Nucleic Acid Testing of SARS-CoV-2

rRT-PCR for SARS-CoV-2: analytical considerations

(2021) Rezgar Rahbari et al.   CLINICA CHIMICA ACTA

Nanomedicine for the SARS-CoV-2: State-of-the-Art and Future Prospects

(2021) Sree Pooja Varahachalam et al.   International Journal of Nanomedicine

Comparison of digital PCR and quantitative PCR with various SARS-CoV-2 primer-probe sets

(2021) Changwoo Park et al.   JOURNAL OF MICROBIOLOGY AND BIOTECHNOLOGY

Full length genomic sanger sequencing and phylogenetic analysis of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) in Nigeria

(2021) Joseph Ojonugwa Shaibu et al.   PLoS One

COVID-19: a challenge for electrochemical biosensors

(2021) Jiri Kudr et al.   TRAC-TRENDS IN ANALYTICAL CHEMISTRY

A Comprehensive Review of Detection Methods for SARS-CoV-2

(2021) Aziz Eftekhari et al.   Microorganisms

Nucleic Acid-Based Diagnostic Tests for the Detection SARS-CoV-2: An Update

(2021) Choo Yee Yu et al.   Diagnostics

Reverse Transcription Recombinase Polymerase Amplification Coupled with CRISPR-Cas12a for Facile and Highly Sensitive Colorimetric SARS-CoV-2 Detection

(2021) Wei S. Zhang et al.   ANALYTICAL CHEMISTRY

Emergency room comprehensive assessment of demographic, radiological, laboratory and clinical data of patients with COVID-19: determination of its prognostic value for in-hospital mortality

(2021) Marco Gatti et al.   Internal and Emergency Medicine

Droplet digital PCR of viral ‎DNA/RNA, current progress, challenges, and future perspectives

(2021) Amir Asri Kojabad et al.   JOURNAL OF MEDICAL VIROLOGY

Resurgence of COVID-19 in Manaus, Brazil, despite high seroprevalence

(2021) Ester C Sabino et al.   LANCET

Antibody Resistance of SARS-CoV-2 Variants B.1.351 and B.1.1.7

(2021) Pengfei Wang et al.   NATURE

Diagnostics for SARS-CoV-2 infections

(2021) Bhavesh D. Kevadiya et al.   NATURE MATERIALS

Saliva as a testing specimen with or without pooling for SARS-CoV-2 detection by multiplex RT-PCR test

(2021) Qing Sun et al.   PLoS One

SARS‐CoV‐2, Covid‐19, and the debunking of conspiracy theories

(2021) Mohamad S. Hakim   REVIEWS IN MEDICAL VIROLOGY

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

(2021) Nicholas G. Davies et al.   SCIENCE

Immunity to SARS-CoV-2 variants of concern

(2021) Daniel M. Altmann et al.   SCIENCE

Using viral load and epidemic dynamics to optimize pooled testing in resource-constrained settings

(2021) Brian Cleary et al.   Science Translational Medicine

Lessons from applied large-scale pooling of 133,816 SARS-CoV-2 RT-PCR tests

(2021) Netta Barak et al.   Science Translational Medicine

Rapid electrochemical detection of coronavirus SARS-CoV-2

(2021) Thanyarat Chaibun et al.   Nature Communications

Direct diagnostic testing of SARS-CoV-2 without the need for prior RNA extraction

(2021) Shan Wei et al.   Scientific Reports

A Half-Day Genome Sequencing Protocol for Middle East Respiratory Syndrome Coronavirus

(2021) Kwan Woo Kim et al.   Frontiers in Microbiology

A rapid diagnosis of SARS-CoV-2 using DNA hydrogel formation on microfluidic pores

(2021) Hwang-soo Kim et al.   BIOSENSORS & BIOELECTRONICS

Transmission, infectivity, and neutralization of a spike L452R SARS-CoV-2 variant

(2021) Xianding Deng et al.   CELL

Increased resistance of SARS-CoV-2 variant P.1 to antibody neutralization

(2021) Pengfei Wang et al.   Cell Host & Microbe

Neutralization of variant under investigation B.1.617 with sera of BBV152 vaccinees

(2021) Pragya D Yadav et al.   CLINICAL INFECTIOUS DISEASES

Diagnostic performance of different sampling approaches for SARS-CoV-2 RT-PCR testing: a systematic review and meta-analysis

