| 37946059 | Author Correction: Multiplexed CRISPR-based microfluidic platform for clinical testing of respiratory viruses and identification of SARS-CoV-2 variants. | Nat Med | 2024 |
| 36299420 | Development of an amplicon-based sequencing approach in response to the global emergence of human monkeypox virus. | medRxiv | 2023 |
| 37542071 | Metagenomic surveillance uncovers diverse and novel viral taxa in febrile patients from Nigeria. | Nat Commun | 2023 |
| 37873325 | Inferring Viral Transmission Pathways from Within-Host Variation. | medRxiv | 2023 |
| 37310918 | Development of an amplicon-based sequencing approach in response to the global emergence of mpox. | PLoS Biol | 2023 |
| 37428142 | Accelerating bioinformatics implementation in public health. | Microb Genom | 2023 |
| 36656774 | The 2022 RSV surge was driven by multiple viral lineages. | medRxiv | 2023 |
| 36812457 | Viral Lineages in the 2022 RSV Surge in the United States. | N Engl J Med | 2023 |
| 36781860 | Emergence and spread of two SARS-CoV-2 variants of interest in Nigeria. | Nat Commun | 2023 |
| 36732505 | High-depth sequencing characterization of viral dynamics across tissues in fatal COVID-19 reveals compartmentalized infection. | Nat Commun | 2023 |
| 35051367 | Transmission from vaccinated individuals in a large SARS-CoV-2 Delta variant outbreak. | Cell | 2022 |
| 35480627 | Comparative transmissibility of SARS-CoV-2 variants Delta and Alpha in New England, USA. | Cell Rep Med | 2022 |
| 35608456 | Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness. | Science | 2022 |
| 36198312 | Multimodal surveillance of SARS-CoV-2 at a university enables development of a robust outbreak response framework. | Med | 2022 |
| 36093336 | Benchmark datasets for SARS-CoV-2 surveillance bioinformatics. | PeerJ | 2022 |
| 35130561 | Multiplexed CRISPR-based microfluidic platform for clinical testing of respiratory viruses and identification of SARS-CoV-2 variants. | Nat Med | 2022 |
| 34907347 | Synthetic DNA spike-ins (SDSIs) enable sample tracking and detection of inter-sample contamination in SARS-CoV-2 sequencing workflows. | Nat Microbiol | 2022 |
| 33303686 | Phylogenetic analysis of SARS-CoV-2 in Boston highlights the impact of superspreading events. | Science | 2021 |
| 33758855 | DNA spike-ins enable confident interpretation of SARS-CoV-2 genomic data from amplicon-based sequencing. | bioRxiv | 2021 |
| 34704102 | Evidence of transmission from fully vaccinated individuals in a large outbreak of the SARS-CoV-2 Delta variant in Provincetown, Massachusetts. | medRxiv | 2021 |
| 34642698 | Comparative transmissibility of SARS-CoV-2 variants Delta and Alpha in New England, USA. | medRxiv | 2021 |
| 34465023 | Enhanced Virus Detection and Metagenomic Sequencing in Patients with Meningitis and Encephalitis. | mBio | 2021 |
| 34452470 | The Origins and Future of Sentinel: An Early-Warning System for Pandemic Preemption and Response. | Viruses | 2021 |
| 34351882 | Outbreak of SARS-CoV-2 Infections, Including COVID-19 Vaccine Breakthrough Infections, Associated with Large Public Gatherings - Barnstable County, Massachusetts, July 2021. | MMWR Morb Mortal Wkly Rep | 2021 |
| 32228566 | Amplicon deep sequencing of kelch13 in Plasmodium falciparum isolates from Senegal. | Malar J | 2020 |
| 32045407 | Combining genomics and epidemiology to track mumps virus transmission in the United States. | PLoS Biol | 2020 |
| 33172455 | Molecular epidemiology of Plasmodium falciparum by multiplexed amplicon deep sequencing in Senegal. | Malar J | 2020 |
| 33094116 | Powassan Virus Neuropathology and Genomic Diversity in Patients With Fatal Encephalitis. | Open Forum Infect Dis | 2020 |
| 32807807 | Deployable CRISPR-Cas13a diagnostic tools to detect and report Ebola and Lassa virus cases in real-time. | Nat Commun | 2020 |
| 32869040 | Phylogenetic analysis of SARS-CoV-2 in the Boston area highlights the role of recurrent importation and superspreading events. | medRxiv | 2020 |
| 30381486 | Metagenomic Sequencing of HIV-1 in the Blood and Female Genital Tract Reveals Little Quasispecies Diversity during Acute Infection. | J Virol | 2019 |
| 31398336 | Benchmarking Metagenomics Tools for Taxonomic Classification. | Cell | 2019 |
| 30718881 | Capturing sequence diversity in metagenomes with comprehensive and scalable probe design. | Nat Biotechnol | 2019 |
| 29536737 | Negative Selection by Spiral Inertial Microfluidics Improves Viral Recovery and Sequencing from Blood. | Anal Chem | 2018 |
| 30332564 | Genomic Analysis of Lassa Virus during an Increase in Cases in Nigeria in 2018. | N Engl J Med | 2018 |
| 28538723 | Genomic epidemiology reveals multiple introductions of Zika virus into the United States. | Nature | 2017 |
| 28405027 | Virus genomes reveal factors that spread and sustained the Ebola epidemic. | Nature | 2017 |
| 28538734 | Zika virus evolution and spread in the Americas. | Nature | 2017 |
| 27402779 | An Outbreak of Ebola Virus Disease in the Lassa Fever Zone. | J Infect Dis | 2016 |
| 27377746 | Ebola Virus Epidemiology and Evolution in Nigeria. | J Infect Dis | 2016 |
| 27516592 | Comment on "Mutation rate and genotype variation of Ebola virus from Mali case sequences". | Science | 2016 |
| 25604787 | Evaluation of the potential impact of Ebola virus genomic drift on the efficacy of sequence-based candidate therapeutics. | mBio | 2015 |
| 26488565 | Genetic Diversity and Protective Efficacy of the RTS,S/AS01 Malaria Vaccine. | N Engl J Med | 2015 |
| 26651942 | Evolution and Spread of Ebola Virus in Liberia, 2014-2015. | Cell Host Microbe | 2015 |
| 26079255 | Monitoring of Ebola Virus Makona Evolution through Establishment of Advanced Genomic Capability in Liberia. | Emerg Infect Dis | 2015 |
| 26091036 | Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone. | Cell | 2015 |
| 25781890 | Development of a single nucleotide polymorphism barcode to genotype Plasmodium vivax infections. | PLoS Negl Trop Dis | 2015 |
| 24472178 | Analysis of pfhrp2 genetic diversity in Senegal and implications for use of rapid diagnostic tests. | Malar J | 2014 |
| 25421896 | Nomenclature- and database-compatible names for the two Ebola virus variants that emerged in Guinea and the Democratic Republic of the Congo in 2014. | Viruses | 2014 |
| 25256396 | Filovirus RefSeq entries: evaluation and selection of filovirus type variants, type sequences, and names. | Viruses | 2014 |