The Dlk1-Dio3 noncoding RNA cluster coordinately regulates mitochondrial respiration and chromatin structure to establish proper cell state for muscle differentiation [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: 16 samples, each with a distinct title — no replicated groupsGroups 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
- The Dlk1-Dio3 noncoding RNA cluster coordinately regulates mitochondrial respiration and chromatin structure to establish proper cell state for muscle differentiationDevelopment (Cambridge, England) · 2024
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 GSE284208_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 PRJNA1197978 and SRA study SRP551284. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 16 sample titles: 16 distinct titles with little repetition. 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.
- GSM8679749 Differentiating cells (Day 3), sample A, 2-4 deletion
- GSM8679750 Differentiating cells (Day 3), sample A, 2-7 deletion
- GSM8679751 Differentiating cells (Day 3), sample A, No deletion
- GSM8679752 Differentiating cells (Day 3), sample B, 2-4 deletion
- GSM8679753 Differentiating cells (Day 3), sample B, 2-7 deletion
- GSM8679754 Differentiating cells (Day 3), sample B, No deletion
- GSM8679755 Differentiating cells (Day 3), sample C, 2-4 deletion
- GSM8679756 Differentiating cells (Day 3), sample C, No deletion
- GSM8679757 Proliferating cells, sample A, 2-4 deletion
- GSM8679758 Proliferating cells, sample A, 2-7 deletion
- GSM8679759 Proliferating cells, sample A, No deletion
- GSM8679760 Proliferating cells, sample B, 2-4 deletion
- GSM8679761 Proliferating cells, sample B, 2-7 deletion
- GSM8679762 Proliferating cells, sample B, No deletion
- GSM8679763 Proliferating cells, sample C, 2-4 deletion
- GSM8679764 Proliferating cells, sample C, No deletion
- GSE272974 The Dlk1-Dio3 noncoding RNA cluster coordinately regulates mitochondrial respiration and chromatin structure to establish proper cell state for muscle differentiation 30 samples shares dlk1-dio3, mitochondrial, coordinately, respiration, noncoding, chromatin, structure, establish
- GSE296763 Mitochondrial respiration is necessary for CD8 T cell proliferation and cell fate 99 samples shares mitochondrial, respiration
- GSE269239 Mitochondrial respiration in microglia is essential for response to demyelinating injury but not proliferation 64 samples shares mitochondrial, respiration
- GSE337304 Reciprocal, methylation-dependent binding of Zfp57 and Gzf1 safeguards Dlk1-Dio3 imprinting during developmental reprogramming 64 samples shares dlk1-dio3
- GSE273473 Mitochondrial L-2-hydroxyglutarate is a physiologic signaling metabolite [ChIP-seq] 14 samples shares mitochondrial
- GSE280278 A multi-omics census reveals miRNA miR-let-7 as instigator of paternal mitochondrial dysfunction and in epigenetic heredity of intergenerational metabolic decline 279 samples shares mitochondrial
- GSE239814 Mitochondrial signals mediate paternal effects on offspring metabolism (Smart-Seq) 221 samples shares mitochondrial
- GSE280991 Partial restoration of the mitochondrial dysfunction by AAV-Ant1 (Slc25a4) transduction protects against dilated cardiomyopathy in Slc25a4-/- plus mtDNA mutant mice 115 samples shares mitochondrial
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.