(2021) Nicole Ngai Yung Tsang et al.   LANCET INFECTIOUS DISEASES

Improved sensitivity, safety, and rapidity of COVID-19 tests by replacing viral storage solution with lysis buffer

(2021) Oran Erster et al.   PLoS One

Comparative analysis of various clinical specimens in detection of SARS-CoV-2 using rRT-PCR in new and follow up cases of COVID-19 infection: Quest for the best choice

(2021) Kuldeep Sharma et al.   PLoS One

Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil

(2021) Nuno R. Faria et al.   SCIENCE

Analysis and forecasting of global real time RT-PCR primers and probes for SARS-CoV-2

(2021) Gowri Nayar et al.   Scientific Reports

Isothermal Nucleic Acid Amplification Techniques and Their Use in Bioanalysis

(2020) O. L. Bodulev et al.   BIOCHEMISTRY-MOSCOW

Viral load of SARS-CoV-2 in clinical samples

(2020) Yang Pan et al.   LANCET INFECTIOUS DISEASES

A new coronavirus associated with human respiratory disease in China

(2020) Fan Wu et al.   NATURE

A pneumonia outbreak associated with a new coronavirus of probable bat origin

(2020) Peng Zhou et al.   NATURE

A Novel Coronavirus from Patients with Pneumonia in China, 2019

(2020) Na Zhu et al.   NEW ENGLAND JOURNAL OF MEDICINE

On the origin and continuing evolution of SARS-CoV-2

(2020) Xiaolu Tang et al.   National Science Review

Selective Naked-Eye Detection of SARS-CoV-2 Mediated by N Gene Targeted Antisense Oligonucleotide Capped Plasmonic Nanoparticles

(2020) Parikshit Moitra et al.   ACS Nano

Diagnosing COVID-19: The Disease and Tools for Detection

(2020) Buddhisha Udugama et al.   ACS Nano

Rapid Detection of COVID-19 Coronavirus Using a Reverse Transcriptional Loop-Mediated Isothermal Amplification (RT-LAMP) Diagnostic Platform

(2020) Lin Yu et al.   CLINICAL CHEMISTRY

A Novel Bat Coronavirus Closely Related to SARS-CoV-2 Contains Natural Insertions at the S1/S2 Cleavage Site of the Spike Protein

(2020) Hong Zhou et al.   CURRENT BIOLOGY

Probable Pangolin Origin of SARS-CoV-2 Associated with the COVID-19 Outbreak

(2020) Tao Zhang et al.   CURRENT BIOLOGY

Letter to the editor: SARS-CoV-2 detection by real-time RT-PCR

(2020) Trestan Pillonel et al.   Eurosurveillance

Estimating the asymptomatic proportion of coronavirus disease 2019 (COVID-19) cases on board the Diamond Princess cruise ship, Yokohama, Japan, 2020

(2020) Kenji Mizumoto et al.   Eurosurveillance

Comparison of the COVID-2019 (SARS-CoV-2) pathogenesis with SARS-CoV and MERS-CoV infections

(2020) Mona Fani et al.   Future Virology

A Novel Reverse Transcription Loop-Mediated Isothermal Amplification Method for Rapid Detection of SARS-CoV-2

(2020) Renfei Lu et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

RT-qPCR Testing of SARS-CoV-2: A Primer

(2020) Stephen A. Bustin et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Detection of SARS-CoV-2 in Different Types of Clinical Specimens

(2020) Wenling Wang et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

False-negative of RT-PCR and prolonged nucleic acid conversion in COVID-19: Rather than recurrence

(2020) Ai Tang Xiao et al.   JOURNAL OF MEDICAL VIROLOGY

RT-PCR for SARS-CoV-2: quantitative versus qualitative

(2020) Mi Seon Han et al.   LANCET INFECTIOUS DISEASES

Structure of the SARS-CoV-2 spike receptor-binding domain bound to the ACE2 receptor

(2020) Jun Lan et al.   NATURE

Identifying SARS-CoV-2 related coronaviruses in Malayan pangolins

(2020) Tommy Tsan-Yuk Lam et al.   NATURE

Structural basis of receptor recognition by SARS-CoV-2

(2020) Jian Shang et al.   NATURE

Virological assessment of hospitalized patients with COVID-2019

(2020) Roman Wölfel et al.   NATURE

CRISPR–Cas12-based detection of SARS-CoV-2

(2020) James P. Broughton et al.   NATURE BIOTECHNOLOGY

Italian society of colorectal surgery recommendations for good clinical practice in colorectal surgery during the novel coronavirus pandemic

