Single-cell spatial landscapes of the lung tumour immune microenvironment

Single-cell spatial landscapes of the lung tumour immune microenvironment

  • Leader, A. M. et al. Single-cell analysis of human non-small cell lung cancer lesions refines tumor classification and patient stratification. Cancer Cell 39, 1594–1609.e12 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Melms, J. C. et al. A molecular single-cell lung atlas of lethal COVID-19. Nature 595, 114–119 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Marjanovic, N. D. et al. Emergence of a high-plasticity cell state during lung cancer evolution. Cancer Cell 38, 229–246.e13 (2020).

    Article 
    CAS 

    Google Scholar
     

  • Zilionis, R. et al. Single-cell transcriptomics of human and mouse lung cancers reveals conserved myeloid populations across individuals and species. Immunity 50, 1317–1334.e10 (2019).

    Article 
    CAS 

    Google Scholar
     

  • Liu, B. et al. Temporal single-cell tracing reveals clonal revival and expansion of precursor exhausted T cells during anti-PD-1 therapy in lung cancer. Nat. Cancer 3, 108–121 (2022).

    Article 
    CAS 

    Google Scholar
     

  • Zheng, L. et al. Pan-cancer single-cell landscape of tumor-infiltrating T cells. Science 374, abe6474 (2021).

    Article 

    Google Scholar
     

  • Cheng, S. et al. A pan-cancer single-cell transcriptional atlas of tumor infiltrating myeloid cells. Cell 184, 792–809.e23 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Kumar, V. et al. Single-cell atlas of lineage states, tumor microenvironment, and subtype-specific expression programs in gastric cancer. Cancer Discov. 12, 670–691 (2022).

    Article 
    CAS 

    Google Scholar
     

  • Zhang, Y. et al. Single-cell analyses of renal cell cancers reveal insights into tumor microenvironment, cell of origin, and therapy response. Proc. Natl Acad. Sci. USA 118, e2103240118 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Siegel, R. L., Miller, K. D., Fuchs, H. E. & Jemal, A. Cancer statistics, 2021. CA Cancer J. Clin. 71, 7–33 (2021).

    Article 

    Google Scholar
     

  • Gridelli, C. et al. Non-small-cell lung cancer. Nat. Rev. Dis. Primers 1, 15009 (2015).

    Article 

    Google Scholar
     

  • Jackson, H. W. et al. The single-cell pathology landscape of breast cancer. Nature 578, 615–620 (2020).

    Article 
    CAS 

    Google Scholar
     

  • Ali, H. R. et al. Imaging mass cytometry and multiplatform genomics define the phenogenomic landscape of breast cancer. Nat. Cancer 1, 163–175 (2020).

    Article 
    CAS 

    Google Scholar
     

  • Schurch, C. M. et al. Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive front. Cell 182, 1341–1359.e19 (2020).

    Article 
    CAS 

    Google Scholar
     

  • Tavernari, D. et al. Nongenetic evolution drives lung adenocarcinoma spatial heterogeneity and progression. Cancer Discov. 11, 1490–1507 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Casanova-Acebes, M. et al. Tissue-resident macrophages provide a pro-tumorigenic niche to early NSCLC cells. Nature 595, 578–584 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Welsh, T. J. et al. Macrophage and mast-cell invasion of tumor cell islets confers a marked survival advantage in non-small-cell lung cancer. J. Clin. Oncol. 23, 8959–8967 (2005).

    Article 

    Google Scholar
     

  • Wu, P. et al. Inverse role of distinct subsets and distribution of macrophage in lung cancer prognosis: a meta-analysis. Oncotarget 7, 40451–40460 (2016).

    Article 

    Google Scholar
     

  • Conforti, F. et al. Sex-based dimorphism of anticancer immune response and molecular mechanisms of immune evasion. Clin. Cancer Res. 27, 4311–4324 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Tong, B. C. et al. Sex differences in early outcomes after lung cancer resection: analysis of the Society of Thoracic Surgeons General Thoracic Database. J. Thorac. Cardiovasc. Surg. 148, 13–18 (2014).

    Article 

    Google Scholar
     

  • International Early Lung Cancer Action Program Investigators. Women’s susceptibility to tobacco carcinogens and survival after diagnosis of lung cancer. JAMA 296, 180–184 (2006).

    Article 

    Google Scholar
     

  • Weng, N. P. Aging of the immune system: how much can the adaptive immune system adapt? Immunity 24, 495–499 (2006).

    Article 
    CAS 

    Google Scholar
     

  • Kugel, C. H. 3rd et al. Age correlates with response to anti-PD1, reflecting age-related differences in intratumoral effector and regulatory T-cell populations. Clin. Cancer Res. 24, 5347–5356 (2018).

    Article 
    CAS 

    Google Scholar
     

  • Fane, M. & Weeraratna, A. T. How the ageing microenvironment influences tumour progression. Nat. Rev. Cancer 20, 89–106 (2020).

    Article 
    CAS 

    Google Scholar
     

  • Yager, E. J. et al. Age-associated decline in T cell repertoire diversity leads to holes in the repertoire and impaired immunity to influenza virus. J. Exp. Med. 205, 711–723 (2008).

