☆ 4.8 Article

Viral variant-resolved wastewater surveillance of SARS-CoV-2 at national scale

NATURE BIOTECHNOLOGY (2022)

Related references

Note: Only part of the references are listed.

Article Public, Environmental & Occupational Health

Inferring SARS-CoV-2 RNA shedding into wastewater relative to the time of infection

Sean Cavany et al.

Summary: A study suggests that RNA shedding of SARS-CoV-2 into wastewater peaks around 6 days after infection, and wastewater surveillance has limited utility in predicting transmission trends. It may be most useful as an early warning in areas with low transmission or delayed/limited clinical testing.

EPIDEMIOLOGY AND INFECTION (2022)

Add to Collection

Article Engineering, Environmental

Understanding and managing uncertainty and variability for wastewater monitoring beyond the pandemic: Lessons learned from the United Kingdom national COVID-19 surveillance programmes

Matthew J. Wade et al.

Summary: The COVID-19 pandemic has led to unprecedented pressure on global public health resources, prompting the development of National wastewater surveillance programmes in the UK to monitor the SARS-CoV-2 virus. This work highlights the unique importance of wastewater-based epidemiology (WBE) for public health protection, with potential value beyond COVID-19 for monitoring a range of health markers.

JOURNAL OF HAZARDOUS MATERIALS (2022)

Add to Collection

Article Virology

Relative instantaneous reproduction number of Omicron SARS-CoV-2 variant with respect to the Delta variant in Denmark

Kimihito Ito et al.

Summary: The Omicron variant of SARS-CoV-2 has spread rapidly across the globe, with 758 confirmed cases in Denmark. Based on Danish data, the effective reproduction number of Omicron is estimated to be 3.19 times higher than that of the Delta variant. It is expected that by December 28, 2021, over 95% of SARS-CoV-2 infections in Denmark will be caused by the Omicron variant.

JOURNAL OF MEDICAL VIROLOGY (2022)

Add to Collection

Article Environmental Sciences

Wastewater surveillance of SARS-CoV-2 in Austria: development, implementation, and operation of the Tyrolean wastewater monitoring program

Beatrice Daleiden et al.

Summary: Wastewater-based epidemiology (WBE) is an effective method for tracking the spatial distribution and temporal trends of SARS-CoV-2 at the community level. The wastewater monitoring program in Tyrol, Austria has provided valuable insights into the pandemic situation and fulfilled important tasks.

JOURNAL OF WATER AND HEALTH (2022)

Add to Collection

Article Environmental Sciences

Detection and abundance of SARS-CoV-2 in wastewater in Liechtenstein, and the estimation of prevalence and impact of the B.1.1.7 variant

R. Markt et al.

Summary: Utilizing wastewater samples, this study found a correlation between viral load in wastewater and the incidence of COVID-19 cases, and suggested that the emergence of new virus variants may alter the wastewater signal, which should be taken into consideration in future models.

JOURNAL OF WATER AND HEALTH (2022)

Add to Collection

Article Infectious Diseases

Generation time of the alpha and delta SARS-CoV-2 variants: an epidemiological analysis

William S. Hart et al.

Summary: The study found that the Delta variant transmits more quickly within households compared to the Alpha variant, likely due to rapid depletion of susceptible individuals and a possible decrease in the generation time.

LANCET INFECTIOUS DISEASES (2022)

Add to Collection

Article Biochemistry & Molecular Biology

High diversity in Delta variant across countries revealed by genome-wide analysis of SARS-CoV-2 beyond the Spike protein

Rohit Suratekar et al.

Summary: The highly contagious Delta variant of SARS-CoV-2 has become a prevalent strain globally. This study provides a systematic analysis of mutations in all the SARS-CoV-2 proteins and identifies six highly prevalent missense mutations in the Delta variant's viral life cycle-associated proteins. The study also reveals that the Delta variant has a more diverse repertoire of mutations across countries compared to the previously dominant Alpha variant.

MOLECULAR SYSTEMS BIOLOGY (2022)

Add to Collection

News Item Microbiology

SARS-CoV-2 genomics as a springboard for future disease mitigation in LMICs

Sophie Belman et al.

