Featured Publications
A look at the topology of convolutional neural networks
The problem of understanding how convolutional neural nets (CNN’s) work and learn is one of the fundamental problems in machine learning. It is important to study both the weights and the activations, as these roughly…
Publications
Model Artificial Intelligence Governance Framework Second Edition
In 2019, the world saw significant advances in the sophistication and pervasive use of artificial intelligence (“AI”). For instance, we witnessed the emergence of next-generation AI-powered natural text generators like…
Publications
Topological Scoring of Protein Interaction Networks
It remains a significant challenge to define individual protein associations within networks where an individual protein can directly interact with other proteins and/or be part of large complexes, which contain functional…
Publications
Network Tomography for Understanding Phenotypic Presentations in Aortic Stenosis
Aortic stenosis (AS) is the most common valvular lesion, with >1 in 8 individuals aged 75 years and older having moderate or severe AS. The disease starts as focal leaflet thickening with calcification and gradually…
Publications
Topological Approaches to Deep Learning
Deep neural networks are a powerful and fascinating methodology for solving problems with large and complex data sets. They use directed graphs as a template for very large computations, and have demonstrated a great…
Publications
Large-Scale Label-Free Quantitative Mapping of the Sputum Proteome
Sputum induction is a widely applied method of sampling the epithelial lining fluid that lines the lower airways constituting the tracheobronchial tree. It enables assessment of both the cellular and extracellular…
Publications
Insights into myalgic encephalomyelitis/chronic fatigue syndrome phenotypes through comprehensive metabolomics
The pathogenesis of ME/CFS, a disease characterized by fatigue, cognitive dysfunction, sleep disturbances, orthostatic intolerance, fever, irritable bowel syndrome (IBS), and lymphadenopathy, is poorly understood. We…
Publications
Longitudinal identification of clinically distinct neurophenotypes in young children with fragile X syndrome
Fragile X syndrome (FXS), due to mutations of the FMR1 gene, is the most common known inherited cause of developmental disability. The cognitive, behavioral, and neurological phenotypes observed in affected individuals…
Publications
Microbial Signatures Associated with Oropharyngeal and Oral Squamous Cell Carcinomas
The microbiome is fundamentally one of the most unique organs in the human body. Dysbiosis can result in critical inflammatory responses and result in pathogenesis contributing to neoplastic events. We used a pan-…
Publications
The ovarian cancer oncobiome
Humans and other mammals are colonized by microbial agents across the kingdom which can represent a unique microbiome pattern. Dysbiosis of the microbiome has been associated with pathology including cancer. We have…