Multimodal spatial profiling reveals distinct myeloid-defined ENKTL subgroups and tumor-myeloid cooperativity within prognostic inflammatory niche
27 affiliations
- 1Tsinghua Medicine, Tsinghua University, Beijing, China
- 2Department of Pathology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore, Singapore
- 3Department of Radiation Oncology, Chongqing University Cancer Hospital, Chongqing, China
- 4Cancer Science Institute of Singapore, National University of Singapore, Singapore, Singapore
- 5Department of Medicine and Surgery, Kore University of Enna, Enna, Italy
- 6Department of Biomedical Informatics, Yong Loo Lin School of Medicine, National University of Singapore, Singapore, Singapore
- 7State Key Laboratory of Oncology in South China, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Department of Experimental Research, Guangdong Provincial Clinical Research Center for Cancer, Sun Yat-sen University Cancer Center, Guangzhou, China
- 8Department of Clinical Oncology, School of Clinical Medicine, Li Ka Shing Faculty of Medicine, University of Hong Kong, Hong Kong SAR, China
- 9Collaborative Innovation Center for Cancer Medicine, Nanjing Medical University, Nanjing, China
- 10Division of Medical Oncology, National Cancer Centre Singapore, Singapore, Singapore
- 11Institute of Advanced Studies Hong Kong, Sun Yat-sen University, Hong Kong SAR, China
- 12Shanghai Institute of Hematology, State Key Laboratory of Medical Genomics, National Research Center for Translational Medicine at Shanghai, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, China
- 13Department of Pathology, National University Hospital, Singapore, Singapore
- 14Department of Anatomical Pathology, Singapore General Hospital, Singapore, Singapore
- 15Institute of Molecular and Cell Biology, Agency for Science, Technology and Research, Singapore, Singapore
- 16Department of Haematology-Oncology, National University Cancer Institute Singapore, National University Health System, Singapore, Singapore
- 17Lymphoma Translational Research Laboratory, Division of Cellular and Molecular Research, National Cancer Centre Singapore, Singapore, Singapore
- 18ONCO-ACP, Duke-NUS Medical School, Singapore, Singapore
- 19Center of Excellence for Translational Medicine, Fundeni Clinical Institute, Bucharest, Romania
- 20Director’s Office, National Cancer Centre Singapore, Singapore, Singapore
- 21Office of Education, Duke-NUS Medical School, Singapore, Singapore
- 22Centre for Biomedical Data Science and Program in Cancer and Stem Cell Biology, Duke-NUS Medical School, Singapore, Singapore
- 23Bioinformatics Institute, Agency for Science, Technology and Research, Singapore, Singapore
- 24Immunology Translational Research Program, Department of Microbiology and Immunology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore, Singapore
- 25NUS Centre for Cancer Research, Yong Loo Lin School of Medicine, National University of Singapore, Singapore, Singapore
- 26Advanced Pathology Laboratory, IFOM ETS – The AIRC Institute of Molecular Oncology, Milan, Italy
- 27Department of Oncology and Hemato-Oncology, University of Milan, Milan, Italy
Abstract
Extranodal NK/T-cell lymphoma (ENKTL) is an aggressive Epstein–Barr virus (EBV)-associated malignancy with a heterogeneous tumor microenvironment, yet macrophage heterogeneity and tumor-macrophage crosstalk remain poorly defined. Here, we integrate spatial transcriptomic and proteomic profiling with single-cell spatial molecular imaging of ENKTL samples and identify two subgroups defined by distinct macrophage programs. Subgroup 1 is enriched for inflammatory macrophages exhibiting IFN-α/γ responses and immune-regulatory molecules including IDO1 and CD274, whereas Subgroup 2 is immune-quiescent and macrophage-sparse, with its macrophage compartment skewed towards STAB1 macrophages with scavenging features. Notably, an NF-κB-activated and EBV-associated tumor subset is specifically enriched in Subgroup 1, displaying concurrent immunostimulatory and immunoregulatory features that parallel the co-enriched myeloid states and showing reproducible sample-level associations with these myeloid states across datasets. Spatial neighborhood analysis further delineates an inflammation niche where NF-κB tumor cells physically co-localize with these inflammatory macrophages, accompanied by enhanced tumor-myeloid and myeloid-myeloid signaling, implicating a process of tumor-associated myeloid recruitment followed by CCL- and IL1-mediated myeloid self-reinforcement. Critically, higher abundance of this niche correlates with improved survival across independent cohorts, revealing contrasting spatial tumor-immune architectures with prognostic relevance. Together, our study provides a spatially resolved framework for understanding ENKTL biology and guiding immunotherapeutic strategies.
