Cytokine–ontogeny interaction shapes macrophage transcriptional states
RNA-seq (gene expression) · mouse · 100 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
- 100 samples: 10 conditions, mostly with about 10 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
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 GSE304868_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 PRJNA1303100 and SRA study SRP606615. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 94 samples.
How we read this: 10 replicated groups read from 100 sample titles; they account for 94 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.
- GSM9152906 Multiplexed Pool 1 – Day 1 (BC001–BC004)
- GSM9152907 Multiplexed Pool 2 – Day 1/5 (BC001–BC004)
- GSM9152908 Multiplexed Pool 3 – Day 5 (BC001–BC004)
- GSM9153781 Multiplexed Pool 1 – Day 5 (BC001–BC004)
- GSM9153782 Multiplexed Pool 2 – Day 5/7 (BC001–BC004)
- GSM9153783 Multiplexed Pool 3 – Day 7 (BC001–BC004)
- GSM9154573 BMDC Control 1 BMDC Control
- GSM9154574 BMDC IFNy 1 BMDC IFNy
- GSM9154575 BMDC IL4 1 BMDC IL4
- GSM9154576 BMDC IL10 1 BMDC IL10
- GSM9154577 BMDC TGFb 1 BMDC TGFb
- GSM9154578 BMDC Control 2 BMDC Control
- GSM9154579 BMDC IFNy 2 BMDC IFNy
- GSM9154580 BMDC IL4 2 BMDC IL4
- GSM9154581 BMDC IL10 2 BMDC IL10
- GSM9154582 BMDC TGFb 2 BMDC TGFb
- GSM9154583 BMDC Control 3 BMDC Control
- GSM9154584 BMDC IFNy 3 BMDC IFNy
- GSM9154585 BMDC IL4 3 BMDC IL4
- GSM9154586 BMDC IL10 3 BMDC IL10
- GSM9154587 BMDC TGFb 3 BMDC TGFb
- GSM9154588 BMDC Control 4 BMDC Control
- GSM9154589 BMDC IFNy 4 BMDC IFNy
- GSM9154590 BMDC IL4 4 BMDC IL4
- GSM9154591 BMDC IL10 4 BMDC IL10
- GSM9154592 BMDC TGFb 4 BMDC TGFb
- GSM9154593 BMDC IL4 5 BMDC IL4
- GSM9154594 BMDC IL10 5 BMDC IL10
- 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
+ 60 more — browse all 100 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 macrophage, cytokine
- GSE237783 Complex interaction of tumor-derived factors instructs the niche specific phenotypes of tumor-associated macrophages [RNA-Seq] 28 samples shares interaction, macrophage
- GSE337190 CAR-NKT cells induce low cytokine release syndrome by targeting hyperinflammatory macrophages with mitigation from GM-SCF inhibition. 24 samples shares macrophage, cytokine
- GSE335147 Mitochondrial profiling across macrophage states reveals inhibition of IL-4/IL-13 reprogramming by the integrated stress response 24 samples shares macrophage, states
- GSE302734 Single-Cell RNA Sequencing Unravels Interactions between Macrophages and Fibroadipogenic Progenitors during Ectopic Bone Formation in FOP Mice 12 samples shares interaction, macrophage
- GSE245648 The Heme-regulated transcriptional repressor, BACH1 safeguards macrophage enhancer selection, activation andtissue adaptation [RNA-seq_BMDM] 24 samples shares 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 macrophage
- GSE269191 ZEB2 is a Master Switch Controlling the Tumor-Associated Macrophage Program [in vivo] 145 samples shares 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.