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Antibiotic resistance is a growing public health problem. To gain a fundamental understanding of resistance evolution, a combination of systematic experimental and theoretical approaches is required. Evolution experiments combined with…

Populations and Evolution · Quantitative Biology 2021-05-24 Gabriela Petrungaro , Yuval Mulla , Tobias Bollenbach

Sepsis is a life-threatening condition which requires rapid diagnosis and treatment. Traditional microbiological methods are time-consuming and expensive. In response to these challenges, deep learning algorithms were developed to identify…

Tuberculosis (TB) is a top-10 cause of death worldwide. Though the WHO recommends chest radiographs (CXRs) for TB screening, the limited availability of CXR interpretation is a barrier. We trained a deep learning system (DLS) to detect…

The severe acute respiratory syndrome coronavirus 2 outbreak in Chinas Hubei area in late 2019 has now created a global pandemic that has spread to over 150 countries. In most people, COVID 19 is a respiratory infection that produces fever,…

Cell Behavior · Quantitative Biology 2022-11-08 Adrita Chanda , Adrija Aich , Arka Sanyal , Anantika Chandra , Saumyadeep Goswami

Acute Respiratory Distress Syndrome (ARDS) is a very severe syndrome leading to respiratory failure and subsequent mortality. Sepsis is one of the leading causes of ARDS. Thus, extracellular bacteria play an important role in the…

Tissues and Organs · Quantitative Biology 2013-11-19 Wan-Chung Hu

Respondent-driven sampling (RDS) is a widely used method for sampling from hard-to-reach human populations, especially groups most at-risk for HIV/AIDS. Data are collected through a peer-referral process in which current sample members…

Methodology · Statistics 2012-09-28 Krista J. Gile , Lisa G. Johnston , Matthew J. Salganik

I discuss the so-called SuperSpreader epidemic, for which SARS is the canonical examples (and, perhaps, MERS will be another). I use simulation by an agent-based model as well as the mathematics of multi-type branching-processes to…

Populations and Evolution · Quantitative Biology 2013-08-30 W. David Wick

Antimicrobial resistance is an emerging global health crisis that is undermining advances in modern medicine and, if unmitigated, threatens to kill 10 million people per year worldwide by 2050. Research over the last decade has demonstrated…

Quantitative Methods · Quantitative Biology 2020-09-24 K. Farquhar , H. Flohr , D. A. Charlebois

We define data analyses to monitor a change in R, the average number of secondary cases caused by a typical infected individual. The input dataset consists of incident cases partitioned into outbreaks, each initiated from a single index…

Populations and Evolution · Quantitative Biology 2016-04-27 Pavel Polyakov , Romulus Breban

Tuberculosis (TB) is an airborne disease caused by the bacterium Mycobacterium tuberculosis (M. tb). Prior to the COVID-19 pandemic, TB was the leading cause of death from an infectious agent globally. However, most people exposed to M. tb…

Quantitative Methods · Quantitative Biology 2026-03-02 James W. G. Doran , Christopher F. Rowlatt , Gibin G. Powathil , Ruth Bowness , Christian A. Yates

MRSA colonization is a critical public health concern. Decolonization protocols have been designed for the clearance of MRSA. Successful decolonization protocols reduce disease incidence; however, multiple protocols exist, comprising…

Tuberculosis (TB) is an airborne disease caused by the pathogen Mycobacterium tuberculosis. In 2023, according to the World Health Organization, it ''probably'' replaced COVID-19 as the leading cause of death from an infectious agent…

Populations and Evolution · Quantitative Biology 2026-04-29 James W. G. Doran , Cameron A. Smith , Christian A. Yates , Ruth Bowness

Spatially explicit models have been widely used in today's mathematical ecology and epidemiology to study persistence and extinction of populations as well as their spatial patterns. Here we extend the earlier work--static dispersal between…

Populations and Evolution · Quantitative Biology 2009-07-01 Quan-Xing Liu , Rong-Hua Wang , Zhen Jin

As machine-learning (ML) based systems for malware detection become more prevalent, it becomes necessary to quantify the benefits compared to the more traditional anti-virus (AV) systems widely used today. It is not practical to build an…

Cryptography and Security · Computer Science 2018-06-14 William Fleshman , Edward Raff , Richard Zak , Mark McLean , Charles Nicholas

Cholera remains a significant public health challenge globally, particularly affecting regions with inadequate water, sanitation, and hygiene infrastructures. This study presents a comprehensive mathematical model extending the classical…

Dynamical Systems · Mathematics 2025-05-15 Abdallah Alsammani , Gassan A. M. O. Farah , Mohammed A. Y. Mohammed , Mehmet Yavuz

Antimicrobial resistance is a silent pandemic that is being exacerbated by the uncontrolled use of antibiotics. Since the discovery of penicillin, we have been largely dependent on microbe-derived small molecules to treat bacterial…

Populations and Evolution · Quantitative Biology 2022-10-26 Hyunjin Shim

Responding rapidly to a patient who is demonstrating signs of imminent clinical deterioration is a basic tenet of patient care. This gave rise to a patient safety intervention philosophy known as a Rapid Response System (RRS), whereby a…

Machine Learning · Computer Science 2021-02-12 Laleh Jalali , Hsiu-Khuern Tang , Richard H. Goldstein , Joaqun Alvarez Rodrguez

Outlying observations can be challenging to handle and adversely affect subsequent analyses, especially in data with increasing dimensional complexity. Although outliers are not always undesired anomalies in the data and may possess…

Methodology · Statistics 2025-09-18 Anthony-Alexander Christidis , Gabriela Cohen-Freue

The rapid emergence of antibiotic-resistant bacteria is recognized as a global healthcare crisis, undermining the efficacy of life-saving antibiotics. This crisis is driven by the improper and overuse of antibiotics, which escalates…

Machine Learning · Computer Science 2024-06-03 Simon A. Lee , Trevor Brokowski , Jeffrey N. Chiang

Measles is an infectious disease caused by the Morbilivirus Measles Virus which has accompanied the human race since the 4th millennium BC, it is a disease usually concerning the paediatric population and in the past, before the advent of…

Populations and Evolution · Quantitative Biology 2020-04-07 A. Vivanco-Lira , R. Luna-Banenelli