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Modulation of Neurodegeneration by CSFR1 Inhibition in an a-synuclein model of DLB/PD

GSE255025 Mus musculus (mouse) RNA-seq (gene expression) 16 samples Submitted 2024/09/30 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 16 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
16 samples: 4 × a-syn-tg-con vs 4 × a-syn-tg-PLX vs 4 × Ntg-con vs 4 × Ntg-PLXGroups 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
Microglial and neuronal fates following inhibition of CSF-1R in synucleinopathy mouse modelBrain, behavior, and immunity · 2025
Summary (written by the submitters)
we treated a widely used and extensively studied synucleinopathy model of transgenic mice (Line 61) with PLX3397 and analyzed their neuropathology, behavioral deficits, and microglial transcriptomes.
Published in
Microglial and neuronal fates following inhibition of CSF-1R in synucleinopathy mouse model
Iba M, Lee YJ, Horan-Portelance L et al. · Brain, behavior, and immunity 2025 · PMID 39284516 · doi:10.1016/j.bbi.2024.09.016
This dataset
Open GSE255025 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE255025_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1073254 and SRA study SRP488064. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39284516) ↗
Study design
4 × a-syn-tg-con vs 4 × a-syn-tg-PLX vs 4 × Ntg-con vs 4 × Ntg-PLX

Supports a between-group comparison across 16 samples.

How we read this: 4 replicated groups read from 16 sample titles; they account for 16 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.

Samples in this study
Datasets on a similar topic

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