Cytokine–ontogeny interaction shapes macrophage transcriptional states (combined GM-CSF– and M-CSF–derived macrophages)
RNA-seq (gene expression) · mouse · 47 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
- 47 samples: 10 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
- An ontogeny-cytokine code determines macrophage response polarity and tumor outcomesCommunications biology · 2026
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 GSE304646_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 PRJNA1301986 and SRA study SRP606722. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 47 samples.
How we read this: 10 replicated groups read from 47 sample titles; they account for 47 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.
- GSM9154595 BMDC Control 1 BMDC Control
- GSM9154596 BMDC IFNy 1 BMDC IFNy
- GSM9154597 BMDC IL4 1 BMDC IL4
- GSM9154598 BMDC IL10 1 BMDC IL10
- GSM9154599 BMDC TGFb 1 BMDC TGFb
- GSM9154600 BMDM Control 1 BMDM Control
- GSM9154601 BMDM IFNy 1 BMDM IFNy
- GSM9154602 BMDM IL4 1 BMDM IL4
- GSM9154603 BMDM IL10 1 BMDM IL10
- GSM9154604 BMDM TGFb 1 BMDM TGFb
- GSM9154605 BMDC Control 2 BMDC Control
- GSM9154606 BMDC IFNy 2 BMDC IFNy
- GSM9154607 BMDC IL4 2 BMDC IL4
- GSM9154608 BMDC IL10 2 BMDC IL10
- GSM9154609 BMDC TGFb 2 BMDC TGFb
- GSM9154610 BMDM Control 2 BMDM Control
- GSM9154611 BMDM IFNy 2 BMDM IFNy
- GSM9154612 BMDM IL4 2 BMDM IL4
- GSM9154613 BMDM IL10 2 BMDM IL10
- GSM9154614 BMDM TGFb 2 BMDM TGFb
- GSM9154615 BMDC Control 3 BMDC Control
- GSM9154616 BMDC IFNy 3 BMDC IFNy
- GSM9154617 BMDC IL4 3 BMDC IL4
- GSM9154618 BMDC IL10 3 BMDC IL10
- GSM9154619 BMDC TGFb 3 BMDC TGFb
- GSM9154620 BMDM Control 3 BMDM Control
- GSM9154621 BMDM IFNy 3 BMDM IFNy
- GSM9154622 BMDM IL4 3 BMDM IL4
- GSM9154623 BMDM IL10 3 BMDM IL10
- GSM9154624 BMDM TGFb 3 BMDM TGFb
- GSM9154625 BMDC Control 4 BMDC Control
- GSM9154626 BMDC IFNy 4 BMDC IFNy
- GSM9154627 BMDC IL4 4 BMDC IL4
- GSM9154628 BMDC IL10 4 BMDC IL10
- GSM9154629 BMDC TGFb 4 BMDC TGFb
- GSM9154630 BMDM Control 4 BMDM Control
- GSM9154631 BMDM IFNy 4 BMDM IFNy
- GSM9154632 BMDM IL4 4 BMDM IL4
- GSM9154633 BMDM IL10 4 BMDM IL10
- GSM9154634 BMDM TGFb 4 BMDM TGFb
+ 7 more — browse all 47 samples with per-sample file links →
- GSE268774 Lymph node macrophages drive immune tolerance and resistance to cancer therapy by expression of the immune-regulatory cytokine IL-33 [RNA-seq] 48 samples shares macrophages, macrophage, cytokine
- GSE237783 Complex interaction of tumor-derived factors instructs the niche specific phenotypes of tumor-associated macrophages [RNA-Seq] 28 samples shares interaction, macrophages, macrophage
- GSE337190 CAR-NKT cells induce low cytokine release syndrome by targeting hyperinflammatory macrophages with mitigation from GM-SCF inhibition. 24 samples shares macrophages, macrophage, cytokine
- GSE302734 Single-Cell RNA Sequencing Unravels Interactions between Macrophages and Fibroadipogenic Progenitors during Ectopic Bone Formation in FOP Mice 12 samples shares interaction, macrophages, macrophage
- GSE305413 GM-CSF production by immune cells in steady state and autoimmune neuroinflammation mapped using fate-reporting mice 12 samples shares gm-csf, m-csf
- GSE272755 Transcriptional effects of lysosome stress on mouse bone marrow-derived macrophages and primary microglia 263 samples shares macrophages, macrophage
- GSE319684 Timecourse of FACS sorted Ly6C+ monocytes, tissue resident alveolar macrophages (trAMs), monocyte derived alveolar macrophages (bmAMs) and epithelial cells from SARS-CoV-2 (maVie16) vs. IAV (PR8) infected mouse lungs 176 samples shares macrophages, macrophage
- GSE300757 Efferocytosis induces proangiogenic function and chromatin remodeling in tumor-associated macrophages 127 samples shares macrophages, macrophage
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.