# Integrated Single-Cell Analysis Identifies IL1RAP as a Master Regulator of TAMs and a Prognostic Biomarker in Breast Cancer

**Authors:** Wucheng Zhu, Gaoge Peng, Yi Wu, Lixing Zhang, Mingang He, Beibei Xin, Wei Jin, Hefen Sun

PMC · DOI: 10.3390/ijms27041894 · International Journal of Molecular Sciences · 2026-02-16

## TL;DR

This study identifies IL1RAP as a key regulator of tumor-associated macrophages in breast cancer, suggesting it could be a new target for cancer therapy.

## Contribution

The paper introduces IL1RAP as a novel regulator of macrophage recruitment and M2 polarization in breast cancer.

## Key findings

- IL1RAP expression in macrophages correlates with immune suppression and poor prognosis in breast cancer.
- IL1RAP deficiency reduces macrophage migration and M2 polarization, as shown by decreased M2 markers like Arg1 and Mrc1.

## Abstract

The recruitment and polarization of tumor-associated macrophages (TAMs) play a pivotal role in shaping the immunosuppressive tumor microenvironment in breast cancer. Interleukin-1 receptor accessory protein (IL1RAP), a critical co-receptor for IL-1 family cytokines, is emerging as a potential regulator of macrophage function, though its specific role in TAM biology remains to be explained. In this study, we investigated the impact of IL1RAP on macrophage recruitment and M2-like polarization. Initial bioinformatics analysis of public databases revealed a significant correlation between elevated IL1RAP expression in macrophages and signatures of immune suppression and poor prognosis in breast cancer. To functionally validate these findings, we performed IL1RAP knockdown in a murine macrophage cell line. Our results demonstrated that IL1RAP deficiency markedly impaired the migratory capacity of macrophages towards classic chemotactic stimuli. Furthermore, under M2-polarizing conditions, IL1RAP-knockdown macrophages exhibited a significantly attenuated M2 phenotype, as evidenced by the decreased expression of canonical M2 markers (e.g., Arg1, Mrc1) and reduced functional outputs. Collectively, our integrated approach combining bioinformatics and in vitro experimentation identifies IL1RAP as a novel regulator that potentiates both the recruitment and the M2 polarization of macrophages. These findings suggest that targeting the IL1RAP pathway could represent a promising therapeutic strategy for reprogramming the tumor-immune microenvironment by limiting pro-tumoral macrophage infiltration and polarization.

## Linked entities

- **Genes:** IL1RAP (interleukin 1 receptor accessory protein) [NCBI Gene 3556], ARG1 (arginase 1) [NCBI Gene 383], MRC1 (mannose receptor C-type 1) [NCBI Gene 4360]
- **Diseases:** breast cancer (MONDO:0004989)