Summary: The SARS-CoV-2 pandemic has emphasized the importance of real-time genomic epidemiology for public health responses in low-and-middle-income countries.

NATURE REVIEWS MICROBIOLOGY (2022)

Add to Collection

Editorial Material Multidisciplinary Sciences

Wastewater analysis can be a powerful public health tool-if it's done sensibly

Hannah R. Safford et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2022)

Add to Collection

Article Environmental Sciences

Monitoring SARS-CoV-2 in sewage: Toward sentinels with analytical accuracy

David Calderon-Franco et al.

Summary: This study focused on analyzing the variability of viral RNA isolation methods from sewage. By testing different filtration volumes, concentration strategies, RNA isolation methods, and RT-qPCR strategies, the study found that specific filtration volumes and isolation methods can help avoid false negatives and provide more consistent results in wastewater surveillance.

SCIENCE OF THE TOTAL ENVIRONMENT (2022)

Add to Collection

Review Environmental Sciences

A State-of-the-Art Scoping Review on SARS-CoV-2 in Sewage Focusing on the Potential of Wastewater Surveillance for the Monitoring of the COVID-19 Pandemic

G. Bonanno Ferraro et al.

Summary: Research on SARS-CoV-2 in sewage can provide early warning for COVID-19 outbreaks, establish outbreak trends, estimate infection rates, and study genetic diversity of the virus. Wastewater surveillance proves to be a cost-effective, rapid, and reliable tool to inform public health decision-making during the ongoing pandemic.

FOOD AND ENVIRONMENTAL VIROLOGY (2022)

Add to Collection

Article Multidisciplinary Sciences

Tracking cryptic SARS-CoV-2 lineages detected in NYC wastewater

Davida S. Smyth et al.

Summary: Tracking the genetic diversity of SARS-CoV-2 is important to monitor the emergence of novel variants resistant to immunity. The researchers detected increasing frequencies of novel cryptic SARS-CoV-2 lineages in the New York City wastewater, containing mutations rarely observed in clinical samples. These lineages share mutations with the Omicron variant and have expanded tropism and resistance to neutralizing antibodies.

NATURE COMMUNICATIONS (2022)

Add to Collection

Article Multidisciplinary Sciences

Impacts of rapid mass vaccination against SARS-CoV2 in an early variant of concern hotspot

Joerg Paetzold et al.

Summary: A mass vaccination campaign in Schwaz, Austria, resulted in reduced infections and hospitalisations. The study suggests that rapid mass vaccination is an effective tool to curb the spread of SARS-CoV-2.

NATURE COMMUNICATIONS (2022)

Add to Collection

Article Multidisciplinary Sciences

Detecting SARS-CoV-2 lineages and mutational load in municipal wastewater and a use-case in the metropolitan area of Thessaloniki, Greece

Nikolaos Pechlivanis et al.

Summary: The study introduces a method called lineagespot for monitoring mutations and detecting SARS-CoV-2 lineages in wastewater samples using NGS. Testing in 14 wastewater samples from Thessaloniki, Greece revealed the presence of virus variants, with lineagespot tracking the evolution and dominance of the Alpha variant.

SCIENTIFIC REPORTS (2022)

Add to Collection

Article Biology

Inference of the SARS-CoV-2 generation time using UK household data

William S. Hart et al.

Summary: This study provides updated estimates of the generation time for SARS-CoV-2 infection using data from a household study conducted in the UK from March to November 2020. The findings suggest that the transmission risk and symptom development are linked, and the generation time varies during different stages of the pandemic.

ELIFE (2022)

Add to Collection

Editorial Material Environmental Sciences

Invited Perspective: Implementation of Wastewater-Based Surveillance Requires Collaboration, Integration, and Community Engagement

Katrina Smith Korfmacher et al.

ENVIRONMENTAL HEALTH PERSPECTIVES (2022)

Add to Collection

Article Engineering, Environmental

Emergence of SARS-CoV-2 Alpha lineage and its correlation with quantitative wastewater-based epidemiology data

Elena Radu et al.

