A5034812020- Pancreatic function and diabetes
- Single-cell and spatial transcriptomics
- Diabetes and associated disorders
- Pancreatic and Hepatic Oncology Research
- Biosensors and Analytical Detection
- Gene expression and cancer classification
- Cell Image Analysis Techniques
- Diabetes Management and Research
- Microfluidic and Capillary Electrophoresis Applications
- AI in cancer detection
- Gene Regulatory Network Analysis
- Genetic Syndromes and Imprinting
- Genetic Associations and Epidemiology
- CRISPR and Genetic Engineering
Vanderbilt University Medical Center
2021-2024
Recent studies show that cellular neighborhoods play an important role in evolving biological events such as cancer and diabetes. Therefore, it is critical to accurately efficiently identify from spatially-resolved single-cell transcriptomic data or resolution tissue imaging data. In this work, we develop CNTools, a computational toolbox for end-to-end neighborhood analysis on annotated cell images, comprising both the identification steps. It includes state-of-the-art methods...
ABSTRACT Human endocrine cell differentiation and islet morphogenesis play critical roles in determining mass function, but the events timeline of these processes are incompletely defined. To better understand early human development maturation, we collected 115 pediatric pancreata mapped morphological spatiotemporal changes from birth through first ten years life. Using quantitative analyses a combination complementary tissue imaging approaches, including confocal microscopy whole-slide...
SUMMARY A hallmark of type 2 diabetes (T2D), a major cause world-wide morbidity and mortality, is dysfunction insulin-producing pancreatic islet β cells 1–3 . T2D genome-wide association studies (GWAS) have identified hundreds signals, mostly in the non-coding genome overlapping cell regulatory elements, but translating these into biological mechanisms has been challenging 4–6 To identify early disease-driving events, we performed single spatial proteomics, sorted transcriptomics, assessed...
Phenotyping and genotyping initiatives within the Integrated Islet Distribution Program (IIDP), largest source of human islets for research in U.S., provide standardized assessment islet preparations distributed to researchers, enabling integration multiple data types. Data from first 299 organ donors without diabetes, analyzed using this pipeline, highlights substantial heterogeneity cell composition associated with hormone secretory traits, sex, reported race ethnicity, genetically...
Abstract Single-cell multi-omics technologies capture complementary molecular layers, enabling a comprehensive view of cellular states and functions. However, integrating these data types poses significant challenges when their features are weakly linked cell population sizes imbalanced. Currently, no method efficiently addresses two issues simultaneously. Therefore, we developed CelLink, novel single-cell integration designed to overcome challenges. CelLink normalizes smooths feature...
Abstract Recent studies show that cellular neighborhoods play an important role in evolving biological events such as cancer and diabetes. Therefore, it is critical to accurately efficiently identify from spatially-resolved single-cell transcriptomic data or resolution tissue imaging data. In this work, we develop CNTools, a computational toolbox for end-to-end neighborhood analysis on annotated cell images, comprising both the identification steps. It includes state-of-the-art methods...