Selected publications
Concept-based explanation of gene expression prediction from H&E images
arXiv
·
18 Aug 2026
·
arxiv:2608.16669
We introduce an interpretable framework that links molecular states to tissue morphology, turning gene expression prediction from H&E into a tool for discovering the morphological concepts underlying tumour biology.
Transcriptionally defined morphological subtypes of pancreatic ductal adenocarcinoma
openRxiv
·
23 Sep 2022
·
doi:10.1101/2022.09.23.509133
We integrate spatial transcriptomics and tissue morphology to show how transcriptionally defined tumour cell states correspond to distinct patterns of spatial organisation and tissue architecture.
All publications
2026
Concept-based explanation of gene expression prediction from H&E images
arXiv
·
18 Aug 2026
·
arxiv:2608.16669
We introduce an interpretable framework that links molecular states to tissue morphology, turning gene expression prediction from H&E into a tool for discovering the morphological concepts underlying tumour biology.
2025
Extrachromosomal DNA–Driven Oncogene Dosage Heterogeneity Promotes Rapid Adaptation to Therapy in
MYCN
-Amplified Cancers
Cancer Discovery
·
07 Aug 2025
·
doi:10.1158/2159-8290.CD-24-1738
Outcome-associated factors in a molecularly defined cohort of central neurocytoma
Acta Neuropathologica
·
11 Jun 2025
·
doi:10.1007/s00401-025-02894-3
2022
Patient-specific modeling of stroma-mediated chemoresistance of pancreatic cancer using a three-dimensional organoid-fibroblast co-culture system
Journal of Experimental & Clinical Cancer Research
·
22 Oct 2022
·
doi:10.1186/s13046-022-02519-7
Transcriptionally defined morphological subtypes of pancreatic ductal adenocarcinoma
openRxiv
·
23 Sep 2022
·
doi:10.1101/2022.09.23.509133
We integrate spatial transcriptomics and tissue morphology to show how transcriptionally defined tumour cell states correspond to distinct patterns of spatial organisation and tissue architecture.
2021
Single-cell analysis of patient-derived PDAC organoids reveals cell state heterogeneity and a conserved developmental hierarchy
Nature Communications
·
05 Oct 2021
·
doi:10.1038/s41467-021-26059-4
Hypertension delays viral clearance and exacerbates airway hyperinflammation in patients with COVID-19
Nature Biotechnology
·
01 Jun 2021
·
https://www.nature.com/articles/s41587-020-00796-1
Functional States in Tumor-Initiating Cell Differentiation in Human Colorectal Cancer
Cancers
·
04 Mar 2021
·
doi:10.3390/cancers13051097
2020
Automated 3D light-sheet screening with high spatiotemporal resolution reveals mitotic phenotypes
Journal of Cell Science
·
01 Jun 2020
·
doi:10.1242/jcs.245043
Modeling glioblastoma invasion using human brain organoids and single-cell transcriptomics
Neuro-Oncology
·
16 Apr 2020
·
doi:10.1093/neuonc/noaa091
2019
Mutations in thyroid hormone receptor α1 cause premature neurogenesis and progenitor cell depletion in human cortical development
Proceedings of the National Academy of Sciences
·
18 Oct 2019
·
doi:10.1073/pnas.1908762116
Pheno-seq – linking visual features and gene expression in 3D cell culture systems
Scientific Reports
·
26 Aug 2019
·
doi:10.1038/s41598-019-48771-4
2018
Troy+ brain stem cells cycle through quiescence and regulate their number by sensing niche occupancy
Proceedings of the National Academy of Sciences
·
08 Jan 2018
·
doi:10.1073/pnas.1715911114
2015
Dynamic stem cell heterogeneity
Development
·
15 Apr 2015
·
doi:10.1242/dev.101063
2014
Deterministic Progenitor Behavior and Unitary Production of Neurons in the Neocortex
Cell
·
01 Nov 2014
·
doi:10.1016/j.cell.2014.10.027