Targeting mitochondrial ROS-CK2-SET-PP2A pathway with ceria nanoparticles to reverse Tau pathology in APOEε4-associated Alzheimer’s disease [RNA-seq]
RNA-seq (gene expression) · human · 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
- Homo sapiens (human)
- Samples
- 12 samples: 12 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.
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 GSE334034_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 PRJNA1473628 and SRA study SRP735464. 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 12 sample titles: 12 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.
- GSM9779478 APOEε3-Vehicle human iPSC-derived neurons 1, day 19
- GSM9779479 APOEε3-Vehicle human iPSC-derived neurons 2, day 19
- GSM9779480 APOEε3-Vehicle human iPSC-derived neurons 3, day 19
- GSM9779481 APOEε3-Vehicle human iPSC-derived neurons 4, day 19
- GSM9779482 APOEε4-Vehicle human iPSC-derived neurons 1, day 19
- GSM9779483 APOEε4-Vehicle human iPSC-derived neurons 2, day 19
- GSM9779484 APOEε4-Vehicle human iPSC-derived neurons 3, day 19
- GSM9779485 APOEε4-Vehicle human iPSC-derived neurons 4, day 19
- GSM9779486 APOEε4-Ceria-TPP human iPSC-derived neurons 1, day 19
- GSM9779487 APOEε4-Ceria-TPP human iPSC-derived neurons 2, day 19
- GSM9779488 APOEε4-Ceria-TPP human iPSC-derived neurons 3, day 19
- GSM9779489 APOEε4-Ceria-TPP human iPSC-derived neurons 4, day 19
- GSE243743 SEX-DEPENDENT APOE4 NEUTROPHIL-MICROGLIA INTERACTIONS DRIVE COGNITIVE IMPAIRMENT IN ALZHEIMER'S DISEASE [Human_F_M_HC_MCI_AD_E33_34] 94 samples shares apoe, alzheimer
- GSE237718 APOE determines cell type-specific pathological landscape of Alzheimer's disease 56 samples shares apoe, alzheimer
- GSE260461 Sex-dependent APOE4 Neutrophil-microglia interactions drive cognitive impairment in Alzheimer's Disease 39 samples shares apoe, alzheimer
- GSE271385 The APOE isoforms differentially shape the transcriptomic and epigenomic landscapes of human microglia in a xenotransplantation model of Alzheimer’s disease [RNA-seq] 19 samples shares apoe, alzheimer
- GSE284141 Increased APOE abundance in the brain in Down syndrome - Alzheimer’s disease compared with early onset-Alzheimer's disease is associated with elevated APP and C- terminal fragment abundance 16 samples shares apoe, alzheimer
- GSE243745 SEX-DEPENDENT APOE4 NEUTROPHIL-MICROGLIA INTERACTIONS DRIVE COGNITIVE IMPAIRMENT IN ALZHEIMER'S DISEASE [Human_IL18R1] 10 samples shares apoe, alzheimer
- GSE254205 APOE4/4 is linked to damaging lipid droplets in Alzheimer's microglia 102 samples shares apoe, alzheimer
- GSE271384 The APOE isoforms differentially shape the transcriptomic and epigenomic landscapes of human microglia in a xenotransplantation model of Alzheimer’s disease [ATAC-seq] 20 samples shares apoe, alzheimer
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.