Microscopic

Computational Digital Neuropathology

Quantifying disease from the tissue up.

Overview

We apply deep learning to whole-slide images and pathomics to characterise brain tumours at the cellular level, turning microscopy into quantitative, reproducible diagnostic information.

Computational Digital Neuropathology brings the lab's quantitative approach to the microscope. Working with whole-slide images of brain tissue, we develop deep-learning and pathomics methods that detect, classify and characterise disease at the cellular and tissue level, turning what has traditionally been a qualitative, expert-driven read into reproducible, quantitative information. Our work includes automated analysis of tumour histology, extraction of pathomic features that capture cell morphology and tissue architecture, and models that link these features to diagnosis, grade and molecular status. A recurring theme is collaboration across institutions and modalities, bridging digital pathology with imaging and genomics so that a tumour can be understood across scales, from the whole brain down to the single cell. Because pathology sits at the heart of diagnosis, we place particular emphasis on robustness and generalisability: models that hold up across scanners, stains and sites, and that clinicians can trust.

Methods

Techniques & approaches

The computational methods that underpin this research area

Radiomics

Whole-slide image analysis, Pathomics, Deep learning for histopathology, Cell and tissue classification, Cross-modal integration, Reproducibility across sites

Publications

Selected publications in this area

Conference paper

2024

TPMIL: Trainable Prototype enhanced Multiple Instance Learning for whole slide image classification

Yang L., Mehta D., Liu S., Mahapatra D., Di Ieva A., Ge Z.

Medical Imaging with Deep Learning 2023

Journal article

2024

Combination Drug Therapy of Glioblastoma: Lessons from 3D In Vitro Models and the Roadmap for Future Research

Vaezzadeh M., Kachooei E., Krishnamurthy S., Manandhar P., Nadort A., Guillemin G.J., Di Ieva A., Santiago M., Heng B., Guller A.

Advanced Therapeutics

Book chapter

2024

Fractal dimension analysis in neurological disorders: an overview

Díaz Beltrán L., Madan C.R., Finke C., Krohn S., Di Ieva A., Esteban F.J.

The fractal geometry of the brain

Journal article

2024

Deep learning-based hyperspectral image correction and unmixing for brain tumor surgery

Black D., Gill J., Xie A., Liquet B., Di leva A., Stummer W., Suero Molina E.

iScience

Funding

Selected funding in this area

Grants supporting our computational neuroimaging research programme

Australian Cancer Research Foundation (ACRF)

COMET Centre for Advanced Cancer Modelling & Experimental Oncology

$2,500,000

Centre Grant

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