645 citations · 1.1k across the 27 of their papers we have counts for
27 papers
Sparse concept attribution for histomorphological hypothesis generation from whole-slide classifiers
Tristan Lazard, Kenza Bouzid, Julius Hense +6
Histology images contain rich morphological information and can provide insights into pathological processes. However, deriving hypotheses relating morphological phenotypes to clin…
NOVA: An Agentic Framework for Automated Histopathology Analysis and Discovery
Anurag J. Vaidya, Felix Meissen, Daniel C. Castro +7
Digitized histopathology analysis involves complex, time-intensive workflows and specialized expertise, limiting its accessibility. We introduce NOVA, an agentic framework that tra…
Evidence-based diagnostic reasoning with multi-agent copilot for human pathology
Luca L. Weishaupt, Chengkuan Chen, Drew F. K. Williamson +8
Pathology is experiencing rapid digital transformation driven by whole-slide imaging and artificial intelligence (AI). While deep learning-based computational pathology has achieve…
AI-driven 3D Spatial Transcriptomics
Cristina Almagro-Pérez, Andrew H. Song, Luca Weishaupt +13
A comprehensive three-dimensional (3D) map of tissue architecture and gene expression is crucial for illuminating the complexity and heterogeneity of tissues across diverse biomedi…
Multimodal Whole Slide Foundation Model for Pathology
Tong Ding, Sophia J. Wagner, Andrew H. Song +20
The field of computational pathology has been transformed with recent advances in foundation models that encode histopathology region-of-interests (ROIs) into versatile and transfe…
HEST-1k: A Dataset for Spatial Transcriptomics and Histology Image Analysis
Guillaume Jaume, Paul Doucet, Andrew H. Song +8
Spatial transcriptomics enables interrogating the molecular composition of tissue with ever-increasing resolution and sensitivity. However, costs, rapidly evolving technology, and…
Morphological Prototyping for Unsupervised Slide Representation Learning in Computational Pathology
Andrew H. Song, Richard J. Chen, Tong Ding +3
Representation learning of pathology whole-slide images (WSIs) has been has primarily relied on weak supervision with Multiple Instance Learning (MIL). However, the slide represent…
Transcriptomics-guided Slide Representation Learning in Computational Pathology
Guillaume Jaume, Lukas Oldenburg, Anurag Vaidya +5
Self-supervised learning (SSL) has been successful in building patch embeddings of small histology images (e.g., 224x224 pixels), but scaling these models to learn slide embeddings…
Artificial Intelligence for Digital and Computational Pathology
Andrew H. Song, Guillaume Jaume, Drew F. K. Williamson +4
Advances in digitizing tissue slides and the fast-paced progress in artificial intelligence, including deep learning, have boosted the field of computational pathology. This field…
A Foundational Multimodal Vision Language AI Assistant for Human Pathology
Ming Y. Lu, Bowen Chen, Drew F. K. Williamson +8
The field of computational pathology has witnessed remarkable progress in the development of both task-specific predictive models and task-agnostic self-supervised vision encoders.…
A General-Purpose Self-Supervised Model for Computational Pathology
Richard J. Chen, Tong Ding, Ming Y. Lu +17
Tissue phenotyping is a fundamental computational pathology (CPath) task in learning objective characterizations of histopathologic biomarkers in anatomic pathology. However, whole…
Weakly Supervised AI for Efficient Analysis of 3D Pathology Samples
Andrew H. Song, Mane Williams, Drew F. K. Williamson +8
Human tissue and its constituent cells form a microenvironment that is fundamentally three-dimensional (3D). However, the standard-of-care in pathologic diagnosis involves selectin…
Towards a Visual-Language Foundation Model for Computational Pathology
Ming Y. Lu, Bowen Chen, Drew F. K. Williamson +10
The accelerated adoption of digital pathology and advances in deep learning have enabled the development of powerful models for various pathology tasks across a diverse array of di…
Visual Language Pretrained Multiple Instance Zero-Shot Transfer for Histopathology Images
Ming Y. Lu, Bowen Chen, Andrew Zhang +6
Contrastive visual language pretraining has emerged as a powerful method for either training new language-aware image encoders or augmenting existing pretrained models with zero-sh…
Modeling Dense Multimodal Interactions Between Biological Pathways and Histology for Survival Prediction
Guillaume Jaume, Anurag Vaidya, Richard Chen +3
Integrating whole-slide images (WSIs) and bulk transcriptomics for predicting patient survival can improve our understanding of patient prognosis. However, this multimodal task is…
Incorporating intratumoral heterogeneity into weakly-supervised deep learning models via variance pooling
Iain Carmichael, Andrew H. Song, Richard J. Chen +3
Supervised learning tasks such as cancer survival prediction from gigapixel whole slide images (WSIs) are a critical challenge in computational pathology that requires modeling com…
Differentiable Zooming for Multiple Instance Learning on Whole-Slide Images
Kevin Thandiackal, Boqi Chen, Pushpak Pati +4
Multiple Instance Learning (MIL) methods have become increasingly popular for classifying giga-pixel sized Whole-Slide Images (WSIs) in digital pathology. Most MIL methods operate…
Algorithm Fairness in AI for Medicine and Healthcare
Richard J. Chen, Tiffany Y. Chen, Jana Lipkova +5
In the current development and deployment of many artificial intelligence (AI) systems in healthcare, algorithm fairness is a challenging problem in delivering equitable care. Rece…
Pan-Cancer Integrative Histology-Genomic Analysis via Interpretable Multimodal Deep Learning
Richard J. Chen, Ming Y. Lu, Drew F. K. Williamson +8
The rapidly emerging field of deep learning-based computational pathology has demonstrated promise in developing objective prognostic models from histology whole slide images. Howe…
Fast and Scalable Image Search For Histology
Chengkuan Chen, Ming Y. Lu, Drew F. K. Williamson +3
The expanding adoption of digital pathology has enabled the curation of large repositories of histology whole slide images (WSIs), which contain a wealth of information. Similar pa…
Whole Slide Images are 2D Point Clouds: Context-Aware Survival Prediction using Patch-based Graph Convolutional Networks
Richard J. Chen, Ming Y. Lu, Muhammad Shaban +4
Cancer prognostication is a challenging task in computational pathology that requires context-aware representations of histology features to adequately infer patient survival. Desp…
Deep Learning-based Frozen Section to FFPE Translation
Kutsev Bengisu Ozyoruk, Sermet Can, Guliz Irem Gokceler +12
Frozen sectioning (FS) is the preparation method of choice for microscopic evaluation of tissues during surgical operations. The high speed of the procedure allows pathologists to…
Federated Learning for Computational Pathology on Gigapixel Whole Slide Images
Ming Y. Lu, Dehan Kong, Jana Lipkova +5
Deep Learning-based computational pathology algorithms have demonstrated profound ability to excel in a wide array of tasks that range from characterization of well known morpholog…
Deep Learning-based Computational Pathology Predicts Origins for Cancers of Unknown Primary
Ming Y. Lu, Melissa Zhao, Maha Shady +4
Cancer of unknown primary (CUP) is an enigmatic group of diagnoses where the primary anatomical site of tumor origin cannot be determined. This poses a significant challenge since…