Summary: This study utilized wastewater surveillance to detect the presence of the alpha variant of SARS-CoV-2 in samples from Vienna, Austria, prior to the official confirmation of clinical cases. The results support the use of wastewater monitoring as an effective tool for early detection of circulating SARS-CoV-2 lineages based on whole genome sequencing and signature mutations analysis.

WATER RESEARCH (2022)

Add to Collection

Article Environmental Sciences

SARS-CoV-2 has been circulating in northern Italy since December 2019: Evidence from environmental monitoring

Giuseppina La Rosa et al.

Summary: Italy had SARS-CoV-2 circulating as early as the end of 2019, with the virus spreading in different geographic regions simultaneously. The study emphasizes the importance of environmental surveillance as an early warning system to monitor virus levels and identify outbreaks before they are officially reported to the healthcare system.

SCIENCE OF THE TOTAL ENVIRONMENT (2021)

Add to Collection

Article Microbiology

Genome Sequencing of Sewage Detects Regionally Prevalent SARS-CoV-2 Variants

Alexander Crits-Christoph et al.

Summary: Viral genome sequencing, including from wastewater, provides valuable insights into the spread and genetic diversity of SARS-CoV-2 during the COVID-19 pandemic. By analyzing sewage samples, researchers can track specific viral strains and potential introductions of new lineages before they are identified through clinical sequencing.

MBIO (2021)

Add to Collection

Review Microbiology

The variant gambit: COVID-19's next move

Jessica A. Plante et al.

Summary: Despite the development of vaccines, COVID-19 caused by SARS-CoV-2 continues to be a global concern due to the emergence of new variants, raising worries about increased spread and potential impacts on immunity.

CELL HOST & MICROBE (2021)

Add to Collection

Article Multidisciplinary Sciences

Impact of circulating SARS-CoV-2 variants on mRNA vaccine-induced immunity

Carolina Lucas et al.

Summary: This study found that individuals previously infected with the virus had higher antibody titres post-vaccination compared to those who were uninfected, but both groups reached comparable levels of neutralization responses to the ancestral strain after the second vaccine dose. Comprehensive analysis of 16 locally circulating SARS-CoV-2 variants revealed varying degrees of reduction in neutralization capacity associated with specific mutations in the spike gene, suggesting vaccine boosters as a relevant future strategy to counteract the impact of emerging variants on antibody neutralizing activity.

NATURE (2021)

Add to Collection

Article Infectious Diseases

Genomic sequencing effort for SARS-CoV-2 by country during the pandemic

Yuki Furuse

Summary: Efforts have been made worldwide to sequence the viral genome of SARS-CoV-2, with varying levels of success in terms of fraction, timeliness, and openness. Some low- and middle-income countries have shown good performance in sequencing, and strengthening global sequencing capacity would be crucial in fighting current and future viral outbreaks.

INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES (2021)

Add to Collection

Article Infectious Diseases

Genomic-informed pathogen surveillance in Africa: opportunities and challenges

Seth C. Inzaule et al.

Summary: The article highlights the importance of enhancing disease surveillance and management in Africa, discusses the opportunities and challenges of integrating pathogen genomics into public health surveillance systems, and provides recommendations such as establishing networks, training experts, and developing policies.

LANCET INFECTIOUS DISEASES (2021)

Add to Collection

Article Environmental Sciences

Detection of SARS-CoV-2 variants by genomic analysis of wastewater samples in Israel

Itay Bar-Or et al.

Summary: Monitoring SARS-CoV-2 variants in wastewater can accurately detect the prevalence of viral strains and assist in monitoring the diversity of circulating strains in the community, as well as pre-identify the emergence of relevant mutations or variants.

SCIENCE OF THE TOTAL ENVIRONMENT (2021)

Add to Collection

Article Multidisciplinary Sciences

Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England

Nicholas G. Davies et al.

Summary: A new variant of SARS-CoV-2 has emerged in England, with a higher reproduction number and potential for large resurgences of COVID-19 cases. Without stringent control measures, it is projected that COVID-19 hospitalizations and deaths in England for the first 6 months of 2021 will exceed those in 2020. The variant has spread globally and exhibited similar transmission increases in Denmark, Switzerland, and the United States.