## Full-text entities

- **Genes:** CSF1 (colony stimulating factor 1) [NCBI Gene 1435] {aka CSF-1, MCSF, PG-M-CSF}, DCN (decorin) [NCBI Gene 1634] {aka CSCD, DSPG2, PG40, PGII, PGS2, SLRR1B}, FCGR3A (Fc gamma receptor IIIa) [NCBI Gene 2214] {aka CD16-II, CD16A, FCG3, FCGR3, FCRIIIA, FcGRIIIA}, CD79A (CD79a molecule) [NCBI Gene 973] {aka IGA, IGAlpha, MB-1, MB1}, IL1B (interleukin 1 beta) [NCBI Gene 3553] {aka IL-1, IL1-BETA, IL1F2, IL1beta}, IL1R2 (interleukin 1 receptor type 2) [NCBI Gene 7850] {aka CD121b, CDw121b, IL-1R-2, IL-1RT-2, IL-1RT2, IL1R2c}, Arg1 (arginase, liver) [NCBI Gene 11846] {aka AI, Arg-1, PGIF}, MRC1 (mannose receptor C-type 1) [NCBI Gene 4360] {aka CD206, CLEC13D, CLEC13DL, MMR, MRC1L1, bA541I19.1}, Il33 (interleukin 33) [NCBI Gene 77125] {aka 9230117N10Rik, Il-33, Il1f11, NF-HEV}, Nanog (Nanog homeobox) [NCBI Gene 71950] {aka 2410002E02Rik, ENK, Stm1, ecat4}, LYZ (lysozyme) [NCBI Gene 4069] {aka AMYLD5, LYZF1, LZM}, Il1b (interleukin 1 beta) [NCBI Gene 16176] {aka IL-1beta, Il-1b}, IL1RAP (interleukin 1 receptor accessory protein) [NCBI Gene 3556] {aka C3orf13, IL-1RAcP, IL1R3}, Mgl2 (macrophage galactose N-acetyl-galactosamine specific lectin 2) [NCBI Gene 216864] {aka CD301b}, NKG7 (natural killer cell granule protein 7) [NCBI Gene 4818] {aka GIG1, GMP-17, p15-TIA-1}, Sox2 (SRY (sex determining region Y)-box 2) [NCBI Gene 20674] {aka Sox-2, lcc, ysb}, ST2 (suppression of tumorigenicity 2) [NCBI Gene 6761], IL1R1 (interleukin 1 receptor type 1) [NCBI Gene 3554] {aka CD121A, CRMO3, D2S1473, IL-1R-alpha, IL-1RT1, IL1R}, Il1 (interleukin 1 complex) [NCBI Gene 111343] {aka Il-1}, TBP (TATA-box binding protein) [NCBI Gene 6908] {aka GTF2D, GTF2D1, HDL4, SCA17, TBP1, TFIID}, FCGR2A (Fc gamma receptor IIa) [NCBI Gene 2212] {aka CD32, CD32A, CDw32, FCG2, FCGR2, FCGR2A1}, VEGFA (vascular endothelial growth factor A) [NCBI Gene 7422] {aka L-VEGF, MVCD1, VEGF, VPF}, CLDN5 (claudin 5) [NCBI Gene 7122] {aka AWAL, BEC1, CPETRL1, TMDVCF, TMVCF}, IL33 (interleukin 33) [NCBI Gene 90865] {aka C9orf26, DVS27, IL1F11, NF-HEV, NFEHEV}, BRCA1 (BRCA1 DNA repair associated) [NCBI Gene 672] {aka BRCAI, BRCC1, BROVCA1, FANCS, IRIS, PNCA4}, EPCAM (epithelial cell adhesion molecule) [NCBI Gene 4072] {aka Ber-Ep4, BerEp4, DIAR5, EGP-2, EGP314, EGP40}, Il1rap (interleukin 1 receptor accessory protein) [NCBI Gene 16180] {aka 6430709H04Rik, IL-1RAcP}, Retnla (resistin like alpha) [NCBI Gene 57262] {aka 1810019L16Rik, Fizz-1, Fizz1, HIMF, RELM-alpha, RELMa}, Mrc1 (mannose receptor, C type 1) [NCBI Gene 17533] {aka CD206, MR}, ARG1 (arginase 1) [NCBI Gene 383], Irf4 (interferon regulatory factor 4) [NCBI Gene 16364] {aka IRF-4, LSIRF, NF-EM5, Spip}
- **Diseases:** Cancer (MESH:D009369), mycoplasma (MESH:D009175), tumorigenic (MESH:D002471), metastasis (MESH:D009362), inflammation (MESH:D007249), injury to (MESH:D014947), UMAP (MESH:C567162), TNBC (MESH:D064726), Breast Cancer (MESH:D001943)
- **Chemicals:** streptomycin (MESH:D013307), nitrogen (MESH:D009584), prostaglandins (MESH:D011453), AF647 (MESH:C569686), penicillin (MESH:D010406), crystal violet (MESH:D005840), methanol (MESH:D000432), Cocktail (-), SDS (MESH:D012967), PVDF (MESH:C024865), Tween (MESH:D011136), PBS (MESH:D007854), TRIzol (MESH:C411644), lipid (MESH:D008055), polybrene (MESH:D006583), CO2 (MESH:D002245), CCK-8 (MESH:D012844)
- **Species:** Homo sapiens (human, species) [taxon 9606], Lentivirus (genus) [taxon 11646], Mus musculus (house mouse, species) [taxon 10090], Rattus norvegicus (brown rat, species) [taxon 10116]
- **Cell lines:** HEK293T — Homo sapiens (Human), Transformed cell line (CVCL_0063), Py8119 — Mus musculus (Mouse), Malignant neoplasms of the mouse mammary gland, Cancer cell line (CVCL_AQ09), shSCR — Homo sapiens (Human), Embryonic stem cell (CVCL_DQ84)

## Full text

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## Figures

7 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12940502/full.md

## References

45 references — full list in the complete paper: https://tomesphere.com/paper/PMC12940502/full.md

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Source: https://tomesphere.com/paper/PMC12940502