Feed-forward regulatory loops by NR5A2 ensure robust gene activation during pre-implantation development [ATAC-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.
- Paper
- Feed-forward loops by NR5A2 ensure robust gene activation during pre-implantation developmentDevelopment (Cambridge, England) · 2026
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 GSE289573_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 PRJNA1223447 and SRA study SRP563853. 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.
- GSM8794416 ATAC_2C_rep1 ATAC_2C
- GSM8794417 ATAC_2C_rep2 ATAC_2C
- GSM8794418 ATAC_4C_rep1 ATAC_4C
- GSM8794419 ATAC_4C_rep2 ATAC_4C
- GSM8794420 ATAC_8C_rep1 ATAC_8C
- GSM8794421 ATAC_8C_rep2 ATAC_8C
- GSM8794422 ATAC_Morula_rep1 ATAC_Morula
- GSM8794423 ATAC_Morula_rep2 ATAC_Morula
- GSM8794424 ATAC_8C_NT_ctrl_rep1 ATAC_8C_NT_ctrl
- GSM8794425 ATAC_8C_NT_ctrl_rep2 ATAC_8C_NT_ctrl
- GSM8794426 ATAC_8C_Nr5a2_KD_rep1 ATAC_8C_Nr5a2_KD
- GSM8794427 ATAC_8C_Nr5a2_KD_rep2 ATAC_8C_Nr5a2_KD
- GSM8794428 ATAC_8C_Klf5_KD_rep1 ATAC_8C_Klf5_KD
- GSM8794429 ATAC_8C_Klf5_KD_rep2 ATAC_8C_Klf5_KD
- GSM8794430 ATAC_8C_Nr5a2_Klf5_dKD_rep1 ATAC_8C_Nr5a2_Klf5_dKD
- GSM8794431 ATAC_8C_Nr5a2_Klf5_dKD_rep2 ATAC_8C_Nr5a2_Klf5_dKD
- GSE278157 A hierarchical Rorc(γt) cis-regulatory cascade orchestrates differentiation of RORγt⁺ innate immune cells [ATAC-seq] 40 samples shares regulatory, atac-seq
- GSE267881 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for effector Treg cell differentiation [ATAC-Seq] 30 samples shares regulatory, atac-seq
- GSE256229 Quantitative analysis of cis-regulatory elements in transcription with KAS-ATAC-seq [Mouse KAS-seq] 26 samples shares regulatory, atac-seq
- GSE233905 Transcription factor TCF1 binds Rorgt and orchestrates a regulatory network that determines homeostatic Th17 cell state [ATAC-seq] 13 samples shares regulatory, atac-seq
- GSE280128 The LHX1 Gene Regulatory Network Represses Pluripotency and Modulates Multiple Signaling Pathways to Specify the Embryonic Head [Embryo_ATAC-seq] 12 samples shares regulatory, atac-seq
- GSE262131 Increased EZH2 function in regulatory T cells promotes their capacity to suppress autoimmunity by driving effector differentiation prior to activation. 36 samples shares regulatory, activation
- GSE73952 Distinct features in establishing H3K4me3 and H3K27me3 in pre-implantation embryos 67 samples shares pre-implantation
- GSE277188 Decoding the YAP/TAZ–PPARγ Regulatory Axis in Adipocyte Differentiation and Dedifferentiation [ChIP-seq] 46 samples shares regulatory
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.