SCIENCE (2021)

Add to Collection

Article Engineering, Environmental

Wastewater-based epidemiology as a useful tool to track SARS-CoV-2 and support public health policies at municipal level in Brazil

Tatiana Prado et al.

Summary: The study monitored SARS-CoV-2 RNA in wastewater in Niteroi city, Brazil, finding a positive rate ranging from 42% to 100% throughout the study period, with high viral concentrations.

WATER RESEARCH (2021)

Add to Collection

Article Multidisciplinary Sciences

Long-term monitoring of SARS-CoV-2 RNA in wastewater of the Frankfurt metropolitan area in Southern Germany

Shelesh Agrawal et al.

Summary: Wastewater-based epidemiology is an effective method to monitor the scale and dynamics of infections in a city, with the SARS-CoV-2 RNA concentration in raw sewage in the Frankfurt metropolitan area showing a resurgence in August. This suggests a continuous increase in COVID-19 cases in Frankfurt.

SCIENTIFIC REPORTS (2021)

Add to Collection

Article Engineering, Environmental

High-throughput sequencing of SARS-CoV-2 in wastewater provides insights into circulating variants

Rafaela S. Fontenele et al.

Summary: The study analyzed 91 wastewater samples from 11 states in the USA, detecting a large number of new single-nucleotide variants of SARS-CoV-2, with half of them also being found in subsequent clinical data. The presence of more lineages in wastewater samples suggests a greater genetic diversity circulating within communities compared to clinical-derived data.

WATER RESEARCH (2021)

Add to Collection

Article Microbiology

High-Throughput Wastewater SARS-CoV-2 Detection Enables Forecasting of Community Infection Dynamics in San Diego County

Smruthi Karthikeyan et al.

Summary: Large-scale wastewater surveillance with high-throughput automated viral concentration method can greatly enhance tracking of infection dynamics, accurately predict new reported cases in advance, and provide rapid estimates for comprehensive community prevalence assessments.

MSYSTEMS (2021)

Add to Collection

Review Environmental Sciences

Wastewater-Based Epidemiology for Cost-Effective Mass Surveillance of COVID-19 in Low- and Middle-Income Countries: Challenges and Opportunities

Sadhana Shrestha et al.

Summary: Wastewater-based epidemiology (WBE) is a cost-effective and non-invasive method to estimate COVID-19 prevalence by detecting SARS-CoV-2 RNA in wastewater, with huge potential in low- and middle-income countries facing testing challenges. The population size contributing to fecal input in wastewater, quality of wastewater management systems, and sanitation infrastructure are crucial factors for implementing the WBE approach in LMICs. Coordination among stakeholders and international efforts are necessary to strengthen sanitation infrastructures and be prepared for future pandemics.

WATER (2021)

Add to Collection

Article Microbiology

Strategy and Performance Evaluation of Low-Frequency Variant Calling for SARS-CoV-2 Using Targeted Deep Illumina Sequencing

Laura A. E. Van Poelvoorde et al.

Summary: The ongoing COVID-19 pandemic, caused by SARS-CoV-2, highlights the importance of continuous monitoring of the virus to inform decision-making on public health measures. Emerging variants have increased the need for genomic surveillance to detect specific strains. Current surveillance methods mainly focus on the consensus genome sequence, potentially overlooking the presence of co-infections or quasispecies in diagnostic samples.

FRONTIERS IN MICROBIOLOGY (2021)

Add to Collection

Article Biochemistry & Molecular Biology

Emergence and rapid transmission of SARS-CoV-2 B.1.1.7 in the United States

Nicole L. Washington et al.

Summary: The highly transmissible B.1.1.7 variant of SARS-CoV-2, first identified in the United Kingdom, has been spreading in the United States with multiple introductions as early as late November 2020. The variant shows a logistic growth rate with roughly weekly doubling and increased transmission, requiring immediate action to minimize COVID-19 morbidity and mortality.

CELL (2021)

Add to Collection

Article Environmental Sciences

Estimating the minimum number of SARS-CoV-2 infected cases needed to detect viral RNA in wastewater: To what extent of the outbreak can surveillance of wastewater tell us?

Pei-Ying Hong et al.

