Author: Alexander L. Greninger

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Preprints

Neutralizing antibodies correlate with protection from SARS-CoV-2 in humans during a fishery vessel outbreak with high attack rate

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DIRECT RT-qPCR DETECTION OF SARS-CoV-2 RNA FROM PATIENT NASOPHARYNGEAL SWABS WITHOUT AN RNA EXTRACTION STEP

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A human coronavirus evolves antigenically to escape antibody immunity

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Cryptic transmission of SARS-CoV-2 in Washington State

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  • Site-wide: 791
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Point-of-care testing for COVID-19 using SHERLOCK diagnostics

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  • Site-wide: 893
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  • Site-wide: 1,567
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Rapid metagenomic identification of viral pathogens in clinical samples by real-time nanopore sequencing analysis

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  • Site-wide: 3,352
  • In genomics: 394
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In vivo antiviral host response to SARS-CoV-2 by viral load, sex, and age

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  • Site-wide: 8,001
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Comparison of Commercially Available and Laboratory Developed Assays for in vitro Detection of SARS-CoV-2 in Clinical Laboratories

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  • Site-wide: 8,730
  • In pathology: 44
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  • Site-wide: 25,149
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Reliability of self-sampling for accurate assessment of respiratory virus viral and immunologic kinetics

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  • In infectious diseases: 1,056
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  • Site-wide: 16,849

Validation and Implementation of CLIA-Compliant Whole Genome Sequencing (WGS) in Public Health Laboratory

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Discovery of a persistent Zika virus lineage in Bahia, Brazil

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Anti-SARS-CoV-2 IgG antibodies are associated with reduced viral load

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  • Site-wide: 17,780
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• Year to date:
  • Site-wide: 24,300
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  • Site-wide: 24,205

Retrospective Clinical Evaluation of Four Lateral Flow Assays for the Detection of SARS-CoV-2 Antibodies

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  • Site-wide: 5,022
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  • Site-wide: 4,667

In silico detection of SARS-CoV-2 specific B-cell epitopes and validation in ELISA for serological diagnosis of COVID-19

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  • In bioinformatics: 3,002
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Clinical metagenomic identification of Balamuthia mandrillaris encephalitis and assembly of the draft genome: the critical need for reference strain sequencing

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  • In genomics: 2,492
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  • Site-wide: 110,334
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  • Site-wide: 70,246

SARS-CoV-2 ORF6 disrupts nucleocytoplasmic transport through interactions with Rae1 and Nup98

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  • Site-wide: 27,157
  • In microbiology: 1,589
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  • Site-wide: 11,904
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  • Site-wide: 12,143

Recent Outbreaks of Shigellosis in California Caused by Two Distinct Populations of Shigella sonnei With Increased Virulence or Fluoroquinolone Resistance

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  • Site-wide: 37,512
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  • Site-wide: 61,789

Standard Issue: Copy number heterogeneity of JC virus standards discovered through next-generation sequencing

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  • Site-wide: 38,070
  • In microbiology: 2,322
• Year to date:
  • Site-wide: 59,984
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  • Site-wide: 80,331

VAPiD: a lightweight cross platform viral annotation pipeline and identification tool to facilitate virus genome submissions to NCBI GenBank

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  • Site-wide: 41,585
  • In bioinformatics: 4,524
• Year to date:
  • Site-wide: 50,225
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  • Site-wide: 81,761

Genomic and proteomic analysis of Human herpesvirus 6 reveals distinct clustering of acute versus inherited forms and reannotation of reference strain

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  • Site-wide: 48,099
  • In microbiology: 3,062
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  • Site-wide: 61,864
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  • Site-wide: 59,180

Myeloablation-associated deletion of ORF4 in a human coronavirus 229E infection

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  • In genomics: 3,951
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A novel qacA allele results in an elevated chlorhexidine gluconate minimum inhibitory concentration in cutaneous Staphylococcus epidermidis isolates

