Detecting Pathogen Exposure During the Non-symptomatic Incubation Period Using Physiological Data: Proof of Concept in Non-human Primates.

Early warning of bacterial and viral infection, prior to the development of overt clinical symptoms, allows not only for improved patient care and outcomes but also enables faster implementation of public health measures (patient isolation and contact tracing). Our primary objectives in this effort are 3-fold. , we seek to determine the upper limits of early warning detection through physiological measurements.

Segmentation of Tau Stained Alzheimers Brain Tissue Using Convolutional Neural Networks.

Alzheimers disease is characterized by complex changes in brain tissue including the accumulation of tau-containing neurofibrillary tangles (NFTs) and dystrophic neurites (DNs) within neurons. The distribution and density of tau pathology throughout the brain is evaluated at autopsy as one component of Alzheimers disease diagnosis. Deep neural networks (DNN) have been shown to be effective in the quantification of tau pathology when trained on fully annotated images.

Automated four-dimensional long term imaging enables single cell tracking within organotypic brain slices to study neurodevelopment and degeneration.

Current approaches for dynamic profiling of single cells rely on dissociated cultures, which lack important biological features existing in tissues. Organotypic slice cultures preserve aspects of structural and synaptic organisation within the brain and are amenable to microscopy, but established techniques are not well adapted for high throughput or longitudinal single cell analysis. Here we developed a custom-built, automated confocal imaging platform, with improved organotypic slice culture and maintenance.

Colorization of H&E stained tissue using Deep Learning.

Histopathology is a critical tool in the diagnosis and stratification of cancer. Digital Pathology involves the scanning of stained and fixed tissue samples to produce highresolution images that can be used for computer-aided diagnosis and research. A common challenge in digital pathology related to the quality and characteristics of staining, which can vary widely from center to center and also within the same institution depending on the age of the stain and other human factors.

An Efficient Computational Framework for the Analysis of Whole Slide Images: Application to Follicular Lymphoma Immunohistochemistry.

Follicular Lymphoma (FL) is one of the most common non-Hodgkin Lymphoma in the United States. Diagnosis and grading of FL is based on the review of histopathological tissue sections under a microscope and is influenced by human factors such as fatigue and reader bias. Computer-aided image analysis tools can help improve the accuracy of diagnosis and grading and act as another tool at the pathologist's disposal.

Detection of follicles from IHC-stained slides of follicular lymphoma using iterative watershed.

Follicular lymphoma (FL) is one of the most common types of nonHodgkin lymphoma in the U.S. Diagnosis of FL is based on tissue biopsy that shows characteristic morphologic and immunohistochemical (IHC) findings.

Imaging mass spectrometry analysis for follicular lymphoma grading.

Follicular lymphoma (FL) is the second most common non-Hodgkins lymphoma in the United States. While the current diagnosis depends heavily on the review of H&E-stained tissues, additional sources of information such as IHC are occasionally needed. Matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS) can be used to generate protein profiles from localized tissue regions, thus making it possible to relate changes in tissue histology to the changes in the protein signature of the tissue.