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AMRFinderPlus is used by NCBI's Pathogen Detection Project, which clusters and finds similar pathogen genomic sequences from food, environmental sources, and patients. AMRFinderPlus is run for each bacterial isolate in the Pathogen Detection Project, and the findings are provided for public use. Since its scientific publication in 2021, it has also gathered citations from other users.
Mathematical modelling of infectious diseases. Mathematical models can project how infectious diseases progress to show the likely outcome of an epidemic (including in plants) and help inform public health and plant health interventions. Models use basic assumptions or collected statistics along with mathematics to find parameters for various ...
Forecasting systems are based on assumptions about the pathogen's interactions with the host and environment, the disease triangle. [1] The objective is to accurately predict when the three factors – host, environment, and pathogen – all interact in such a fashion that disease can occur and cause economic losses.
Compartmental models in epidemiology. Compartmental models are a very general modelling technique. They are often applied to the mathematical modelling of infectious diseases. The population is assigned to compartments with labels – for example, S, I, or R, ( S usceptible, I nfectious, or R ecovered). People may progress between compartments.
List of COVID-19 simulation models. COVID-19 simulation models are mathematical infectious disease models for the spread of COVID-19. [1] The list should not be confused with COVID-19 apps used mainly for digital contact tracing . Note that some of the applications listed are website-only models or simulators, and some of those rely on (or use ...
PhytoPath was a bioinformatics resource launched in 2012, [1] which integrated genome scale data from important plant pathogenic species with literature-curated information about the phenotypes of host infection available from the Pathogen-Host Interaction database (PHI-base). It provides access to complete genome assembly and gene models from priority crop and model phytopathogenic species of ...
The vast majority of modern systems biology modeling software support SBML, which is the de facto standard for exchanging models of biological cellular processes. Some tools also support CellML, a standard used for representing physiological processes. The advantage of using standard formats is that even though a particular software application may eventually become unsupported and even ...
PLOS Pathogens is a peer-reviewed open-access medical journal. All content in PLOS Pathogens is published under the Creative Commons "by-attribution" license. PLOS Pathogens began operation in September 2005. It was the fifth journal of the Public Library of Science (PLOS), a non-profit open-access publisher.