Summary: This study investigates the relationship between the number of hospitalized cases and the detection of SARS-CoV-2 RNA in wastewater, revealing a weak correlation. The choice of which nucleocapsid gene to target in RT-qPCR testing also affects the results, with differences in gene abundances observed at different stages of wastewater treatment.

ENVIRONMENTAL RESEARCH (2021)

Add to Collection

Article Microbiology

The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale

Eric C. Rouchka et al.

Summary: This report discusses the monitoring of SARS-CoV-2 pandemic through the detection of viral nucleic acid and variants in aggregate wastewater samples, indicating the feasibility of wastewater monitoring for tracking the spread and mutation of the virus within communities.

PATHOGENS (2021)

Add to Collection

Article Medicine, General & Internal

Increased viral variants in children and young adults with impaired humoral immunity and persistent SARS-CoV-2 infection: A consecutive case series

Thao T. Truong et al.

Summary: The study highlights the concern that persistent infection of SARS-CoV-2 in immunocompromised hosts may lead to mutation accumulation and emergence of strains that evade immune responses. There is a need to reassess infection control precautions and consider routine surveillance of mutations for their potential impact on viral transmission and immune escape.

EBIOMEDICINE (2021)

Add to Collection

Article Psychology, Biological

Socioeconomic impacts of COVID-19 in low-income countries

Anna Josephson et al.

Summary: Phone survey data from Ethiopia, Malawi, Nigeria, and Uganda shows that 256 million individuals-77% of the population-live in households that have lost income during the pandemic. Attempts to cope with this loss are exacerbated by food insecurity and an inability to access medicine and staple foods. Student-teacher contact has dropped significantly among households with school-aged children.

NATURE HUMAN BEHAVIOUR (2021)

Add to Collection

Review Microbiology

SARS-CoV-2 variants, spike mutations and immune escape

William T. Harvey et al.

Summary: The evolution of SARS-CoV-2 has been characterized by the emergence of mutations and variants that impact virus characteristics. Manufacturers are preparing for possible updates to vaccines in response to changes in the virus population, and it is crucial to monitor genetic and antigenic changes alongside experiments to understand the impacts of mutations.

NATURE REVIEWS MICROBIOLOGY (2021)

Add to Collection

Article Engineering, Environmental

Rapid screening for SARS-CoV-2 variants of concern in clinical and environmental samples using nested RT-PCR assays targeting key mutations of the spike protein

G. La Rosa et al.

Summary: A nested RT-PCR assay was developed to detect key mutations of SARS-CoV-2 variants, showing potential for rapid screening of clinical samples and detection of variants in sewage. The study highlights the importance of wastewater surveillance in exploring SARS-CoV-2 diversity and distribution.

WATER RESEARCH (2021)

Add to Collection

Article Microbiology

Rapid, Large-Scale Wastewater Surveillance and Automated Reporting System Enable Early Detection of Nearly 85% of COVID-19 Cases on a University Campus

Smruthi Karthikeyan et al.

Summary: Wastewater-based surveillance is a cost-effective and efficient way to forecast COVID-19 infection dynamics, especially on university campuses. Automated sample processing can significantly reduce turnaround time and costs, making it a valuable tool for long-term surveillance in high-risk environments like college campuses.

MSYSTEMS (2021)

Add to Collection

Article Virology

Assignment of epidemiological lineages in an emerging pandemic using the pangolin tool

Aine O'Toole et al.

Summary: The global virus genomics community has responded unprecedentedly to the SARS-CoV-2 pandemic, leading to significant advances in 'real-time' generation and sharing of genomic data. The development of new analytical methods, such as pangolin, has been necessary to handle the rapid growth in virus genome data production. Pangolin has processed nearly two million virus genomes, aiding in SARS-CoV-2 genomic epidemiology and providing researchers with valuable information about the pandemic's transmission lineages.

VIRUS EVOLUTION (2021)

Add to Collection

Article Multidisciplinary Sciences

SARS-CoV-2 exposure in wild white-tailed deer (Odocoileus virginianus)

Jeffrey C. Chandler et al.