(2020) G. Gallo et al.   Techniques in Coloproctology

ddPCR: a more accurate tool for SARS-CoV-2 detection in low viral load specimens

(2020) Tao Suo et al.   Emerging Microbes & Infections

Analytical comparisons of SARS-COV-2 detection by qRT-PCR and ddPCR with multiple primer/probe sets

(2020) Xinjin Liu et al.   Emerging Microbes & Infections

Assay Techniques and Test Development for COVID-19 Diagnosis

(2020) Linda J. Carter et al.   ACS Central Science

Optimization of the CDC Protocol of Molecular Diagnosis of COVID-19 for Timely Diagnosis

(2020) Chao-Ju Chen et al.   Diagnostics

Clinical Characteristics of Children with Coronavirus Disease 2019 in Hubei, China

(2020) Fang Zheng et al.   Current Medical Science

Deep mutational scanning of SARS-CoV-2 receptor binding domain reveals constraints on folding and ACE2 binding

(2020) Tyler N. Starr et al.   CELL

Tracking Changes in SARS-CoV-2 Spike: Evidence that D614G Increases Infectivity of the COVID-19 Virus

(2020) Bette Korber et al.   CELL

Comparing Nasopharyngeal and Mid-Turbinate Nasal Swab Testing for the Identification of SARS-CoV-2

(2020) Swetha Pinninti et al.   CLINICAL INFECTIOUS DISEASES

Optimization of primer sets and detection protocols for SARS-CoV-2 of coronavirus disease 2019 (COVID-19) using PCR and real-time PCR

(2020) Myungsun Park et al.   EXPERIMENTAL AND MOLECULAR MEDICINE

Sensitivity assessment of droplet digital PCR for SARS-CoV-2 detection

(2020) Luca Falzone et al.   INTERNATIONAL JOURNAL OF MOLECULAR MEDICINE

Comparison of seven commercial RT-PCR diagnostic kits for COVID-19

(2020) Puck B. van Kasteren et al.   JOURNAL OF CLINICAL VIROLOGY

SARS-CoV-2 genomic variations associated with mortality rate of COVID-19

(2020) Yujiro Toyoshima et al.   JOURNAL OF HUMAN GENETICS

Development of Reverse Transcription Loop-Mediated Isothermal Amplification Assays Targeting Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2)

(2020) Gun-Soo Park et al.   JOURNAL OF MOLECULAR DIAGNOSTICS

A colorimetric RT-LAMP assay and LAMP-sequencing for detecting SARS-CoV-2 RNA in clinical samples

(2020) Viet Loan Dao Thi et al.   Science Translational Medicine

Comparative analysis of primer-probe sets for RT-qPCR of COVID-19 causative virus (SARS-CoV-2)

(2020) Yujin Jung et al.   ACS Infectious Diseases

A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology

(2020) Andrew Rambaut et al.   Nature Microbiology

Analytical sensitivity and efficiency comparisons of SARS-CoV-2 RT–qPCR primer–probe sets

(2020) Chantal B. F. Vogels et al.   Nature Microbiology

SARS-CoV-2 detection in different respiratory sites: A systematic review and meta-analysis

(2020) Abbas Mohammadi et al.   EBioMedicine

Laboratory Testing Methods for Novel Severe Acute Respiratory Syndrome-Coronavirus-2 (SARS-CoV-2)

(2020) Roshan J. D'Cruz et al.   Frontiers in Cell and Developmental Biology

CRISPR/cas systems redefine nucleic acid detection: Principles and methods

(2020) Meng Wang et al.   BIOSENSORS & BIOELECTRONICS

Multiplex reverse transcription loop-mediated isothermal amplification combined with nanoparticle-based lateral flow biosensor for the diagnosis of COVID-19

(2020) Xiong Zhu et al.   BIOSENSORS & BIOELECTRONICS

PCR past, present and future

(2020) Hanliang Zhu et al.   BIOTECHNIQUES

Rapid and extraction-free detection of SARS-CoV-2 from saliva by colorimetric reverse-transcription loop-mediated isothermal amplification

(2020) Matthew A Lalli et al.   CLINICAL CHEMISTRY

Sample pooling for SARS-CoV-2 RT-PCR screening

(2020) Adolfo de Salazar et al.   CLINICAL MICROBIOLOGY AND INFECTION

Sequencing identifies multiple early introductions of SARS-CoV-2 to the New York City Region

