no code implementations • 29 Jun 2019 • Richard J. Chen, Taylor L. Bobrow, Thomas Athey, Faisal Mahmood, Nicholas J. Durr
Medical endoscopy remains a challenging application for simultaneous localization and mapping (SLAM) due to the sparsity of image features and size constraints that prevent direct depth-sensing.
no code implementations • 23 Oct 2019 • Ming Y. Lu, Richard J. Chen, Jingwen Wang, Debora Dillon, Faisal Mahmood
Convolutional neural networks can be trained to perform histology slide classification using weak annotations with multiple instance learning (MIL).
no code implementations • 29 Oct 2019 • Jingwen Wang, Richard J. Chen, Ming Y. Lu, Alexander Baras, Faisal Mahmood
In prostate cancer, the Gleason score is a grading system used to measure the aggressiveness of prostate cancer from the spatial organization of cells and the distribution of glands.
1 code implementation • 18 Dec 2019 • Richard J. Chen, Ming Y. Lu, Jingwen Wang, Drew F. K. Williamson, Scott J. Rodig, Neal I. Lindeman, Faisal Mahmood
Cancer diagnosis, prognosis, and therapeutic response predictions are based on morphological information from histology slides and molecular profiles from genomic data.
3 code implementations • 13 Feb 2020 • Yasin Almalioglu, Kutsev Bengisu Ozyoruk, Abdulkadir Gokce, Kagan Incetan, Guliz Irem Gokceler, Muhammed Ali Simsek, Kivanc Ararat, Richard J. Chen, Nicholas J. Durr, Faisal Mahmood, Mehmet Turan
Although wireless capsule endoscopy is the preferred modality for diagnosis and assessment of small bowel diseases, the poor camera resolution is a substantial limitation for both subjective and automated diagnostics.
1 code implementation • 20 Apr 2020 • Ming Y. Lu, Drew F. K. Williamson, Tiffany Y. Chen, Richard J. Chen, Matteo Barbieri, Faisal Mahmood
CLAM is a general-purpose and adaptable method that can be used for a variety of different computational pathology tasks in both clinical and research settings.
2 code implementations • 29 Aug 2020 • Kagan Incetan, Ibrahim Omer Celik, Abdulhamid Obeid, Guliz Irem Gokceler, Kutsev Bengisu Ozyoruk, Yasin Almalioglu, Richard J. Chen, Faisal Mahmood, Hunter Gilbert, Nicholas J. Durr, Mehmet Turan
Current capsule endoscopes and next-generation robotic capsules for diagnosis and treatment of gastrointestinal diseases are complex cyber-physical platforms that must orchestrate complex software and hardware functions.
1 code implementation • 21 Sep 2020 • Ming Y. Lu, Dehan Kong, Jana Lipkova, Richard J. Chen, Rajendra Singh, Drew F. K. Williamson, Tiffany Y. Chen, Faisal Mahmood
In this paper, we introduce privacy-preserving federated learning for gigapixel whole slide images in computational pathology using weakly-supervised attention multiple instance learning and differential privacy.
1 code implementation • ICCV 2021 • Richard J. Chen, Ming Y. Lu, Wei-Hung Weng, Tiffany Y. Chen, Drew F.K. Williamson, Trevor Manz, Maha Shady, Faisal Mahmood
Survival outcome prediction is a challenging weakly-supervised and ordinal regression task in computational pathology that involves modeling complex interactions within the tumor microenvironment in gigapixel whole slide images (WSIs).
1 code implementation • 27 Jul 2021 • Richard J. Chen, Ming Y. Lu, Muhammad Shaban, Chengkuan Chen, Tiffany Y. Chen, Drew F. K. Williamson, Faisal Mahmood
Cancer prognostication is a challenging task in computational pathology that requires context-aware representations of histology features to adequately infer patient survival.
1 code implementation • 4 Aug 2021 • Richard J. Chen, Ming Y. Lu, Drew F. K. Williamson, Tiffany Y. Chen, Jana Lipkova, Muhammad Shaban, Maha Shady, Mane Williams, Bumjin Joo, Zahra Noor, Faisal Mahmood
To validate that these model explanations are prognostic, we further analyzed high attention morphological regions in WSIs, which indicates that tumor-infiltrating lymphocyte presence corroborates with favorable cancer prognosis on 9 out of 14 cancer types studied.
no code implementations • 1 Oct 2021 • Richard J. Chen, Tiffany Y. Chen, Jana Lipkova, Judy J. Wang, Drew F. K. Williamson, Ming Y. Lu, Sharifa Sahai, Faisal Mahmood
In the current development and deployment of many artificial intelligence (AI) systems in healthcare, algorithm fairness is a challenging problem in delivering equitable care.
1 code implementation • 1 Mar 2022 • Richard J. Chen, Rahul G. Krishnan
Tissue phenotyping is a fundamental task in learning objective characterizations of histopathologic biomarkers within the tumor-immune microenvironment in cancer pathology.
2 code implementations • CVPR 2022 • Richard J. Chen, Chengkuan Chen, Yicong Li, Tiffany Y. Chen, Andrew D. Trister, Rahul G. Krishnan, Faisal Mahmood
Vision Transformers (ViTs) and their multi-scale and hierarchical variations have been successful at capturing image representations but their use has been generally studied for low-resolution images (e. g. - 256x256, 384384).
1 code implementation • 17 Jun 2022 • Iain Carmichael, Andrew H. Song, Richard J. Chen, Drew F. K. Williamson, Tiffany Y. Chen, Faisal Mahmood
Supervised learning tasks such as cancer survival prediction from gigapixel whole slide images (WSIs) are a critical challenge in computational pathology that requires modeling complex features of the tumor microenvironment.
1 code implementation • CVPR 2023 • Ming Y. Lu, Bowen Chen, Andrew Zhang, Drew F. K. Williamson, Richard J. Chen, Tong Ding, Long Phi Le, Yung-Sung Chuang, Faisal Mahmood
In this paper we present MI-Zero, a simple and intuitive framework for unleashing the zero-shot transfer capabilities of contrastively aligned image and text models on gigapixel histopathology whole slide images, enabling multiple downstream diagnostic tasks to be carried out by pretrained encoders without requiring any additional labels.
no code implementations • 24 Jul 2023 • Ming Y. Lu, Bowen Chen, Drew F. K. Williamson, Richard J. Chen, Ivy Liang, Tong Ding, Guillaume Jaume, Igor Odintsov, Andrew Zhang, Long Phi Le, Georg Gerber, Anil V Parwani, Faisal Mahmood
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 diseases and patient cohorts.
no code implementations • 29 Aug 2023 • Richard J. Chen, Tong Ding, Ming Y. Lu, Drew F. K. Williamson, Guillaume Jaume, Bowen Chen, Andrew Zhang, Daniel Shao, Andrew H. Song, Muhammad Shaban, Mane Williams, Anurag Vaidya, Sharifa Sahai, Lukas Oldenburg, Luca L. Weishaupt, Judy J. Wang, Walt Williams, Long Phi Le, Georg Gerber, Faisal Mahmood
Tissue phenotyping is a fundamental computational pathology (CPath) task in learning objective characterizations of histopathologic biomarkers in anatomic pathology.
no code implementations • 13 Dec 2023 • Ming Y. Lu, Bowen Chen, Drew F. K. Williamson, Richard J. Chen, Kenji Ikamura, Georg Gerber, Ivy Liang, Long Phi Le, Tong Ding, Anil V Parwani, Faisal Mahmood
We compare PathChat against several multimodal vision language AI assistants as well as GPT4V, which powers the commercially available multimodal general purpose AI assistant ChatGPT-4.