Caspase-3 Control of RNA Splicing and Mitochondrial Dynamics in Microglia during Parkinson’s Disease [RNA-Seq]
RNA-seq (gene expression) · mouse · 12 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 12 samples: 6 × Primary microglia, vehicle, 120min, vs 3 × Primary microglia, caspase-3/7 inhibitor, 120min, vs 3 × Primary microglia, DEVDfmk, 120min,Groups 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.
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 GSE306116_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1309150 and SRA study SRP610515. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 3 replicated groups read from 12 sample titles; they account for 12 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.
- GSM9193477 Primary microglia, vehicle, 120min, rep1 Primary microglia, vehi…
- GSM9193478 Primary microglia, caspase-3/7 inhibitor, 120min, rep1 Primary microglia, casp…
- GSM9193479 Primary microglia, vehicle, 120min, rep2 Primary microglia, vehi…
- GSM9193480 Primary microglia, caspase-3/7 inhibitor, 120min, rep2 Primary microglia, casp…
- GSM9193481 Primary microglia, vehicle, 120min, rep3 Primary microglia, vehi…
- GSM9193482 Primary microglia, caspase-3/7 inhibitor, 120min, rep3 Primary microglia, casp…
- GSM9686322 Primary microglia, vehicle, 120min, rep4 Primary microglia, vehi…
- GSM9686323 Primary microglia, DEVDfmk, 120min, rep4 Primary microglia, DEVD…
- GSM9686324 Primary microglia, vehicle, 120min, rep5 Primary microglia, vehi…
- GSM9686325 Primary microglia, DEVDfmk, 120min, rep5 Primary microglia, DEVD…
- GSM9686326 Primary microglia, vehicle, 120min, rep6 Primary microglia, vehi…
- GSM9686327 Primary microglia, DEVDfmk, 120min, rep6 Primary microglia, DEVD…
- GSE327604 Epigenetic control of microglial mitochondrial immunity by KAT7 drives Alzheimer’s disease pathogenesis [RNA-Seq] 12 samples shares mitochondrial, microglia, control, rna-seq
- GSE286094 Loss of ATG7 in Microglia Impairs UPR, Triggers Ferroptosis and Weakens Amyloid Pathology Control [scRNA-seq] 11 samples shares microglia, control, rna-seq
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares microglia, rna-seq
- GSE98969 Single cell RNA-seq identifies a unique microglia type associated with Alzheimer’s disease [RNA] 97 samples shares microglia, rna-seq
- GSE273310 DELE1 mitochondrial integrated stress response to CHCHD10 G58R protein misfolding in striated muscle [RNA-seq] 64 samples shares mitochondrial, rna-seq
- GSE278199 Microglia regulate cortical remyelination via ΤNFR1-dependent phenotypic polarization [scRNA-Seq] 45 samples shares microglia, rna-seq
- GSE226938 Early amyloid-induced changes in microglia gene expression in APP/PS1 mice [scRNA-seq] 36 samples shares microglia, rna-seq
- GSE300519 Neurotoxicity, α-Synuclein Pathology, and Mitochondrial Dysfunction: A Comparative Study of Three Parkinson’s Disease Mouse Models 35 samples shares mitochondrial, parkinson
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.