Summary: Research indicates that white-tailed deer in the United States have been exposed to SARS-CoV-2, with 40% of samples testing positive for antibodies. This suggests that human infections of the novel coronavirus may have an impact on wildlife.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2021)

Add to Collection

Article Immunology

Monitoring SARS-CoV-2 Circulation and Diversity through Community Wastewater Sequencing, the Netherlands and Belgium

Ray Izquierdo-Lara et al.

Summary: This study evaluated the diversity of SARS-CoV-2 at the community level in the Netherlands and Belgium using sewage samples, identifying the presence of prevalent clades and clustering of sewage samples with clinical samples from the same region. Additionally, novel mutations in the SARS-CoV-2 genome were detected, illustrating the potential of wastewater surveillance in tracking virus diversity and new outbreaks.

EMERGING INFECTIOUS DISEASES (2021)

Add to Collection

Article Microbiology

Metatranscriptomic Analysis Reveals SARS-CoV-2 Mutations in Wastewater of the Frankfurt Metropolitan Area in Southern Germany

Shelesh Agrawal et al.

Summary: Sequencing analysis of SARS-CoV-2 RNA in wastewater samples can provide insights into emerging variants in a city, as most detected mutations have been identified only in clinical genomes outside Frankfurt.

MICROBIOLOGY RESOURCE ANNOUNCEMENTS (2021)

Add to Collection

Letter Medicine, General & Internal

COVID-19: PCR screening of asymptomatic healthcare workers at London hospital

Thomas A. Treibel et al.

LANCET (2020)

Add to Collection

Article Microbiology

SARS-CoV-2 Titers in Wastewater Are Higher than Expected from Clinically Confirmed Cases

Fuqing Wu et al.

MSYSTEMS (2020)

Add to Collection

Review Surgery

The socio-economic implications of the coronavirus pandemic (COVID-19): A review

Maria Nicola et al.

INTERNATIONAL JOURNAL OF SURGERY (2020)

Add to Collection

Article Biotechnology & Applied Microbiology

Measurement of SARS-CoV-2 RNA in wastewater tracks community infection dynamics

Jordan Peccia et al.

NATURE BIOTECHNOLOGY (2020)

Add to Collection

Article Multidisciplinary Sciences

Disentangling primer interactions improves SARS-CoV-2 genome sequencing by multiplex tiling PCR

Kentaro Itokawa et al.

PLOS ONE (2020)

Add to Collection

Article Virology

Tracking SARS-CoV-2 in Sewage: Evidence of Changes in Virus Variant Predominance during COVID-19 Pandemic

Javier Martin et al.

VIRUSES-BASEL (2020)

Add to Collection

Article Multidisciplinary Sciences

A cross-country database of COVID-19 testing

Joe Hasell et al.

SCIENTIFIC DATA (2020)

Add to Collection

Article Cell Biology

Genomic epidemiology of superspreading events in Austria reveals mutational dynamics and transmission properties of SARS-CoV-2 Alexandra

Alexandra Popa et al.

SCIENCE TRANSLATIONAL MEDICINE (2020)

Add to Collection

Proceedings Paper Computer Science, Artificial Intelligence

Country-wide Mobility Changes Observed Using Mobile Phone Data During COVID-19 Pandemic

Georg Heiler et al.

2020 IEEE INTERNATIONAL CONFERENCE ON BIG DATA (BIG DATA) (2020)

Add to Collection

Article Environmental Sciences

Presence and infectivity of SARS-CoV-2 virus in wastewaters and rivers

Sara Giordana Rimoldi et al.

SCIENCE OF THE TOTAL ENVIRONMENT (2020)

Add to Collection

Article Cell Biology

Temporal Detection and Phylogenetic Assessment of SARS-CoV-2 in Municipal Wastewater

Artem Nemudryi et al.

CELL REPORTS MEDICINE (2020)

Add to Collection

Article Infectious Diseases

Improved inference of time-varying reproduction numbers during infectious disease outbreaks

R. N. Thompson et al.

EPIDEMICS (2019)

Add to Collection

Review Microbiology

Tracking virus outbreaks in the twenty-first century

Nathan D. Grubaugh et al.

