Epigenetic control of microglial mitochondrial immunity by KAT7 drives Alzheimer’s disease pathogenesis [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: 3 × WT vs 3 × Kat7_KO vs 3 × LPS_WT vs 3 × LPS_Kat7_KOGroups 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 GSE327604_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 PRJNA1451514 and SRA study SRP690797. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 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.
- GSM9662100 WT rep1 WT
- GSM9662101 WT rep2 WT
- GSM9662102 WT rep3 WT
- GSM9662103 Kat7_KO rep1 Kat7_KO
- GSM9662104 Kat7_KO rep2 Kat7_KO
- GSM9662105 Kat7_KO rep3 Kat7_KO
- GSM9662106 LPS_WT rep1 LPS_WT
- GSM9662107 LPS_WT rep2 LPS_WT
- GSM9662108 LPS_WT rep3 LPS_WT
- GSM9662109 LPS_Kat7_KO rep1 LPS_Kat7_KO
- GSM9662110 LPS_Kat7_KO rep2 LPS_Kat7_KO
- GSM9662111 LPS_Kat7_KO rep3 LPS_Kat7_KO
- GSE243008 Mitochondrial serine metabolism fuels epigenetic remodelling in osteoclast differentiation and is the main target of methotrexate 58 samples shares mitochondrial, epigenetic
- GSE276628 Reciprocal genetic screens identify epigenetics factors controlling epidermal cell activation. [RNAseq_MiniBulk] 41 samples shares epigenetic, control
- GSE300014 The CARM1 Epigenetic Enzyme Inhibits Cross-presenting Dendritic Cell Function in Cancer Immunity [RNA-seq] 26 samples shares epigenetic, immunity
- GSE243640 GLUD1 determines murine muscle stem cell fate by controlling mitochondrial glutamate levels 19 samples shares mitochondrial, control
- GSE248275 Adenosine triggers early astrocyte reactivity that provokes microglial reaction and drives the pathogenesis of sepsis-associated encephalopathy 18 samples shares pathogenesis, microglial
- GSE287625 Mitochondrial Ca2+ controls pancreatic cancer growth and metastasis by regulating epithelial cell plasticity 18 samples shares mitochondrial, control
- GSE328769 Alzheimer's disease associated Presenilin 2 N141I mutation impairs neuronal lipid homeostasis and mitochondrial dynamics through selective downregulation of the Golgi exchange factor Gbf1 16 samples shares mitochondrial, alzheimer
- GSE306116 Caspase-3 Control of RNA Splicing and Mitochondrial Dynamics in Microglia during Parkinson’s Disease [RNA-Seq] 12 samples shares mitochondrial, control
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.