Aberrant homeodomain-DNA cooperative dimerization underlies distinct developmental defects in two dominant CRX retinopathy models
ChIP-seq / ATAC-seq (genome binding and open chromatin) · synthetic construct; Mus musculus · 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
- synthetic construct; Mus musculus
- Samples
- 32 samples: 7 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.
- Paper
- Aberrant homeodomain-DNA cooperative dimerization underlies distinct developmental defects in two dominant CRX retinopathy modelsGenome research · 2025
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 GSE256215_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 PRJNA1078421 and SRA study SRP490534. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 22 samples.
How we read this: 7 replicated groups read from 32 sample titles; they account for 22 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.
- GSM8089345 ATAC_wt1 ATAC_wt
- GSM8089346 ATAC_wt2 ATAC_wt
- GSM8089347 ATAC_wt3 ATAC_wt
- GSM8089348 ATAC_ehet4 ATAC_ehet
- GSM8089349 ATAC_ehet5 ATAC_ehet
- GSM8089350 ATAC_ehet6 ATAC_ehet
- GSM8089351 ATAC_ehom1 ATAC_ehom
- GSM8089352 ATAC_ehom2 ATAC_ehom
- GSM8089353 ATAC_ehom3 ATAC_ehom
- GSM8089354 ATAC_khet1 ATAC_khet
- GSM8089355 ATAC_khet2 ATAC_khet
- GSM8089356 ATAC_khet3 ATAC_khet
- GSM8089357 ATAC_khom1 ATAC_khom
- GSM8089358 ATAC_khom2 ATAC_khom
- GSM8089359 ATAC_khom3 ATAC_khom
- GSM8089360 ATAC_rhom1 ATAC_rhom
- GSM8089361 ATAC_rhom2 ATAC_rhom
- GSM8089362 ATAC_rhom3 ATAC_rhom
- GSM8089363 wt_1d
- GSM8089364 wt_2d
- GSM8089365 e80a_1d
- GSM8089366 e80a_2d
- GSM8089367 k88n_1d
- GSM8089368 k88n_2d
- GSM8089369 r90w_1d
- GSM8089370 90w_2d
- GSM8089371 MPRA_plasmid
- GSM8089372 MPRA_dna
- GSM8089373 MPRA_rna1 MPRA_rna
- GSM8089374 MPRA_rna2 MPRA_rna
- GSM8089375 MPRA_rna3 MPRA_rna
- GSM8089376 MPRA_rna4 MPRA_rna
No close match found for this topic, so these are simply the most-viewed datasets of the same kind.
- GSE297068 A spatial code governs olfactory receptor choice and aligns sensory maps in the nose and brain 291 samples
- GSE274507 Reporter CRISPR screens decipher cis- and trans-regulatory principles at the Xist locus 244 samples
- GSE99978 Thiol-linked alkylation for the metabolic sequencing of RNA 141 samples
- GSE216095 Targeting MYC effector functions in pancreatic cancer by inhibiting the ATPase RUVBL1/2 87 samples
- GSE275724 GeoMx DSP- profiling of mouse spleen 67 samples
- GSE248680 Therapeutic application of circular RNA aptamers in a mouse model of psoriasis 40 samples
- GSE277603 Differential IRES-initiated translation during homeostatic stem cell differentiation and stress 36 samples
- GSE220949 Reconstructing regulative progenitor behaviors in synthetic embryos 29 samples
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.