Brg1 defect causes aberrent nucleosome landscape and affects totipotency & pluripotency transcriptional factors binding during embryogenesis [MNase-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 16 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
- 16 samples: 8 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.
Read the full summary ↓
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 GSE297843_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 PRJNA1266270 and SRA study SRP586928. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 16 sample titles; they account for 16 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.
- GSM9000803 WT_MII_ULI-MNase-seq_r1 WT_MII_ULI-MNase-seq
- GSM9000804 WT_MII_ULI-MNase-seq_r2 WT_MII_ULI-MNase-seq
- GSM9000805 KO_MII_ULI-MNase-seq_r1 KO_MII_ULI-MNase-seq
- GSM9000806 KO_MII_ULI-MNase-seq_r2 KO_MII_ULI-MNase-seq
- GSM9000807 WT_PN3_ULI-MNase-seq_r1 WT_PN3_ULI-MNase-seq
- GSM9000808 WT_PN3_ULI-MNase-seq_r2 WT_PN3_ULI-MNase-seq
- GSM9000809 KO_PN3_ULI-MNase-seq_r1 KO_PN3_ULI-MNase-seq
- GSM9000810 KO_PN3_ULI-MNase-seq_r2 KO_PN3_ULI-MNase-seq
- GSM9000811 WT_E2C_ULI-MNase-seq_r1 WT_E2C_ULI-MNase-seq
- GSM9000812 WT_E2C_ULI-MNase-seq_r2 WT_E2C_ULI-MNase-seq
- GSM9000813 KO_E2C_ULI-MNase-seq_r1 KO_E2C_ULI-MNase-seq
- GSM9000814 KO_E2C_ULI-MNase-seq_r2 KO_E2C_ULI-MNase-seq
- GSM9000815 WT_L2C_ULI-MNase-seq_r1 WT_L2C_ULI-MNase-seq
- GSM9000816 WT_L2C_ULI-MNase-seq_r2 WT_L2C_ULI-MNase-seq
- GSM9000817 KO_L2C_ULI-MNase-seq_r1 KO_L2C_ULI-MNase-seq
- GSM9000818 KO_L2C_ULI-MNase-seq_r2 KO_L2C_ULI-MNase-seq
- GSE300734 Brg1 defect causes aberrent nucleosome landscape and affects totipotency & pluripotency transcriptional factors binding during embryogenesis [RNA-seq] 25 samples shares brg1, embryogenesis, pluripotency, totipotency, nucleosome, aberrent, affects
- GSE295748 Brg1 defect causes aberrent nucleosome landscape and affects totipotency & pluripotency transcriptional factors binding during embryogenesis 12 samples shares brg1, embryogenesis, pluripotency, totipotency, nucleosome, aberrent, affects
- GSE276039 EOMES safeguards TSC chromatin accessibility by directing BRG1 to TSC-associated loci [ATAC-seq] 36 samples shares brg1
- GSE156569 BRG1 contributes to the global chromatin accessibility revealed by its acute depletion 102 samples shares brg1
- GSE276261 EOMES safeguards TSC chromatin accessibility by directing BRG1 to TSC-associated loci [RNA-seq] 45 samples shares brg1
- GSE279674 Regulation of ILC2s by Brg1 30 samples shares brg1
- GSE251642 Dux promotes metabolism-lactylation-MET cascaded network during early iPSC reprogramming with Brg1 as the histone lactylation reader 20 samples shares brg1
- GSE251640 Dux promotes metabolism-lactylation-MET cascaded network during early iPSC reprogramming with Brg1 as the histone lactylation reader [RNA-Seq] 12 samples shares brg1
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.