(2020) Matthew T Maurano et al.   GENOME RESEARCH

Comparison of the analytical sensitivity of seven commonly used commercial SARS-CoV-2 automated molecular assays

(2020) Heba H. Mostafa et al.   JOURNAL OF CLINICAL VIROLOGY

Considerations for diagnostic COVID-19 tests

(2020) Olivier Vandenberg et al.   NATURE REVIEWS MICROBIOLOGY

Saliva or Nasopharyngeal Swab Specimens for Detection of SARS-CoV-2

(2020) Anne L. Wyllie et al.   NEW ENGLAND JOURNAL OF MEDICINE

Detection and quantification of SARS-CoV-2 by droplet digital PCR in real-time PCR negative nasopharyngeal swabs from suspected COVID-19 patients

(2020) Claudia Alteri et al.   PLoS One

Rapid isothermal amplification and portable detection system for SARS-CoV-2

(2020) Anurup Ganguli et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rapid point-of-care detection of SARS-CoV-2 using reverse transcription loop-mediated isothermal amplification (RT-LAMP)

(2020) Lena Mautner et al.   Virology Journal

iSCAN: An RT-LAMP-coupled CRISPR-Cas12 module for rapid, sensitive detection of SARS-CoV-2

(2020) Zahir Ali et al.   VIRUS RESEARCH

Artificial Intelligence-Assisted Loop Mediated Isothermal Amplification (AI-LAMP) for Rapid Detection of SARS-CoV-2

(2020) Mohammed A. Rohaim et al.   Viruses-Basel

A materials-science perspective on tackling COVID-19

(2020) Zhongmin Tang et al.   Nature Reviews Materials

A High-Throughput, Multi-Index Isothermal Amplification Platform for Rapid Detection of 19 Types of Common Respiratory Viruses Including SARS-CoV-2

(2020) Wanli Xing et al.   Engineering

Clinical validation of a Cas13-based assay for the detection of SARS-CoV-2 RNA

(2020) Maturada Patchsung et al.   Nature Biomedical Engineering

Evaluation of NGS-based approaches for SARS-CoV-2 whole genome characterisation

(2020) Caroline Charre et al.   Virus Evolution

Analytical and Clinical Validation for RT-qPCR Detection of SARS-CoV-2 Without RNA Extraction

(2020) José P. Miranda et al.   Frontiers in Medicine

Isothermal Amplification and Ambient Visualization in a Single Tube for the Detection of SARS-CoV-2 Using Loop-Mediated Amplification and CRISPR Technology

(2020) Bo Pang et al.   ANALYTICAL CHEMISTRY

Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity

(2020) Erik Volz et al.   CELL

Estimating the false-negative test probability of SARS-CoV-2 by RT-PCR

(2020) Paul S Wikramaratna et al.   Eurosurveillance

CRISPR-Based Approaches for Efficient and Accurate Detection of SARS-CoV-2

(2020) Wancun Zhang et al.   Labmedicine

Streamlined inactivation, amplification, and Cas13-based detection of SARS-CoV-2

(2020) Jon Arizti-Sanz et al.   Nature Communications

An enhanced isothermal amplification assay for viral detection

(2020) Jason Qian et al.   Nature Communications

Point of Care Diagnostics in the Age of COVID-19

(2020) Meysam Rezaei et al.   Diagnostics

Recent trends in analytical and digital techniques for the detection of the SARS-Cov-2

(2020) Chitrangada Das Mukhopadhyay et al.   BIOPHYSICAL CHEMISTRY

The Limit of Detection Matters: The Case for Benchmarking Severe Acute Respiratory Syndrome Coronavirus 2 Testing

(2020) Ramy Arnaout et al.   CLINICAL INFECTIOUS DISEASES

A complete protocol for whole-genome sequencing of virus from clinical samples: Application to coronavirus OC43

(2019) Florence Maurier et al.   VIROLOGY

A novel method for the capture-based purification of whole viral native RNA genomes

(2019) Cedric Chih Shen Tan et al.   AMB Express

A Protocol for Extraction of Infective Viromes Suitable for Metagenomics Sequencing from Low Volume Fecal Samples

(2019) Ling Deng et al.   Viruses-Basel

SHERLOCK: nucleic acid detection with CRISPR nucleases

(2019) Max J. Kellner et al.   Nature Protocols

Digital PCR—An Emerging Technology with Broad Applications in Microbiology

(2019) Stephen J. Salipante et al.   CLINICAL CHEMISTRY

Recent advances in the CRISPR genome editing tool set

(2019) Su Bin Moon et al.   EXPERIMENTAL AND MOLECULAR MEDICINE

What is novel about certified reference materials?

