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"McCormick, Colin"
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Technology innovation: advancing capacities for the early detection of and rapid response to invasive species
by
Martinez, Barbara
,
Reaser, Jamie K
,
Giordano, Anthony J
in
Biotechnology
,
Federal government
,
Government agencies
2020
The 2016–2018National Invasive Species Council (NISC) Management Plan and Executive Order 13751 call for US federal agencies to foster technology development and application to address invasive species and their impacts. This paper complements and draws on an Innovation Summit, review of advanced biotechnologies applicable to invasive species management, and a survey of federal agencies that respond to these high-level directives. We provide an assessment of federal government capacities for the early detection of and rapid response to invasive species (EDRR) through advances in technology application; examples of emerging technologies for the detection, identification, reporting, and response to invasive species; and guidance for fostering further advancements in applicable technologies. Throughout the paper, we provide examples of how federal agencies are applying technologies to improve programmatic effectiveness and cost-efficiencies. We also highlight the outstanding technology-related needs identified by federal agencies to overcome barriers to enacting EDRR. Examples include improvements in research facility infrastructure, data mobilization across a wide range of invasive species parameters (from genetic to landscape scales), promotion of and support for filling key gaps in technological capacity (e.g., portable, field-ready devices with automated capacities), and greater investments in technology prizes and challenge competitions.
Journal Article
Artificial intelligence correctly classifies developmental stages of monarch caterpillars enabling better conservation through the use of community science photographs
2024
Rapid technological advances and growing participation from amateur naturalists have made countless images of insects in their natural habitats available on global web portals. Despite advances in automated species identification, traits like developmental stage or health remain underexplored or manually annotated, with limited focus on automating these features. As a proof-of-concept, we developed a computer vision model utilizing the YOLOv5 algorithm to accurately detect monarch butterfly caterpillars in photographs and classify them into their five developmental stages (instars). The training data were obtained from the iNaturalist portal, and the photographs were first classified and annotated by experts to allow supervised training of models. Our best trained model demonstrates excellent performance on object detection, achieving a mean average precision score of 95% across all five instars. In terms of classification, the YOLOv5l version yielded the best performance, reaching 87% instar classification accuracy for all classes in the test set. Our approach and model show promise in developing detection and classification models for developmental stages for insects, a resource that can be used for large-scale mechanistic studies. These photos hold valuable untapped information, and we’ve released our annotated collection as an open dataset to support replication and expansion of our methods.
Journal Article
Estimating Carbon Dioxide Emissions from Power Plant Water Vapor Plumes Using Satellite Imagery and Machine Learning
by
Couture, Heather D.
,
Rouzbeh Kargar, Ali
,
Lewis, Christy
in
Air quality management
,
Artificial satellites in remote sensing
,
Australia
2024
Combustion power plants emit carbon dioxide (CO2), which is a major contributor to climate change. Direct emissions measurement is cost-prohibitive globally, while reporting varies in detail, latency, and granularity. To fill this gap and greatly increase the number of power plants worldwide with independent emissions monitoring, we developed and applied machine learning (ML) models using power plant water vapor plumes as proxy signals to estimate electric power generation and CO2 emissions using Landsat 8, Sentinel-2, and PlanetScope imagery. Our ML models estimated power plant activity on each image snapshot, then an aggregation model predicted plant utilization over a 30-day period. Lastly, emission factors specific to region, fuel, and plant technology were used to convert the estimated electricity generation into CO2 emissions. Models were trained with reported hourly electricity generation data in the US, Europe, and Australia and were validated with additional generation and emissions data from the US, Europe, Australia, Türkiye, and India. All results with sufficiently large sample sizes indicate that our models outperformed the baseline approaches. In validating our model results against available generation and emissions reported data, we calculated the root mean square error as 1.75 TWh (236 plants across 17 countries over 4 years) and 2.18 Mt CO2 (207 plants across 17 countries over 4 years), respectively. Ultimately, we applied our ML method to plants that constitute 32% of global power plant CO2 emissions, as estimated by Climate TRACE, averaged over the period 2015–2022. This dataset is the most comprehensive independent and free-of-cost global power plant point-source emissions monitoring system currently known to the authors and is made freely available to the public to support global emissions reduction.
Journal Article
381 Host-bacterial immune responses to ventilator-associated pneumonia in COVID-19 patients
2025
Objectives/Goals: Ventilator-associated pneumonia (VAP) is an infection caused by bacteria, viruses, or fungi during mechanical ventilation. We analyzed a cohort of COVID-19 patients admitted to the intensive care unit with respiratory failure with different VAP outcomes. We hypothesize that the multiomics data can help predict VAP development within this cohort. Methods/Study Population: We recruited participants from a cohort on a NYU IRB protocol (i22–00616), who had COVID19 respiratory failure, admitted to ICU, and required invasive mechanical ventilation (n = 245). We collected and analyzed research specimens (bronchoalveolar lavage [BAL, n = 213], tracheal aspirates [n = 246], background [n = 18]) and clinical cultures (sputum and BAL) for 245 participants. A panel of experts adjudicated VAP within the cohort, resulting in 92 VAP diagnoses. We annotated metatranscriptome (Illumina NovaSeq) using a Kraken/Bracken database, and KEGG for functional annotation of transcriptome data (Illumina HiSeq). We used edgeR (v.4.0.16) to analyze differential expression of metatranscriptome and transcriptome data. Results/Anticipated Results: We diagnosed VAP in n = 92 (38%) participants. We found significant differences in days of overall hospital stay (p Discussion/Significance of Impact: VAP is a serious complication of mechanical ventilation, and oral commensals alter the lung microbiome and host immunity. We identified a transcriptome-metatranscriptome signature that identifies those at VAP risk. VAP was associate with both pro- and anti-inflammatory gene expression resulting in increased risk for lower airway infection.
Journal Article