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BibTeX
@article{deng2026multimodal,
title = {{Multimodal spatial profiling reveals distinct myeloid-defined ENKTL subgroups and tumor-myeloid cooperativity within prognostic inflammatory niche}},
author = {Lichang Deng and Min Liu and Reagan Entigu Anak Linton and Kaijie Hu and Shruti Sridhar and Giorgio Bertolazzi and Sai Mun Leong and Ling-Wen Ding and Nicholas Syn and Shuangyi Fan and Cho Mar Myint Wai and Yi-Qi Li and Jin-Xin Bei and Jie Xiong and Wei-Li Zhao and Susan Swee-Shan Hue and Joe Poh Sheng Yeong and Li Yen Chong and Li-Mei Poon and Choon Kiat Ong and Jing Quan Lim and Soon Thye Lim and Jinmiao Chen and Hang Xu and Anand Devaprasath Jeyasekharan and Claudio Tripodo and Siok-Bian Ng},
journal = {Leukemia},
year = {2026},
month = aug,
doi = {10.1038/s41375-026-03118-7},
url = {https://doi.org/10.1038/s41375-026-03118-7},
note = {CC BY-NC-ND 4.0},
}
RIS
TY - JOUR
TI - Multimodal spatial profiling reveals distinct myeloid-defined ENKTL subgroups and tumor-myeloid cooperativity within prognostic inflammatory niche
AU - Lichang Deng
AU - Min Liu
AU - Reagan Entigu Anak Linton
AU - Kaijie Hu
AU - Shruti Sridhar
AU - Giorgio Bertolazzi
AU - Sai Mun Leong
AU - Ling-Wen Ding
AU - Nicholas Syn
AU - Shuangyi Fan
AU - Cho Mar Myint Wai
AU - Yi-Qi Li
AU - Jin-Xin Bei
AU - Jie Xiong
AU - Wei-Li Zhao
AU - Susan Swee-Shan Hue
AU - Joe Poh Sheng Yeong
AU - Li Yen Chong
AU - Li-Mei Poon
AU - Choon Kiat Ong
AU - Jing Quan Lim
AU - Soon Thye Lim
AU - Jinmiao Chen
AU - Hang Xu
AU - Anand Devaprasath Jeyasekharan
AU - Claudio Tripodo
AU - Siok-Bian Ng
PY - 2026
DA - 2026/08/24
JO - Leukemia
DO - 10.1038/s41375-026-03118-7
UR - https://doi.org/10.1038/s41375-026-03118-7
AB - Extranodal NK/T-cell lymphoma (ENKTL) is an aggressive Epstein–Barr virus (EBV)-associated malignancy with a heterogeneous tumor microenvironment, yet macrophage heterogeneity and tumor-macrophage crosstalk remain poorly defined. Here, we integrate spatial transcriptomic and proteomic profiling with single-cell spatial molecular imaging of ENKTL samples and identify two subgroups defined by distinct macrophage programs. Subgroup 1 is enriched for inflammatory macrophages exhibiting IFN-α/γ responses and immune-regulatory molecules including IDO1 and CD274, whereas Subgroup 2 is immune-quiescent and macrophage-sparse, with its macrophage compartment skewed towards STAB1 macrophages with scavenging features. Notably, an NF-κB-activated and EBV-associated tumor subset is specifically enriched in Subgroup 1, displaying concurrent immunostimulatory and immunoregulatory features that parallel the co-enriched myeloid states and showing reproducible sample-level associations with these myeloid states across datasets. Spatial neighborhood analysis further delineates an inflammation niche where NF-κB tumor cells physically co-localize with these inflammatory macrophages, accompanied by enhanced tumor-myeloid and myeloid-myeloid signaling, implicating a process of tumor-associated myeloid recruitment followed by CCL- and IL1-mediated myeloid self-reinforcement. Critically, higher abundance of this niche correlates with improved survival across independent cohorts, revealing contrasting spatial tumor-immune architectures with prognostic relevance. Together, our study provides a spatially resolved framework for understanding ENKTL biology and guiding immunotherapeutic strategies.
SN - 0887-6924
SN - 1476-5551
ER -