GM-CSF production by immune cells in steady state and autoimmune neuroinflammation mapped using fate-reporting mice
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 × Naïve YFP vs 3 × Naïve YFP+ vs 3 × Effector/Memory YFP vs 3 × Effector/Memory YFP+Groups 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
- GM-CSF production by immune cells in steady state and autoimmune neuroinflammation mapped using fate reporting miceFrontiers in immunology · 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 GSE305413_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 PRJNA1305486 and SRA study SRP608735. 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.
- GSM9176744 Naïve YFP-1 Naïve YFP
- GSM9176753 Naïve YFP-2 Naïve YFP
- GSM9176762 Naïve YFP-3 Naïve YFP
- GSM9176770 Naïve YFP+1 Naïve YFP+
- GSM9176775 Naïve YFP+2 Naïve YFP+
- GSM9176776 Naïve YFP+3 Naïve YFP+
- GSM9176777 Effector/Memory YFP-1 Effector/Memory YFP
- GSM9176778 Effector/Memory YFP-2 Effector/Memory YFP
- GSM9176779 Effector/Memory YFP-3 Effector/Memory YFP
- GSM9176780 Effector/Memory YFP+1 Effector/Memory YFP+
- GSM9176781 Effector/Memory YFP+2 Effector/Memory YFP+
- GSM9176782 Effector/Memory YFP+3 Effector/Memory YFP+
- GSE304646 Cytokine–ontogeny interaction shapes macrophage transcriptional states (combined GM-CSF– and M-CSF–derived macrophages) 47 samples shares gm-csf, state
- GSE250279 25-hydroxycholesterol mediates brain cytokine production and neutrophil infiltration in a mouse model of LPS-induced neuroinflammation. 40 samples shares neuroinflammation, production
- GSE253097 Notch3 Directs a Regulatory T Cells-Microglia axis to Promote Autoimmune Neuroinflammation 24 samples shares neuroinflammation, autoimmune
- GSE325544 Loss of TET function in T regulatory cells yields ex-Treg cells biased toward T follicular helper cells, causing autoimmune diseases through autoantibody production 12 samples shares production, autoimmune
- GSE312134 Gene expression profiles of GM-CSF cultured bone marrow cells treated with HCQ or cGAMP. 42 samples shares gm-csf
- GSE304117 GM-CSF-derived DCs from BM and BM progenitors and Spleen(SP) in vitro 18 samples shares gm-csf
- GSE285474 Diabetic hyperglycemia-induced glycation regulates tumor vasculature integrity via NF-κB-mediated GM-CSF secretion by tumor cells 14 samples shares gm-csf
- GSE244172 TL1A and IL-18 synergy promotes GM-CSF dependent thymic emergency granulopoiesis 12 samples shares gm-csf
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.