSM6552948 Diaphysis, replicate 4, scRNAseq
- GSM6552949 Diaphysis, replicate 5, scRNAseq
- GSM6552950 Metaphysis, replicate 1, scRNAseq
- GSM6552951 Metaphysis, replicate 2, scRNAseq
- GSM6552952 Metaphysis, replicate 3, scRNAseq
- GSM6552953 Metaphysis, replicate 4, scRNAseq
- GSM6552954 Metaphysis, replicate 5, scRNAseq
- GSM6552955 Marrow, replicate 1, scRNAseq
- GSM6552956 Marrow, replicate 3, scRNAseq
- GSM6552957 Marrow, replicate 4, scRNAseq
- GSM6552958 Marrow, replicate 5, scRNAseq
- GSM9464638 Patient RRx_011, cells from human femoral head isolated using collagenase A + dispase
- GSM9464639 Patient RRx_011, cells from human femoral head isolated using collagenase IV + dispase
- GSM9464640 Patient RRx_011, cells from human femoral neck isolated using collagenase A + dispase
- GSM9464641 Patient RRx_011, cells from human femoral neck isolated using collagenase IV + dispase
- GSM9464642 Patient RRx_012, cells from human femoral head isolated using collagenase A + dispase
- GSM9464643 Patient RRx_012, cells from human femoral head isolated using collagenase IV + dispase
- GSM9464644 Patient RRx_012, cells from human femoral neck isolated using collagenase A + dispase
- GSM9464645 Patient RRx_012, cells from human femoral neck isolated using collagenase IV + dispase
- GSM9464646 Patient RRx_014, cells from human femoral head isolated using collagenase A + dispase
- GSM9464647 Patient RRx_014, cells from human femoral head isolated using collagenase IV + dispase
- GSM9464648 Patient RRx_014, cells from human femoral neck isolated using collagenase A + dispase
- GSM9464649 Patient RRx_014, cells from human femoral neck isolated using collagenase IV + dispase
- GSM9464650 Patient RRx_020, cells from human femoral neck isolated using collagenase A + dispase
- GSM9464651 Patient RRx_020, cells from human femoral neck isolated using collagenase IV + dispase
- GSM9464652 Patient RRx_022, cells from human femoral head isolated using collagenase A + dispase, from region affected by OA
- GSM9464653 Patient RRx_022, cells from human femoral head isolated using collagenase A + dispase, from region unaffected by OA
- GSM9464654 Patient RRx_022, ALPL-high cells from human femoral neck isolated using collagenase A + dispase
- GSM9464655 Patient RRx_022, ALPL-low cells from human femoral neck isolated using collagenase A + dispase
- GSM9464656 Patient RRx_022, ALPL-negative cells from human femoral neck isolated using collagenase A + dispase
- GSM9464657 Patient RRx_024, cells from human femoral head isolated using collagenase A + dispase, from region affected by OA
- GSM9464658 Patient RRx_024, cells from human femoral head isolated using collagenase A + dispase, from region unaffected by OA
- GSM9464659 Patient RRx_024, ALPL-high cells from human femoral neck isolated using collagenase A + dispase
- GSM9464660 Patient RRx_024, ALPL-low cells from human femoral neck isolated using collagenase A + dispase
- GSM9464661 Patient RRx_024, ALPL-negative cells from human femoral neck isolated using collagenase A + dispase
- GSM9464662 Patient RRx_026, cells from human femoral neck isolated using collagenase A + dispase
- GSM9464663 Patient RRx_026, cells from human femoral neck cortical region isolated using collagenase A + dispase
+ 7 more — browse all 47 samples with per-sample file links →
- GSE207926 Genome-wide quantification of RNA flow across subcellular compartments reveals determinants of the transcript life cycle 160 samples shares determinants, cellular
- GSE246223 A Mouse Model for Metabolic Dysfunction-associated Steatotic Liver Disease and Hepatocellular Carcinoma 160 samples shares cellular
- GSE229445 Tracing functional (epi)genomic imprints and their evolutionary origins in human defense antiviral cellular response 156 samples shares cellular
- GSE246221 A Mouse Model for Metabolic Dysfunction-associated Steatotic Liver Disease and Hepatocellular Carcinoma [RNA-seq] 148 samples shares cellular
- GSE253600 ROR2 regulates cellular plasticity in pancreatic neoplasia and adenocarcinoma 48 samples shares cellular
- GSE282171 Depression and Anxiety-Induced Metabolic Reprogramming Promotes Hepatocellular Carcinoma Progression through CBX5 Lactylation: Involvement of Taurocholate and PHGDH-Mediated Ferroptosis 28 samples shares cellular
- GSE156337 Onco-fetal reprogramming of endothelial cells drives immunosuppressive macrophages in Hepatocellular Carcinoma 186 samples shares cellular
- GSE272629 Passive shaping of intra- and intercellular m6A dynamics via mRNA metabolism 128 samples shares cellular
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.