ArticleNature communications2021
Rapid incidence estimation from SARS-CoV-2 genomes reveals decreased case detection in Europe during summer 2020.
Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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
21 citing papers in PubMed.
- Comparing methods to estimate time-varying reproduction numbers using genomic and epidemiological data.Infectious Disease Modelling · 2026Article
- Behavior change and infection induced immunity led to the decline of the 2022 Mpox outbreak in Berlin.Communications medicine · 2026Article
- Genomic Epidemiology for Estimating Pathogen Burden in a Population.Emerging infectious diseases · 2025Article
- A novel approach to forecasting reproduction numbers of spatiotemporal stochastic epidemic spread using a PDE-based model and real-time infection data.Scientific reports · 2025Article
- SARS-CoV-2 evolution on a dynamic immune landscape.Nature · 2025Article
- Concepts and Methods for Predicting Viral Evolution.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Concepts and methods for predicting viral evolution.bioRxiv : the preprint server for biology · 2024Article
- Article
- Evolution of Sequence and Structure of SARS-CoV-2 Spike Protein: A Dynamic Perspective.ACS omega · 2023Review
- Resurgence of Omicron BA.2 in SARS-CoV-2 infection-naive Hong Kong.Nature communications · 2023Article
- When might host heterogeneity drive the evolution of asymptomatic, pandemic coronaviruses?Nonlinear dynamics · 2023Article
- Sequence diversity of hepatitis D virus in Mongolia.Frontiers in medicine · 2023Article
- Phylogenetic and phylodynamic approaches to understanding and combating the early SARS-CoV-2 pandemic.Nature reviews. Genetics · 2022Review
- Advancing Precision Vaccinology by Molecular and Genomic Surveillance of Severe Acute Respiratory Syndrome Coronavirus 2 in Germany, 2021.Clinical infectious diseases : an official publication of the Infectious Diseases Society of America · 2022Article
- Women in the European Virus Bioinformatics Center.Viruses · 2022Article
- Article
- Tracking the molecular evolution and transmission patterns of SARS-CoV-2 lineage B.1.466.2 in Indonesia based on genomic surveillance data.Virology journal · 2022Article
- Deciphering early-warning signals of SARS-CoV-2 elimination and resurgence from limited data at multiple scales.Journal of the Royal Society, Interface · 2021Article
- Rapid incidence estimation from SARS-CoV-2 genomes reveals decreased case detection in Europe during summer 2020.Nature communications · 2021Article
- [SARS-CoV-2 transmission routes and implications for self- and non-self-protection].Bundesgesundheitsblatt, Gesundheitsforschung, Gesundheitsschutz · 2021Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
Abstract
By October 2021, 230 million SARS-CoV-2 diagnoses have been reported. Yet, a considerable proportion of cases remains undetected. Here, we propose GInPipe, a method that rapidly reconstructs SARS-CoV-2 incidence profiles solely from publicly available, time-stamped viral genomes. We validate GInPipe against simulated outbreaks and elaborate phylodynamic analyses. Using available sequence data, we reconstruct incidence histories for Denmark, Scotland, Switzerland, and Victoria (Australia) and demonstrate, how to use the method to investigate the effects of changing testing policies on case ascertainment. Specifically, we find that under-reporting was highest during summer 2020 in Europe, coinciding with more liberal testing policies at times of low testing capacities. Due to the increased use of real-time sequencing, it is envisaged that GInPipe can complement established surveillance tools to monitor the SARS-CoV-2 pandemic. In post-pandemic times, when diagnostic efforts are decreasing, GInPipe may facilitate the detection of hidden infection dynamics.
Indexed as
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.