Genomics for public health and international surveillance of antimicrobial resistance

KS Baker, E Jauneikaite, KL Hopkins, SW Lo… - The Lancet …, 2023 - thelancet.com
Historically, epidemiological investigation and surveillance for bacterial antimicrobial
resistance (AMR) has relied on low-resolution isolate-based phenotypic analyses …

Precision public health in the era of genomics and big data

MC Roberts, KE Holt, G Del Fiol, AA Baccarelli… - Nature Medicine, 2024 - nature.com
Precision public health (PPH) considers the interplay between genetics, lifestyle and the
environment to improve disease prevention, diagnosis and treatment on a population level …

[HTML][HTML] Real-time genomic surveillance for enhanced control of infectious diseases and antimicrobial resistance

MJ Struelens, C Ludden, G Werner, V Sintchenko… - Frontiers in …, 2024 - frontiersin.org
This article advocates for mobilizing pathogen genomic surveillance to contain and mitigate
health threats from infectious diseases and antimicrobial resistance (AMR), building upon …

The Coronavirus Standards Working Group's roadmap for improved population testing

T Mercer, N Almond, MA Crone, PSG Chain… - nature …, 2022 - nature.com
Standards are required to ensure that population-scale testing for infectious agents is
accurate and reliable. The COVID-19 pandemic has illustrated the importance of well …

Putting everything in its place: using the INSDC compliant Pathogen Data Object Model to better structure genomic data submitted for public health applications

RE Timme, I Karsch-Mizrachi, Z Waheed… - Microbial …, 2023 - microbiologyresearch.org
Fast, efficient public health actions require well-organized and coordinated systems that can
supply timely and accurate knowledge. Public databases of pathogen genomic data, such …

[PDF][PDF] A comprehensive, open-source data model for wastewater-based epidemiology

JD Therrien, M Thomson, ES Sion, I Lee… - Water Science & …, 2024 - iwaponline.com
The recent SARS-COV-2 pandemic has sparked the adoption of wastewater-based
epidemiology (WBE) as a low-cost way to monitor the health of populations. In parallel, the …

Coordinating virus research: the virus infectious disease ontology

J Beverley, S Babcock, G Carvalho, LG Cowell… - Plos one, 2024 - journals.plos.org
The COVID-19 pandemic prompted immense work on the investigation of the SARS-CoV-2
virus. Rapid, accurate, and consistent interpretation of generated data is thereby of …

SARS-CoV-2 wastewater variant surveillance: pandemic response leveraging FDA's GenomeTrakr network

RE Timme, J Woods, JL Jones, KR Calci, R Rodriguez… - Msystems, 2024 - journals.asm.org
Wastewater surveillance has emerged as a crucial public health tool for population-level
pathogen surveillance. Supported by funding from the American Rescue Plan Act of 2021 …

The DataHarmonizer: a tool for faster data harmonization, validation, aggregation and analysis of pathogen genomics contextual information

IS Gill, EJ Griffiths, D Dooley, R Cameron… - Microbial …, 2023 - microbiologyresearch.org
Pathogen genomics is a critical tool for public health surveillance, infection control, outbreak
investigations as well as research. In order to make use of pathogen genomics data, they …