ReviewGenome medicine2013
Genomics and outbreak investigation: from sequence to consequence.
Review in Genome medicine, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
45 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Interpreting whole genome sequencing for investigating tuberculosis transmission: a systematic review.BMC medicine · 2016Pooled it
- SARS-CoV-2 wastewater genomic surveillance: approaches, challenges, and opportunities.Genome biology · 2026Review
- Editorial: Sequencing technologies in advancing veterinary and zoonotic infection research.Frontiers in cellular and infection microbiology · 2026Article
- The applications and advantages of nanopore sequencing in bacterial antimicrobial resistance surveillance and research.npj antimicrobials and resistance · 2025Review
- Source-tracking Klebsiella outbreaks in premature infants using a novel amplicon fingerprinting method.Antimicrobial resistance and infection control · 2025Article
- Automated whole genome sequencing platform for bacterial strain typing in clinical microbiology laboratories.Journal of clinical microbiology · 2025Article
- Genomics and Bioinformatics in One Health: Transdisciplinary Approaches for Health Promotion and Disease Prevention.International journal of environmental research and public health · 2024Article
- PHA4GE quality control contextual data tags: standardized annotations for sharing public health sequence datasets with known quality issues to facilitate testing and training.Microbial genomics · 2024Article
- Enhancing Clinical Utility: Utilization of International Standards and Guidelines for Metagenomic Sequencing in Infectious Disease Diagnosis.International journal of molecular sciences · 2024Review
- Pulsed-Field Gel Electrophoresis Analysis of Bovine AssociatedPathogens (Basel, Switzerland) · 2023Review
- Whole-Genome Sequencing of Shiga Toxin-ProducingMicroorganisms · 2023Article
- Targeted Whole Genome Sequencing (TWG-Seq) of Cucumber Green Mottle Mosaic Virus Using Tiled Amplicon Multiplex PCR and Nanopore Sequencing.Plants (Basel, Switzerland) · 2022Article
- Exploiting genomics to mitigate the public health impact of antimicrobial resistance.Genome medicine · 2022Review
- A high-throughput multiplexing and selection strategy to complete bacterial genomes.GigaScience · 2021Article
- Resistance mechanisms and genetic relatedness among carbapenem-resistantJAC-antimicrobial resistance · 2021Article
- Potential role of viral metagenomics as a surveillance tool for the early detection of emerging novel pathogens.Archives of microbiology · 2021Review
- Evaluation of a Combined Multilocus Sequence Typing and Whole-Genome Sequencing Two-Step Algorithm for Routine Typing ofJournal of clinical microbiology · 2021Article
- Surveillance of hemorrhagic fever and/or neuroinvasive disease: challenges of diagnosis.Revista de saude publica · 2021Article
- Development and Application of a Fast Method to Acquire the Accurate Whole-Genome Sequences of Human Adenoviruses.Frontiers in microbiology · 2021Article
- Genetic grouping of SARS-CoV-2 coronavirus sequences using informative subtype markers for pandemic spread visualization.PLoS computational biology · 2020Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Outbreaks of infection can be devastating for individuals and societies. In this review, we examine the applications of new high-throughput sequencing approaches to the identification and characterization of outbreaks, focusing on the application of whole-genome sequencing (WGS) to outbreaks of bacterial infection. We describe traditional epidemiological analysis and show how WGS can be informative at multiple steps in outbreak investigation, as evidenced by many recent studies. We conclude that high-throughput sequencing approaches can make a significant contribution to the investigation of outbreaks of bacterial infection and that the integration of WGS with epidemiological investigation, diagnostic assays and antimicrobial susceptibility testing will precipitate radical changes in clinical microbiology and infectious disease epidemiology in the near future. However, several challenges remain before WGS can be routinely used in outbreak investigation and clinical practice.
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.