SEX-DEPENDENT APOE4 NEUTROPHIL-MICROGLIA INTERACTIONS DRIVE COGNITIVE IMPAIRMENT IN ALZHEIMER'S DISEASE [Neutrophils_Spleen_Brain_E3_E4]
RNA-seq (gene expression) · mouse · 13 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
- 13 samples: 13 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.
- Paper
- Sex-dependent APOE4 neutrophil-microglia interactions drive cognitive impairment in Alzheimer's diseaseNature medicine · 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 GSE243749_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 PRJNA1019750 and SRA study SRP462557. 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 13 sample titles: 13 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.
- GSM7795269 Sample_1_Neutrophils_APOE4_Spleen
- GSM7795270 Sample_2_Neutrophils_APOE4_Spleen
- GSM7795271 Sample_3_Neutrophils_APOE4_Spleen
- GSM7795272 Sample_4_Neutrophils_APOE4_Spleen
- GSM7795273 Sample_5_Neutrophils_APOE3_Spleen
- GSM7795274 Sample_6_Neutrophils_APOE3_Spleen
- GSM7795275 Sample_7_Neutrophils_APOE3_Spleen
- GSM7795276 Sample_8_Neutrophils_APOE3_Brain
- GSM7795277 Sample_9_Neutrophils_APOE3_Brain
- GSM7795278 Sample_10_Neutrophils_APOE4_Brain
- GSM7795279 Sample_11_Neutrophils_APOE4_Brain
- GSM7795280 Sample_12_Neutrophils_APOE4_Brain
- GSM7795281 Sample_13_Neutrophils_APOE4_Brain
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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.