The effect of chronic intermittent hypoxia (CIH) on amyloid pathology in 5XFAD mice
RNA-seq (gene expression) · mouse · 39 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
- 39 samples: 8 conditions, mostly with about 5 replicates eachGroups 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
- Chronic Intermittent Hypoxia Exposure Induces a Unique Microglial Transcriptome in 5XFAD MiceMolecular neurobiology · 2025
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 GSE272491_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 PRJNA1136970 and SRA study SRP520591. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 39 samples.
How we read this: 8 replicated groups read from 39 sample titles; they account for 39 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.
- GSM8403481 F WT NX 4 F WT NX
- GSM8403482 F WT NX 3 F WT NX
- GSM8403483 F WT NX 2 F WT NX
- GSM8403484 F WT NX 1 F WT NX
- GSM8403485 F 5X NX 1 F 5X NX
- GSM8403486 F 5X NX 2 F 5X NX
- GSM8403487 F 5X NX 3 F 5X NX
- GSM8403488 F 5X NX 4 F 5X NX
- GSM8403489 F 5X NX 5 F 5X NX
- GSM8403490 F WT IH 5 F WT IH
- GSM8403491 F WT IH 4 F WT IH
- GSM8403492 F WT IH 3 F WT IH
- GSM8403493 F WT IH 2 F WT IH
- GSM8403494 F WT IH 1 F WT IH
- GSM8403495 F 5X IH 5 F 5X IH
- GSM8403496 F 5X IH 4 F 5X IH
- GSM8403497 F 5X IH 3 F 5X IH
- GSM8403498 F 5X IH 2 F 5X IH
- GSM8403499 F 5X IH 1 F 5X IH
- GSM8403500 M 5X IH 1 M 5X IH
- GSM8403501 M 5X IH 2 M 5X IH
- GSM8403502 M 5X IH 3 M 5X IH
- GSM8403503 M 5X IH 4 M 5X IH
- GSM8403504 M 5X IH 5 M 5X IH
- GSM8403505 M WT IH 1 M WT IH
- GSM8403506 M WT IH 2 M WT IH
- GSM8403507 M WT IH 3 M WT IH
- GSM8403508 M WT IH 4 M WT IH
- GSM8403509 M WT IH 5 M WT IH
- GSM8403510 M 5X NX 1 M 5X NX
- GSM8403511 M 5X NX 2 M 5X NX
- GSM8403512 M 5X NX 3 M 5X NX
- GSM8403513 M 5X NX 4 M 5X NX
- GSM8403514 M 5X NX 5 M 5X NX
- GSM8403515 M WT NX 1 M WT NX
- GSM8403516 M WT NX 2 M WT NX
- GSM8403517 M WT NX 3 M WT NX
- GSM8403518 M WT NX 4 M WT NX
- GSM8403519 M WT NX 5 M WT NX
- GSE306854 Exploring the sex and estrous cycle-dependent differences in microglia response to amyloid-beta pathology in female and male C57BL6/J (WT) and 5xFAD using bulk mRNAseq of isolated microglia. 24 samples shares 5xfad, pathology, amyloid
- GSE319850 Astrocytic APOE3-Christchurch expression ameliorates brain amyloid-β pathology in 5xFAD mice 23 samples shares 5xfad, pathology, amyloid
- GSE302604 Chronic intermittent hypoxia mimicking sleep apnea reshapes the liver circadian metabolic architecture 36 samples shares intermittent, chronic, hypoxia
- GSE184855 PPAR agonist, DTMB reduces chronic neuroinflammation in 5xFAD mice model. 22 samples shares 5xfad, chronic
- GSE271423 Inhaled Xenon modulates microglia and ameliorates disease in mouse models of amyloidosis and tauopathy [5xFAD-MITRG Astrocytes 6M] 10 samples shares 5xfad, amyloid
- GSE176506 Synergistic behavioral and neuroinflammatory effects of amyloid neuropathology and sepsis survival in a murine model of Alzheimer’s disease 112 samples shares pathology, amyloid
- GSE176505 Synergistic behavioral and neuroinflammatory effects of amyloid neuropathology and sepsis survival in a murine model of Alzheimer’s disease II 72 samples shares pathology, amyloid
- GSE176504 Synergistic behavioral and neuroinflammatory effects of amyloid neuropathology and sepsis survival in a murine model of Alzheimer’s disease I 40 samples shares pathology, amyloid
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.