Brg1 defect causes aberrent nucleosome landscape and affects totipotency & pluripotency transcriptional factors binding during embryogenesis [RNA-seq]
RNA-seq (gene expression) · mouse · 25 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 25 samples: 8 conditions, mostly in triplicateGroups 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 GSE300734_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1281996 and SRA study SRP594508. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 25 samples.
How we read this: 8 replicated groups read from 25 sample titles; they account for 25 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.
- GSM9067475 WT_MII_RNA-seq_r1 WT_MII_RNA-seq
- GSM9067476 WT_MII_RNA-seq_r2 WT_MII_RNA-seq
- GSM9067477 WT_MII_RNA-seq_r3 WT_MII_RNA-seq
- GSM9067478 KO_MII_RNA-seq_r1 KO_MII_RNA-seq
- GSM9067479 KO_MII_RNA-seq_r2 KO_MII_RNA-seq
- GSM9067480 WT_PN3_RNA-seq_r1 WT_PN3_RNA-seq
- GSM9067481 WT_PN3_RNA-seq_r2 WT_PN3_RNA-seq
- GSM9067482 WT_PN3_RNA-seq_r3 WT_PN3_RNA-seq
- GSM9067483 WT_PN3_RNA-seq_r4 WT_PN3_RNA-seq
- GSM9067484 KO_PN3_RNA-seq_r1 KO_PN3_RNA-seq
- GSM9067485 KO_PN3_RNA-seq_r2 KO_PN3_RNA-seq
- GSM9067486 KO_PN3_RNA-seq_r3 KO_PN3_RNA-seq
- GSM9067487 KO_PN3_RNA-seq_r4 KO_PN3_RNA-seq
- GSM9067488 WT_E2C_RNA-seq_r1 WT_E2C_RNA-seq
- GSM9067489 WT_E2C_RNA-seq_r2 WT_E2C_RNA-seq
- GSM9067490 WT_E2C_RNA-seq_r3 WT_E2C_RNA-seq
- GSM9067491 KO_E2C_RNA-seq_r1 KO_E2C_RNA-seq
- GSM9067492 KO_E2C_RNA-seq_r2 KO_E2C_RNA-seq
- GSM9067493 KO_E2C_RNA-seq_r3 KO_E2C_RNA-seq
- GSM9067494 WT_L2C_RNA-seq_r1 WT_L2C_RNA-seq
- GSM9067495 WT_L2C_RNA-seq_r2 WT_L2C_RNA-seq
- GSM9067496 WT_L2C_RNA-seq_r3 WT_L2C_RNA-seq
- GSM9067497 KO_L2C_RNA-seq_r1 KO_L2C_RNA-seq
- GSM9067498 KO_L2C_RNA-seq_r2 KO_L2C_RNA-seq
- GSM9067499 KO_L2C_RNA-seq_r3 KO_L2C_RNA-seq
- GSE297843 Brg1 defect causes aberrent nucleosome landscape and affects totipotency & pluripotency transcriptional factors binding during embryogenesis [MNase-Seq] 16 samples shares brg1, embryogenesis, pluripotency, totipotency, nucleosome, aberrent, affects, factors
- 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, factors
- GSE270036 Investigate the functions of core pluripotency transcription factors in embryonic stem cells 30 samples shares pluripotency, factors
- GSE253473 FoxO transcription factors actuate the formative pluripotency specific gene expression programme [RNA-Seq] 26 samples shares pluripotency, factors
- GSE253480 FoxO transcription factors actuate the formative pluripotency specific gene expression programme 66 samples shares pluripotency, factors
- GSE253479 FoxO transcription factors actuate the formative pluripotency specific gene expression programme [ChIP-Seq] 32 samples shares pluripotency, factors
- GSE276261 EOMES safeguards TSC chromatin accessibility by directing BRG1 to TSC-associated loci [RNA-seq] 45 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.