(2018) Stephen A. Wise   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Nextstrain: real-time tracking of pathogen evolution

(2018) James Hadfield et al.   BIOINFORMATICS

dPCR: A Technology Review

(2018) Phenix-Lan Quan et al.   SENSORS

Recombinase polymerase amplification: Basics, applications and recent advances

(2018) Ivan Magriñá Lobato et al.   TRAC-TRENDS IN ANALYTICAL CHEMISTRY

Early events during human coronavirus OC43 entry to the cell

(2018) Katarzyna Owczarek et al.   Scientific Reports

BulkVis: a graphical viewer for Oxford nanopore bulk FAST5 files

(2018) Alexander Payne et al.   BIOINFORMATICS

Hybrid Capture-Based Next Generation Sequencing and Its Application to Human Infectious Diseases

(2018) Maxime Gaudin et al.   Frontiers in Microbiology

Applications of Digital PCR for Clinical Microbiology

(2017) Jane Kuypers et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Clinical and biological insights from viral genome sequencing

(2017) Charlotte J. Houldcroft et al.   NATURE REVIEWS MICROBIOLOGY

Database resources of the National Center for Biotechnology Information

(2017) et al.   NUCLEIC ACIDS RESEARCH

Single primer isothermal amplification (SPIA) combined with next generation sequencing provides complete bovine coronavirus genome coverage and higher sequence depth compared to sequence-independent single primer amplification (SISPA)

(2017) Mette Myrmel et al.   PLoS One

Efficient and unbiased metagenomic recovery of RNA virus genomes from human plasma samples

(2017) Carmen F. Manso et al.   Scientific Reports

Real-time, portable genome sequencing for Ebola surveillance

(2016) Joshua Quick et al.   NATURE

MERS-CoV diagnosis: An update

(2016) Sameera Al Johani et al.   Journal of Infection and Public Health

Human norovirus culture in B cells

(2015) Melissa K Jones et al.   Nature Protocols

Host-Associated Metagenomics: A Guide to Generating Infectious RNA Viromes

(2015) Sarah Temmam et al.   PLoS One

Rapid detection of Plasmodium falciparum with isothermal recombinase polymerase amplification and lateral flow analysis

(2014) Sebastian Kersting et al.   MALARIA JOURNAL

Evaluation of rapid and simple techniques for the enrichment of viruses prior to metagenomic virus discovery

(2013) Richard J. Hall et al.   JOURNAL OF VIROLOGICAL METHODS

Viral diagnostics in the era of digital polymerase chain reaction

(2012) Ruth Hall Sedlak et al.   DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE

Isolation of a Novel Coronavirus from a Man with Pneumonia in Saudi Arabia

(2012) Ali M. Zaki et al.   NEW ENGLAND JOURNAL OF MEDICINE

Enhanced analysis of real-time PCR data by using a variable efficiency model: FPK-PCR

(2011) Antoon Lievens et al.   NUCLEIC ACIDS RESEARCH

ViPR: an open bioinformatics database and analysis resource for virology research

(2011) Brett E. Pickett et al.   NUCLEIC ACIDS RESEARCH

The impact of primer and probe-template mismatches on the sensitivity of pandemic influenza A/H1N1/2009 virus detection by real-time RT-PCR

(2010) Chonticha Klungthong et al.   JOURNAL OF CLINICAL VIROLOGY

Culturing the Unculturable: Human Coronavirus HKU1 Infects, Replicates, and Produces Progeny Virions in Human Ciliated Airway Epithelial Cell Cultures

(2010) K. Pyrc et al.   JOURNAL OF VIROLOGY

Micro- and nanotechnology for viral detection

(2008) Xuanhong Cheng et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Real-time PCR quantification using a variable reaction efficiency model

(2008) Adrian E. Platts et al.   ANALYTICAL BIOCHEMISTRY

Loop-mediated isothermal amplification (LAMP) of gene sequences and simple visual detection of products

(2008) Norihiro Tomita et al.   Nature Protocols

Eleven Golden Rules of Quantitative RT-PCR

(2008) M. K. Udvardi et al.   PLANT CELL