Integrating AI-Powered Digital Pathology and Imaging Mass Cytometry Identifies Key Classifiers of Tumor Cells, Stroma, and Immune Cells in Non-Small Cell Lung Cancer

Overview

Journal Cancer Res

Specialty Oncology

Date 2024 Feb 5

PMID 38315789

Authors

Alessandra Rigamonti

Marika Viatore

Rebecca Polidori

Daoud Rahal

Marco Erreni

Maria Rita Fumagalli

Damiano Zanini

Andrea Doni

Anna Rita Putignano

Paola Bossi

Emanuele Voulaz

Marco Alloisio

Sabrina Rossi

Paolo Andrea Zucali

Armando Santoro

Vittoria Balzano

Paola Nistico

Friedrich Feuerhake

Alberto Mantovani

Massimo Locati

Federica Marchesi

Affiliations

Soon will be listed here.

Abstract

Significance: Leveraging artificial intelligence-powered H&E analysis integrated with hi-plex imaging mass cytometry provides insights into the tumor ecosystem and can translate tumor features into classifiers to predict prognosis, genotype, and therapy response.

Citing Articles

Integrating artificial intelligence in drug discovery and early drug development: a transformative approach.

Ocana A, Pandiella A, Privat C, Bravo I, Luengo-Oroz M, Amir E Biomark Res. 2025; 13(1):45.

PMID: 40087789 DOI: 10.1186/s40364-025-00758-2.

Tumor-immune partitioning and clustering algorithm for identifying tumor-immune cell spatial interaction signatures within the tumor microenvironment.

Lau M, Borowsky J, Vayrynen J, Haruki K, Zhao M, Dias Costa A PLoS Comput Biol. 2025; 21(2):e1012707.

PMID: 39965007 PMC: 11849983. DOI: 10.1371/journal.pcbi.1012707.

Artificial intelligence in lung cancer: current applications, future perspectives, and challenges.

Huang D, Li Z, Jiang T, Yang C, Li N Front Oncol. 2025; 14:1486310.

PMID: 39763611 PMC: 11700796. DOI: 10.3389/fonc.2024.1486310.

Making space for spatial biology in the clinic.

Nat Biotechnol. 2025; 43(1):1-2.

PMID: 39762531 DOI: 10.1038/s41587-024-02543-2.

Defining precancer: a grand challenge for the cancer community.

Faupel-Badger J, Kohaar I, Bahl M, Chan A, Campbell J, Ding L Nat Rev Cancer. 2024; 24(11):792-809.

PMID: 39354069 DOI: 10.1038/s41568-024-00744-0.

References

Black S, Phillips D, Hickey J, Kennedy-Darling J, Venkataraaman V, Samusik N . CODEX multiplexed tissue imaging with DNA-conjugated antibodies. Nat Protoc. 2021; 16(8):3802-3835. PMC: 8647621. DOI: 10.1038/s41596-021-00556-8. View

Diao J, Wang J, Chui W, Mountain V, Gullapally S, Srinivasan R . Human-interpretable image features derived from densely mapped cancer pathology slides predict diverse molecular phenotypes. Nat Commun. 2021; 12(1):1613. PMC: 7955068. DOI: 10.1038/s41467-021-21896-9. View

Wei J, Tafe L, Linnik Y, Vaickus L, Tomita N, Hassanpour S . Pathologist-level classification of histologic patterns on resected lung adenocarcinoma slides with deep neural networks. Sci Rep. 2019; 9(1):3358. PMC: 6399447. DOI: 10.1038/s41598-019-40041-7. View

Yatabe Y, Dacic S, Borczuk A, Warth A, Russell P, Lantuejoul S . Best Practices Recommendations for Diagnostic Immunohistochemistry in Lung Cancer. J Thorac Oncol. 2018; 14(3):377-407. PMC: 6422775. DOI: 10.1016/j.jtho.2018.12.005. View

Fridman W, Zitvogel L, Sautes-Fridman C, Kroemer G . The immune contexture in cancer prognosis and treatment. Nat Rev Clin Oncol. 2017; 14(12):717-734. DOI: 10.1038/nrclinonc.2017.101. View

