Mitochondrial Dysfunction and Increased Reactive Oxygen Species Production in MECP2 Mutant Astrocytes and their Impact on Neurons
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 12 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
- Homo sapiens (human)
- Samples
- 12 samples: 2 × Control cerebral organoid ATAC vs 2 × MECP2 mutant cerebral organoid ATAC vs 2 × Control cerebral organoid GEX vs 2 × MECP2 mutant cerebral organoid GEXGroups 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
- Mitochondrial dysfunction and increased reactive oxygen species production in MECP2 mutant astrocytes and their impact on neuronsScientific reports · 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 GSE226975_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 PRJNA942338 and SRA study SRP426335. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 8 samples read as cases, 4 as controls.
How we read this: 4 replicated groups read from 12 sample titles; they account for 8 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.
- GSM7089232 Control cerebral organoid ATAC replicate 1 Control cerebral organo…
- GSM7089233 Control cerebral organoid ATAC replicate 2 Control cerebral organo…
- GSM7089234 MECP2 mutant cerebral organoid ATAC replicate 1 MECP2 mutant cerebral o…
- GSM7089235 MECP2 mutant cerebral organoid ATAC replicate 2 MECP2 mutant cerebral o…
- GSM7089236 Control cerebral organoid GEX replicate 1 Control cerebral organo…
- GSM7089237 Control cerebral organoid GEX replicate 2 Control cerebral organo…
- GSM7089238 MECP2 mutant cerebral organoid GEX replicate 1 MECP2 mutant cerebral o…
- GSM7089239 MECP2 mutant cerebral organoid GEX replicate 2 MECP2 mutant cerebral o…
- GSM8446211 MECP2 mutant cerebral organoid replicate 3 [GEX]
- GSM8446212 MECP2 mutant cerebral organoid replicate 4 [GEX]
- GSM8446213 MECP2 mutant cerebral organoid replicate 3 [scATAC-Seq]
- GSM8446214 MECP2 mutant cerebral organoid replicate 4 [scATAC-Seq]
- GSE291860 Achilles tendon exhibits distinct transcriptomic changes with increased mitochondrial energy production under lunar gravity 18 samples shares mitochondrial, production, increased
- GSE343456 MCART1 (SLC25A51) deficiency exacerbates mitochondrial dysfunction during MPP+-induced complex I stress 24 samples shares mitochondrial, dysfunction
- GSE302114 Mitochondrial One-Carbon Metabolism is Required for TGF-β-Induced Glycine Synthesis and Collagen Protein Production 18 samples shares mitochondrial, production
- GSE274283 Bulk RNA sequencing analysis of a iPSC-derived neurons, microglia and astrocytes models of mitochondrial unfolded protein response (UPRmt) activation. 18 samples shares mitochondrial, astrocytes
- GSE304575 LMNA p.H222P mutation causes contractile dysfunction via impaired mitochondrial calcium uptake in human cardiac laminopathy 12 samples shares mitochondrial, dysfunction
- GSE338415 Loss of TSPOAP1 exacerbates mitochondrial dysfunction and neuronal apoptosis after intracerebral hemorrhage 10 samples shares mitochondrial, dysfunction
- GSE327103 Glabridin Promotes Melanosome Degradation and Alleviates Melanosome-Induced Mitochondrial Dysfunction in Keratinocytes via Autophagy 9 samples shares mitochondrial, dysfunction
- GSE268177 Modulating alternative splicing of MECP2: A potential therapeutic strategy for Rett syndrome 93 samples shares mecp2
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.