An emergent disease-associated motor neuron state precedes cell death in a mouse model of ALS [multiome]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 10 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
- 10 samples: 10 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 GSE306675_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 PRJNA1311612 and SRA study SRP613723. 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 10 sample titles: 10 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.
- GSM9205801 SOD1 mid-end-stage male and control female, ATAC
- GSM9205802 SOD1 mid-end-stage male and control female, GEX
- GSM9205803 SOD1 mid-end-stage female, ATAC
- GSM9205804 SOD1 mid-end-stage female, GEX
- GSM9205805 SOD1 mid-end-stage male, ATAC
- GSM9205806 SOD1 mid-end-stage male, GEX
- GSM9205807 SOD1 early-stage male and control female, ATAC
- GSM9205808 SOD1 early-stage male and control female, GEX
- GSM9205809 SOD1 early-stage female and control male, ATAC
- GSM9205810 SOD1 early-stage female and control male, GEX
- GSE166225 Inference of emergent spatio-temporal processes from single-cell sequencing reveals feedback between de novo DNA methylation and chromatin condensates [RNA-seq] 288 samples shares als, emergent
- GSE325852 Translatome profiling reveals opposing alterations in inhibitory and excitatory neurons of Fragile X mice and identifies EPAC2 as a therapeutic target 69 samples shares als, neuron
- GSE294332 Multiomic single nuclei profiling of a mouse model of Alzheimer’s disease reveals that ACSS2 confers neuronal resilience to tauopathy 49 samples shares als, neuron
- GSE262927 A longitudinal atlas of post-viral lung regeneration reveals persistent injury-associated cell states 33 samples shares als, state
- GSE335147 Mitochondrial profiling across macrophage states reveals inhibition of IL-4/IL-13 reprogramming by the integrated stress response 24 samples shares als, state
- GSE327428 GPR34 regulation of disease-associated microglial states in mice 96 samples shares disease-associated, state
- GSE290849 Acute intervention reveals critical roles of BAF, KMT2D and p300 in MyoD binding on enhancers 143 samples shares als
- GSE244812 Multi-omics profiling of retinal pigment epithelium reveals enhancer-driven activation of RANK-NFATc1 signaling in traumatic proliferative vitreoretinopathy. 54 samples shares als
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.