Thai A, Solomon B, Sequist L, Gainor J, Heist R . Lung cancer. Lancet. 2021; 398(10299):535-554. DOI: 10.1016/S0140-6736(21)00312-3. View

Bankhead P, Loughrey M, Fernandez J, Dombrowski Y, McArt D, Dunne P . QuPath: Open source software for digital pathology image analysis. Sci Rep. 2017; 7(1):16878. PMC: 5715110. DOI: 10.1038/s41598-017-17204-5. View

Baxi V, Edwards R, Montalto M, Saha S . Digital pathology and artificial intelligence in translational medicine and clinical practice. Mod Pathol. 2021; 35(1):23-32. PMC: 8491759. DOI: 10.1038/s41379-021-00919-2. View

Kleppe A, Skrede O, de Raedt S, Liestol K, Kerr D, Danielsen H . Designing deep learning studies in cancer diagnostics. Nat Rev Cancer. 2021; 21(3):199-211. DOI: 10.1038/s41568-020-00327-9. View

10.

Beck A, Sangoi A, Leung S, Marinelli R, Nielsen T, van de Vijver M . Systematic analysis of breast cancer morphology uncovers stromal features associated with survival. Sci Transl Med. 2011; 3(108):108ra113. DOI: 10.1126/scitranslmed.3002564. View

11.

Vu T, Wrobel J, Bitler B, Schenk E, Jordan K, Ghosh D . SPF: A spatial and functional data analytic approach to cell imaging data. PLoS Comput Biol. 2022; 18(6):e1009486. PMC: 9239468. DOI: 10.1371/journal.pcbi.1009486. View

12.

Casanova-Acebes M, Dalla E, Leader A, LeBerichel J, Nikolic J, Morales B . Tissue-resident macrophages provide a pro-tumorigenic niche to early NSCLC cells. Nature. 2021; 595(7868):578-584. PMC: 8923521. DOI: 10.1038/s41586-021-03651-8. View

13.

Jackson H, Fischer J, Zanotelli V, Ali H, Mechera R, Soysal S . The single-cell pathology landscape of breast cancer. Nature. 2020; 578(7796):615-620. DOI: 10.1038/s41586-019-1876-x. View

14.

Yamashita R, Long J, Longacre T, Peng L, Berry G, Martin B . Deep learning model for the prediction of microsatellite instability in colorectal cancer: a diagnostic study. Lancet Oncol. 2021; 22(1):132-141. DOI: 10.1016/S1470-2045(20)30535-0. View

15.

Sangaletti S, Ferrara R, Tripodo C, Garassino M, Colombo M . Myeloid cell heterogeneity in lung cancer: implication for immunotherapy. Cancer Immunol Immunother. 2021; 70(9):2429-2438. PMC: 8017108. DOI: 10.1007/s00262-021-02916-5. View

16.

Coudray N, Ocampo P, Sakellaropoulos T, Narula N, Snuderl M, Fenyo D . Classification and mutation prediction from non-small cell lung cancer histopathology images using deep learning. Nat Med. 2018; 24(10):1559-1567. PMC: 9847512. DOI: 10.1038/s41591-018-0177-5. View

17.

Lagache T, Lang G, Sauvonnet N, Olivo-Marin J . Analysis of the spatial organization of molecules with robust statistics. PLoS One. 2013; 8(12):e80914. PMC: 3857798. DOI: 10.1371/journal.pone.0080914. View

18.

Kather J, Suarez-Carmona M, Charoentong P, Weis C, Hirsch D, Bankhead P . Topography of cancer-associated immune cells in human solid tumors. Elife. 2018; 7. PMC: 6133554. DOI: 10.7554/eLife.36967. View

19.

Cancian P, Cortese N, Donadon M, Di Maio M, Soldani C, Marchesi F . Development of a Deep-Learning Pipeline to Recognize and Characterize Macrophages in Colo-Rectal Liver Metastasis. Cancers (Basel). 2021; 13(13). PMC: 8269198. DOI: 10.3390/cancers13133313. View

20.

Kather J, Pearson A, Halama N, Jager D, Krause J, Loosen S . Deep learning can predict microsatellite instability directly from histology in gastrointestinal cancer. Nat Med. 2019; 25(7):1054-1056. PMC: 7423299. DOI: 10.1038/s41591-019-0462-y. View