Canonical BAF complex orchestrates mesenchymal stem cell niche composition and fate via cofactor-guided chromatin remodeling
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 18 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
- 18 samples: 5 conditions, mostly in duplicateGroups 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
- Canonical BAF chromatin remodeling complex specifies stem cell fate via cell-type-specific co-factor recruitmentNature communications · 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 GSE314753_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 PRJNA1392539 and SRA study SRP588899. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 5 replicated groups read from 18 sample titles; they account for 10 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.
- GSM9018367 DKO (Gli1-CreER;Arid1afl/fl;Arid1bfl/fl)_scRNA-seq
- GSM9018368 DKO (Gli1-CreER;Arid1afl/fl;Arid1bfl/fl)_scATAC-seq
- GSM9018369 DKO 1 (Gli1-CreER;Arid1afl/fl;Arid1bfl/fl)_RNA-seq
- GSM9018370 DKO 2 (Gli1-CreER;Arid1afl/fl;Arid1bfl/fl)_RNA-seq
- GSM9018371 DKO 3 (Gli1-CreER;Arid1afl/fl;Arid1bfl/fl)_RNA-seq
- GSM9018372 Arid1a_1 Arid1a
- GSM9018373 Arid1a_2 Arid1a
- GSM9018374 Arid1b_1 Arid1b
- GSM9018375 Arid1b_2 Arid1b
- GSM9018376 Dlx2_1 Dlx2
- GSM9018377 Dlx2_2 Dlx2
- GSM9018378 Foxo1_1 Foxo1
- GSM9018379 Foxo1_2 Foxo1
- GSM9018386 IgG
- GSM9018397 Input_1 Input
- GSM9018398 Input_2 Input
- GSM9349973 DKO_Foxo1
- GSM9349974 DKO_Dlx2
- GSE268382 SGK3 Orchestrates Glucocorticoid Signaling to Facilitate Chromatin Remodeling During Adipogenesis 16 samples shares orchestrates, remodeling, chromatin
- GSE240583 Baf155 establishes chromatin priming to promote hematopoietic regeneration and function [single cell multiome - ATAC + GEX] 12 samples shares baf, chromatin
- GSE245256 Synaptic Activity Causes Minute-scale Changes in BAF Complex Composition and Function 72 samples shares baf, composition
- GSE284165 Reorganization of PBAF/cBAF remodelers on H3.3 chromatin regulates BMAL1 activity in the absence of circadian negative feedback 47 samples shares baf, chromatin
- GSE245251 Synaptic Activity Causes Minute-scale Changes in BAF Complex Composition and Function [RNA-Seq] 24 samples shares baf, composition
- GSE237305 ARID1B regulates BCL11B-mediated non-canonical Activin signaling to maintain mesenchymal stem cell homeostasis in the mouse incisor. 10 samples shares mesenchymal, canonical
- GSE260707 Unveiling the Temporal Dynamics of Mesenchymal Condensations in Tracheal Development through Non-Canonical Wnt Signaling and Notum 22 samples shares mesenchymal, canonical
- GSE297346 The DLX2-LAP2α axis licenses ectomesenchymal specification by unlocking chromatin barriers for craniofacial regeneration [RNA-seq] 18 samples shares mesenchymal, chromatin
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.