Artificial intelligence in histopathology: enhancing cancer research and clinical oncology

A Shmatko, N Ghaffari Laleh, M Gerstung, JN Kather - Nature cancer, 2022 - nature.com
Artificial intelligence (AI) methods have multiplied our capabilities to extract quantitative
information from digital histopathology images. AI is expected to reduce workload for human …

Spatial components of molecular tissue biology

G Palla, DS Fischer, A Regev, FJ Theis - Nature Biotechnology, 2022 - nature.com
Methods for profiling RNA and protein expression in a spatially resolved manner are rapidly
evolving, making it possible to comprehensively characterize cells and tissues in health and …

Graph deep learning for the characterization of tumour microenvironments from spatial protein profiles in tissue specimens

Z Wu, AE Trevino, E Wu, K Swanson, HJ Kim… - Nature Biomedical …, 2022 - nature.com
Multiplexed immunofluorescence imaging allows the multidimensional molecular profiling of
cellular environments at subcellular resolution. However, identifying and characterizing …

[HTML][HTML] Spatial CRISPR genomics identifies regulators of the tumor microenvironment

M Dhainaut, SA Rose, G Akturk, A Wroblewska… - Cell, 2022 - cell.com
While CRISPR screens are hel** uncover genes regulating many cell-intrinsic processes,
existing approaches are suboptimal for identifying extracellular gene functions, particularly …

Clinical application of advanced multi-omics tumor profiling: Sha** precision oncology of the future

D Akhoundova, MA Rubin - Cancer Cell, 2022 - cell.com
Next-generation DNA sequencing technology has dramatically advanced clinical oncology
through the identification of therapeutic targets and molecular biomarkers, leading to the …

Temporal and spatial topography of cell proliferation in cancer

G Gaglia, S Kabraji, D Rammos, Y Dai, A Verma… - Nature Cell …, 2022 - nature.com
Proliferation is a fundamental trait of cancer cells, but its properties and spatial organization
in tumours are poorly characterized. Here we use highly multiplexed tissue imaging to …

[HTML][HTML] Systems biology at the giga-scale: Large multiscale models of complex, heterogeneous multicellular systems

A Montagud, M Ponce-de-Leon, A Valencia - Current Opinion in Systems …, 2021 - Elsevier
Agent-based modelling has proven its usefulness in several biomedical projects by
explaining and uncovering mechanisms in diseases. Nevertheless, the scenarios addressed …

Deconstructing pancreatic cancer using next generation-omic technologies–from discovery to knowledge-guided platforms for better patient management

D Schreyer, JP Neoptolemos, ST Barry… - Frontiers in Cell and …, 2022 - frontiersin.org
Comprehensive molecular landsca** studies reveal a potentially brighter future for
pancreatic ductal adenocarcinoma (PDAC) patients. Blood-borne biomarkers obtained from …

Game of clones: Battles in the field of carcinogenesis

Z Rahal, A Sinjab, II Wistuba, H Kadara - Pharmacology & therapeutics, 2022 - Elsevier
Recent advances in bulk sequencing approaches as well as genomic decoding at the single-
cell level have revealed surprisingly high somatic mutational burdens in normal tissues, as …

Leveraging single‐cell sequencing to unravel intratumour heterogeneity and tumour evolution in human cancers

AL Bowes, M Tarabichi, N Pillay… - The Journal of …, 2022 - Wiley Online Library
Intratumour heterogeneity (ITH) and tumour evolution are well‐documented phenomena in
human cancers. While the advent of next‐generation sequencing technologies has …