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  • In microbiology: 3,424
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  • Site-wide: 107,999
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Pre-Procedural Surveillance Testing for SARS-CoV-2 in an Asymptomatic Population Shows Low Rates of Positivity

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  • Site-wide: 53,288
  • In infectious diseases: 2,431
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  • Site-wide: 75,657
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  • Site-wide: 116,069

The impact of interspecies recombination on human herpes simplex virus evolution and host immune recognition

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  • Site-wide: 55,945
  • In genomics: 4,249
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  • Site-wide: 29,500
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  • Site-wide: 81,437

Rapid metagenomic next-generation sequencing during an investigation of hospital-acquired human parainfluenza virus 3 infections

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  • Site-wide: 65,149
  • In microbiology: 4,400
• Year to date:
  • Site-wide: 92,172
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  • Site-wide: 85,646

Cooperating H3N2 influenza virus variants are not detectable in primary clinical samples

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  • Site-wide: 66,186
  • In microbiology: 4,499
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  • Site-wide: 93,257

Limited marginal utility of deep sequencing for HIV drug resistance testing in the age of integrase inhibitors

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  • Site-wide: 67,334
  • In epidemiology: 2,763
• Year to date:
  • Site-wide: 94,370
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  • Site-wide: 98,300

Ultrasensitive capture of human herpes simplex virus genomes directly from clinical samples reveals extraordinarily limited evolution in cell culture

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  • In genomics: 4,758
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  • Site-wide: 101,494

Divergent In vitro MIC Characteristics and underlying isogenic mutations in host-specialized Pseudomonas aeruginosa

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  • Site-wide: 77,395
  • In microbiology: 5,432
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  • Site-wide: 97,699

Copy number heterogeneity, large origin tandem repeats, and interspecies recombination in HHV-6A and HHV-6B reference strains

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  • Site-wide: 78,167
  • In genomics: 5,188
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  • Site-wide: 111,002
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  • Site-wide: 50,826

Inactivation of genes in oxidative respiration and iron acquisition pathways in pediatric clinical isolates of small-colony variant Enterobactericeae

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  • In microbiology: 6,298
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  • Site-wide: 50,519

LAVA: a streamlined visualization tool for longitudinal analysis of viral alleles

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  • Site-wide: 89,149
  • In bioinformatics: 7,910
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  • Site-wide: 102,365
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  • Site-wide: 84,436

Estimation of Full-Length TprK Diversity in Treponema pallidum subspecies pallidum

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  • Site-wide: 91,722
  • In microbiology: 6,667
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  • Site-wide: 67,264

Sensitive detection of highly fragmented cytomegalovirus nucleic acid in human cfDNA

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  • Site-wide: 92,264
  • In microbiology: 6,736
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  • Site-wide: 99,033
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  • Site-wide: 92,212

Prospective real-time metagenomic sequencing during norovirus outbreak reveals discrete transmission clusters

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  • Site-wide: 92,849
  • In genomics: 5,705
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  • Site-wide: 119,728

Inherited chromosomally integrated HHV-6 demonstrates tissue-specific RNA expression in vivo that correlates with increased antibody immune response.

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  • Site-wide: 94,159
  • In genomics: 5,744
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Comparative Genomics and Full-Length TprK Profiling of Treponema pallidum subsp. pallidum Reinfection

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  • In microbiology: 7,745
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Phenotypic and Genotypic Antiviral Resistance Testing of HSV-1 Causing Recurrent Cutaneous Lesions in a Patient with DOCK8 Deficiency

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  • In genomics: 6,192
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Herpes Simplex Virus Mistyping due to HSV-1 x HSV-2 Interspecies Recombination in Viral Gene Encoding Glycoprotein B

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  • In genomics: 6,308
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  • Site-wide: 104,232
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  • Site-wide: 115,969

Rapid adaptation to human protein kinase R by a unique genomic rearrangement in rhesus cytomegalovirus.

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  • In microbiology: 9,641
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  • Site-wide: 98,138
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  • Site-wide: 49,470

Liver immune abnormalities persist after cure of Hepatitis C Virus by anti-viral therapy

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