NATURE MICROBIOLOGY (2019)

Add to Collection

Article Biotechnology & Applied Microbiology

An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar

Nathan D. Grubaugh et al.

GENOME BIOLOGY (2019)

Add to Collection

Review Genetics & Heredity

APPLICATIONS OF NEXT-GENERATION SEQUENCING Towards a genomics-informed, real-time, global pathogen surveillance system

Jennifer L. Gardy et al.

NATURE REVIEWS GENETICS (2018)

Add to Collection

Article Biotechnology & Applied Microbiology

Laboratory Surveillance of Polio and Other Enteroviruses in High-Risk Populations and Environmental Samples

Vasiliki Pogka et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2017)

Add to Collection

Editorial Material Infectious Diseases

GISAID: Global initiative on sharing all influenza data - from vision to reality

Yuelong Shu et al.

EUROSURVEILLANCE (2017)

Add to Collection

Article Multidisciplinary Sciences

BBMerge - Accurate paired shotgun read merging via overlap

Brian Bushnell et al.

PLOS ONE (2017)

Add to Collection

Article Multidisciplinary Sciences

Data, disease and diplomacy: GISAID's innovative contribution to global health

Stefan Elbe et al.

GLOBAL CHALLENGES (2017)

Add to Collection

Article Engineering, Environmental

Survivability, Partitioning, and Recovery of Enveloped Viruses in Untreated Municipal Wastewater

Yinyin Ye et al.

ENVIRONMENTAL SCIENCE & TECHNOLOGY (2016)

Add to Collection

Article Biochemical Research Methods

SNPGenie: estimating evolutionary parameters to detect natural selection using pooled next-generation sequencing data

Chase W. Nelson et al.

BIOINFORMATICS (2015)

Add to Collection

Article Cell Biology

Lessons from Ebola: Improving infectious disease surveillance to inform outbreak management

Mark E. J. Woolhouse et al.

SCIENCE TRANSLATIONAL MEDICINE (2015)

Add to Collection

Article Engineering, Environmental

Population Normalization with Ammonium in Wastewater-Based Epidemiology: Application to Illicit Drug Monitoring

Frederic Been et al.

ENVIRONMENTAL SCIENCE & TECHNOLOGY (2014)

Add to Collection

Article Evolutionary Biology

Population-Genetic Inference from Pooled-Sequencing Data

Michael Lynch et al.

GENOME BIOLOGY AND EVOLUTION (2014)

Add to Collection

Article Public, Environmental & Occupational Health

A New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics

Anne Cori et al.

AMERICAN JOURNAL OF EPIDEMIOLOGY (2013)

Add to Collection

Article Biochemistry & Molecular Biology

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3

Pablo Cingolani et al.

FLY (2012)

Add to Collection

Article Biochemistry & Molecular Biology

LoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets

Andreas Wilm et al.

NUCLEIC ACIDS RESEARCH (2012)

Add to Collection

Article Genetics & Heredity

Using Drosophila melanogaster as a Model for Genotoxic Chemical Mutational Studies with a New Program, SnpSift

Pablo Cingolani et al.

Frontiers in Genetics (2012)

Add to Collection

Article Biochemical Research Methods

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

Heng Li

BIOINFORMATICS (2011)

Add to Collection

Article Immunology

Seasonal Influenza A Virus in Feces of Hospitalized Adults

Martin C. W. Chan et al.

EMERGING INFECTIOUS DISEASES (2011)

Add to Collection

Article Biochemical Research Methods

Fast and accurate short read alignment with Burrows-Wheeler transform

Heng Li et al.

BIOINFORMATICS (2009)

Add to Collection

Article Multidisciplinary Sciences

Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic

Gavin J. D. Smith et al.

NATURE (2009)

Add to Collection

Article Psychology, Multidisciplinary

A better lemon squeezer? Maximum-likelihood regression with beta-distributed dependent variables

M Smithson et al.

PSYCHOLOGICAL METHODS (2006)

Add to Collection

Article Statistics & Probability

Generalized additive models for location, scale and shape

RA Rigby et al.

JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES C-APPLIED STATISTICS (2005)

Add to Collection

© Peeref 2019-2024. All rights reserved.