    Article 
    CAS 

    Google Scholar
     

  • Szczerba, B. M. et al. Neutrophils escort circulating tumour cells to enable cell cycle progression. Nature 566, 553–557 (2019).

    Article 
    CAS 

    Google Scholar
     

  • Saini, M., Szczerba, B. M. & Aceto, N. Circulating tumor cell–neutrophil tango along the metastatic process. Cancer Res. 79, 6067–6073 (2019).

    Article 
    CAS 

    Google Scholar
     

  • Xu, L., Tavora, F. & Burke, A. Histologic features associated with metastatic potential in invasive adenocarcinomas of the lung. Am. J. Surg. Pathol. 37, 1100–1108 (2013).

    Article 

    Google Scholar
     

  • Enfield, K. S. S. et al. Hyperspectral cell sociology reveals spatial tumor-immune cell interactions associated with lung cancer recurrence. J. Immunother. Cancer 7, 13 (2019).

    Article 

    Google Scholar
     

  • Peranzoni, E. et al. Macrophages impede CD8 T cells from reaching tumor cells and limit the efficacy of anti-PD-1 treatment. Proc. Natl Acad. Sci. USA 115, E4041–E4050 (2018).

    Article 
    CAS 

    Google Scholar
     

  • Schultze, J. L. et al. CD40-activated human B cells: an alternative source of highly efficient antigen presenting cells to generate autologous antigen-specific T cells for adoptive immunotherapy. J. Clin. Invest. 100, 2757–2765 (1997).

    Article 
    CAS 

    Google Scholar
     

  • Folkman, J. Tumor angiogenesis: therapeutic implications. N. Engl. J. Med. 285, 1182–1186 (1971).

    Article 
    CAS 

    Google Scholar
     

  • Noman, M. Z. et al. PD-L1 is a novel direct target of HIF-1α, and its blockade under hypoxia enhanced MDSC-mediated T cell activation. J. Exp. Med. 211, 781–790 (2014).

    Article 
    CAS 

    Google Scholar
     

  • Chang, C. F. et al. Polar opposites: Erk direction of CD4 T cell subsets. J. Immunol. 189, 721–731 (2012).

    Article 
    CAS 

    Google Scholar
     

  • He, K., Zhang, X., Ren, S. & Sun, J. Deep residual learning for image recognition. In 2016 IEEE Conference on Computer Vision and Pattern Recognition (CVPR) 770–778 (IEEE, 2016).

  • Deng, J. et al. ImageNet: a large-scale hierarchical image database. In 2009 IEEE Conference on Computer Vision and Pattern Recognition 248–255 (IEEE, 2009).

  • Ettinger, D. S. et al. Non-small cell lung cancer, version 3.2022, NCCN Clinical Practice Guidelines in Oncology. J. Natl Compr. Canc. Netw. 20, 497–530 (2022).

    Article 

    Google Scholar
     

  • Pisters, K. et al. Cancer Care Ontario and American Society of Clinical Oncology adjuvant chemotherapy and adjuvant radiation therapy for stages I–IIIA resectable non small-cell lung cancer guideline. J. Clin. Oncol. 25, 5506–5518 (2007).

    Article 

    Google Scholar
     

  • Martini, N. et al. Incidence of local recurrence and second primary tumors in resected stage I lung cancer. J. Thorac. Cardiovasc. Surg. 109, 120–129 (1995).

    Article 
    CAS 

    Google Scholar
     

  • Felip, E. et al. Adjuvant atezolizumab after adjuvant chemotherapy in resected stage IB–IIIA non-small-cell lung cancer (IMpower010): a randomised, multicentre, open-label, phase 3 trial. Lancet 398, 1344–1357 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Wu, Y. L. et al. Osimertinib in resected EGFR-mutated non-small-cell lung cancer. N. Engl. J. Med. 383, 1711–1723 (2020).

    Article 
    CAS 

    Google Scholar
     

  • Liudahl, S. M. et al. Leukocyte heterogeneity in pancreatic ductal adenocarcinoma: phenotypic and spatial features associated with clinical outcome. Cancer Discov. 11, 2014–2031 (2021).

    Article 

    Google Scholar
     

  • Peng, H. et al. Profiling tumor immune microenvironment of non-small cell lung cancer using multiplex immunofluorescence. Front. Immunol. 12, 750046 (2021).

    Article 
    CAS 

    Google Scholar
     

  • Ginhoux, F., Schultze, J. L., Murray, P. J., Ochando, J. & Biswas, S. K. New insights into the multidimensional concept of macrophage ontogeny, activation and function. Nat. Immunol. 17, 34–40 (2016).

    Article 
    CAS 

    Google Scholar
     

  • Murray, P. J. et al. Macrophage activation and polarization: nomenclature and experimental guidelines. Immunity 41, 14–20 (2014).

    Article 
    CAS 

    Google Scholar
     

  • Vassilvitskii, S. & Arthur, D. in SODA ’07: Proc. 18th Annual ACM–SIAM Symposium on Discrete Algorithms, 1027–1035 (Society for Industrial and Applied Mathematics, 2007).

  • MacLahlan, G. & Peel, D. Finite Mixture Models (John Wiley & Sons, 2000).