399 citations
Counting papers with at most 25 authors, so collaboration author lists do not stand in for the people here.
- Rice UniversityUS17 papers
- The University of Texas Health Science Center at HoustonUS17 papers
- The University of Texas at AustinUS13 papers
- Harvard UniversityUS12 papers
- Baylor College of MedicineUS10 papers
- The University of Texas Southwestern Medical CenterUS9 papers
- University of PennsylvaniaUS8 papers
- Massachusetts General HospitalUS7 papers
- Stanford UniversityUS7 papers
- Technical University of MunichDE7 papers
- University of Alabama at BirminghamUS7 papers
- University of North Carolina at Chapel HillUS7 papers
9 papers · 1 filter
Foundation Models in Biomedical Imaging: Turning Hype into Reality
Amgad Muneer, Kai Zhang, Ibraheem Hamdi +6
Foundation models (FMs) are driving a prominent shift in biomedical imaging from task-specific models to unified backbone models for diverse tasks. This opens an avenue to integrat…
The Next Layer: Augmenting Foundation Models with Structure-Preserving and Attention-Guided Learning for Local Patches to Global Context Awareness in Computational Pathology
Muhammad Waqas, Rukhmini Bandyopadhyay, Eman Showkatian +12
Foundation models have recently emerged as powerful feature extractors in computational pathology, yet they typically omit mechanisms for leveraging the global spatial structure of…
From Classical Machine Learning to Emerging Foundation Models: Review on Multimodal Data Integration for Cancer Research
Amgad Muneer, Muhammad Waqas, Maliazurina B Saad +16
Cancer research is increasingly driven by the integration of diverse data modalities, spanning from genomics and proteomics to imaging and clinical factors. However, extracting act…
Assessing Engraftment Following Fecal Microbiota Transplant
Chloe Herman, Bridget M. Barker, Thais F. Bartelli +9
Fecal Microbiota Transplant (FMT) is an FDA approved treatment for recurrent Clostridium difficile infections, and is being explored for other clinical applications, from alleviati…
GENEVIC: GENetic data Exploration and Visualization via Intelligent interactive Console
Anindita Nath, Savannah Mwesigwa, Yulin Dai +2
Summary: The vast generation of genetic data poses a significant challenge in efficiently uncovering valuable knowledge. Introducing GENEVIC, an AI-driven chat framework that tackl…
Hierarchical Phenotyping and Graph Modeling of Spatial Architecture in Lymphoid Neoplasms
Pingjun Chen, Muhammad Aminu, Siba El Hussein +2
The cells and their spatial patterns in the tumor microenvironment (TME) play a key role in tumor evolution, and yet the latter remains an understudied topic in computational patho…
aPCoA: Covariate Adjusted Principal Coordinates Analysis
Yushu Shi, Liangliang Zhang, Kim-Anh Do +2
In fields such as ecology, microbiology, and genomics, non-Euclidean distances are widely applied to describe pairwise dissimilarity between samples. Given these pairwise distances…
Dynamic Prediction of Competing Risk Events using Landmark Sub-distribution Hazard Model with Multiple Longitudinal Biomarker
Cai Wu, Liang Li, Ruosha Li
The cause-specific cumulative incidence function (CIF) quantifies the subject-specific disease risk with competing risk outcome. With longitudinally collected biomarker data, it is…
The limitations of model-based experimental design and parameter estimation in sloppy systems
Andrew White, Malachi Tolman, Howard D. Thames +3
We explore the relationship among model fidelity, experimental design, and parameter estimation in sloppy models. We show that the approximate nature of mathematical models poses c…