Unexpected nuclear hormone receptor and chromatin dynamics regulate estrous cycle dependent gene expression
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 32 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
- 32 samples: 6 conditions, mostly with about 4 replicates eachGroups 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
- Unexpected nuclear hormone receptor and chromatin dynamics regulate estrous cycle dependent gene expressionNucleic acids research · 2024
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 GSE234065_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 PRJNA979252 and SRA study SRP440892. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 21 samples.
How we read this: 6 replicated groups read from 32 sample titles; they account for 21 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.
- GSM7442802 Adult CoD ATAC-seq
- GSM7442803 Adult CoE ATAC-seq
- GSM7443652 Adult CoD ERalpha ChIP-seq
- GSM7443653 Adult CoE ERalpha ChIP-seq
- GSM7443654 Adult CoD Hif2a ChIP-seq
- GSM7443655 Adult CoE Hif2a ChIP-seq
- GSM7443656 Adult CoD PgR ChIP-seq
- GSM7443657 Adult CoE PgR ChIP-seq
- GSM7444003 Adult CoD HiC-seq
- GSM7444004 Adult CoE HiC-seq
- GSM7444308 Adult CoD RNA-seq replicate 1 Adult CoD RNA-seq
- GSM7444309 Adult CoD RNA-seq replicate 2 Adult CoD RNA-seq
- GSM7444310 Adult CoD RNA-seq replicate 3 Adult CoD RNA-seq
- GSM7444312 Adult CoD RNA-seq replicate 4 Adult CoD RNA-seq
- GSM7444313 Adult CoE RNA-seq replicate 1 Adult CoE RNA-seq
- GSM7444314 Adult CoE RNA-seq replicate 2 Adult CoE RNA-seq
- GSM7444315 Adult CoE RNA-seq replicate 3 Adult CoE RNA-seq
- GSM8144179 Input
- GSM8291948 Adult WT CoD RNA-seq replicate 1 Adult WT CoD RNA-seq
- GSM8291949 Adult WT CoD RNA-seq replicate 2 Adult WT CoD RNA-seq
- GSM8291950 Adult WT CoD RNA-seq replicate 3 Adult WT CoD RNA-seq
- GSM8291951 Adult WT CoD RNA-seq replicate 4 Adult WT CoD RNA-seq
- GSM8291952 Adult WT CoE RNA-seq replicate 1 Adult WT CoE RNA-seq
- GSM8291953 Adult WT CoE RNA-seq replicate 2 Adult WT CoE RNA-seq
- GSM8291954 Adult WT CoE RNA-seq replicate 4 Adult WT CoE RNA-seq
- GSM8291955 Adult HIF2A cKO CoD RNA-seq replicate 1 Adult HIF2A cKO CoD RNA…
- GSM8291956 Adult HIF2A cKO CoD RNA-seq replicate 2 Adult HIF2A cKO CoD RNA…
- GSM8291957 Adult HIF2A cKO CoD RNA-seq replicate 3 Adult HIF2A cKO CoD RNA…
- GSM8291958 Adult HIF2A cKO CoD RNA-seq replicate 4 Adult HIF2A cKO CoD RNA…
- GSM8291959 Adult HIF2A cKO CoE RNA-seq replicate 1 Adult HIF2A cKO CoE RNA…
- GSM8291960 Adult HIF2A cKO CoE RNA-seq replicate 2 Adult HIF2A cKO CoE RNA…
- GSM8291961 Adult HIF2A cKO CoE RNA-seq replicate 4 Adult HIF2A cKO CoE RNA…
- GSE237534 INO80 / SWR remodelers regulate Pol II transcription through BRD2 and chromatin landscape 217 samples shares chromatin, regulate
- GSE288605 Context-Dependent and Gene-Specific Role of Chromatin Architecture Mediated by Histone Modifiers and Loop-extrusion Machinery 96 samples shares chromatin, dependent
- GSE272524 Chromatin-dependent motif syntax defines differentiation trajectories [ChIP-seq] 76 samples shares chromatin, dependent
- GSE267452 Loss of Nuclear Receptor Nr4a3 Alleviates Cellular Senescence to Promote Adult Direct Cardiac Reprogramming 54 samples shares receptor, nuclear
- GSE301108 Stag2 dependent chromatin remodeling enforces the erythroid-specific Gata1 cistrome 45 samples shares chromatin, dependent
- GSE324864 HP1B and H3K9me3 Regulate Olfactory Receptor Choice and 2 Transcriptional Identity [ChIP-seq] 28 samples shares receptor, regulate
- GSE246986 Ki67-mediated chromatin accessibility impedes B-cell antigen-receptor gene rearrangement 24 samples shares chromatin, receptor
- GSE306869 The RNA binding protein LIN28A mediates chromatin dynamics during neuronal differentiation 24 samples shares chromatin, dynamics
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.