A5037702807- Single-cell and spatial transcriptomics
- Cell Image Analysis Techniques
- Mosquito-borne diseases and control
- Advanced Fluorescence Microscopy Techniques
- Vector-borne infectious diseases
- Viral Infections and Vectors
- Immunotherapy and Immune Responses
- Cancer Immunotherapy and Biomarkers
- Catalysis for Biomass Conversion
- Diabetes and associated disorders
- Immune Cell Function and Interaction
- Biofuel production and bioconversion
- Biodiesel Production and Applications
- Gene expression and cancer classification
- Immune Response and Inflammation
- Immune responses and vaccinations
Massachusetts General Hospital
2020-2023
Harvard University
2021
Cornell University
2021
Weill Cornell Medicine
2021
Tri-Institutional PhD Program in Chemical Biology
2021
Idaho National Laboratory
2011
Highly multiplexed tissue imaging makes detailed molecular analysis of single cells possible in a preserved spatial context. However, reproducible large multichannel images poses substantial computational challenge. Here, we describe modular and open-source pipeline, MCMICRO, for performing the sequential steps needed to transform whole-slide into single-cell data. We demonstrate use MCMICRO on tumor acquired using multiple platforms, thereby providing solid foundation continued development software.
ABSTRACT Highly multiplexed tissue imaging makes molecular analysis of single cells possible in a preserved spatial context. However, reproducible the underlying data poses substantial computational challenge. Here we describe modular and open-source pipeline (MCMICRO) for performing sequential steps needed to transform large, multi-channel whole slide images into single-cell data. We demonstrate use MCMICRO on different tissues tumors acquired using multiple platforms, thereby providing...
Abstract Q-fever is a flu-like illness caused by Coxiella burnetii ( Cb ), highly infectious intracellular bacterium. There an unmet need for safe and effective vaccine Q-fever. Correlates of immune protection to infection are limited. We proposed that analysis longitudinal high dimensional (HDI) profiling using mass cytometry combined with other measures vaccination could be used identify novel correlates control infection. Using vaccine-challenge model in HLA-DR transgenic mice, we...
Lung cancer is the leading cause of cancer-related deaths worldwide. Surgery and chemoradiation are standard care in early stages non-small cell lung (NSCLC), while immunotherapy late-stage NSCLC. The immune composition tumor microenvironment (TME) recognized as an indicator for responsiveness to immunotherapy, although much remains unknown about its role surgery or chemoradiation. In this pilot study, we characterized NSCLC TME using mass cytometry (CyTOF) bulk RNA sequencing (RNA-Seq) with...
ABSTRACT High-parameter tissue imaging enables detailed molecular analysis of single cells in their spatial environment. However, the comprehensive characterization and mapping states through multimodal across different physiological pathological conditions requires data integration multiple systems. Here, we introduce MIAAIM (Multi-omics Image Alignment Analysis by Information Manifolds) a modular, reproducible computational framework for aligning bioimaging technologies, modeling...
Major injury results in an early cascade of immunologic responses that increase susceptibility to infection and multiorgan dysfunction. Detailed immune profiling by mass cytometry has the potential identify signatures correspond patient outcomes. Our objective was determine prognostic value after major trauma injury.Trauma patients (n = 17) were prospectively enrolled between September 2018 December 2019. Serial whole blood samples obtained from (mean Injury Severity Score, 26.2; standard...
Q fever, caused by the intracellular bacterium Coxiella burnetii, is considered an occupational and biodefense hazard can result in debilitating long-term complications. While natural infection vaccination induce humoral cellular immune responses, exact nature of responses to C. burnetii incompletely understood. The current study seeks investigate more deeply recall naturally exposed individuals both cytokine release assessment cytometry profiling.Individuals during 2007-2010 Dutch fever...