Keith E. Simmon
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View article: Clinical validation of a real‐time machine learning‐based system for the detection of acute myeloid leukemia by flow cytometry
Clinical validation of a real‐time machine learning‐based system for the detection of acute myeloid leukemia by flow cytometry Open
Machine‐learning (ML) models in flow cytometry have the potential to reduce error rates, increase reproducibility, and boost the efficiency of clinical labs. While numerous ML models for flow cytometry data have been proposed, few studies …
View article: Clinical Validation of a Real-Time Machine Learning-based System for the Detection of Acute Myeloid Leukemia by Flow Cytometry
Clinical Validation of a Real-Time Machine Learning-based System for the Detection of Acute Myeloid Leukemia by Flow Cytometry Open
Machine-learning (ML) models in flow cytometry have the potential to reduce error rates, increase reproducibility, and boost the efficiency of clinical labs. While numerous ML models for flow cytometry data have been proposed, few studies …
View article: Development and validation of a next-generation sequencing assay with open-access analysis software for detecting resistance-associated mutations in CMV
Development and validation of a next-generation sequencing assay with open-access analysis software for detecting resistance-associated mutations in CMV Open
Cytomegalovirus (CMV) resistance testing by targeted next-generation sequencing (NGS) allows for the simultaneous analysis of multiple genes. We developed and validated an amplicon-based Ion Torrent NGS assay to detect CMV resistance mutat…
View article: HIV-1 Drug Resistance Assay Using Ion Torrent Next Generation Sequencing and On-Instrument End-to-End Analysis Software
HIV-1 Drug Resistance Assay Using Ion Torrent Next Generation Sequencing and On-Instrument End-to-End Analysis Software Open
HIV-1 antiretroviral therapy management requires sequencing the protease, reverse transcriptase, and integrase portions of the HIV-1 pol gene. Most resistance testing is performed with Sanger sequencing, which has limited ability to detect…
View article: 644. Phenotypic and Genomic Analysis of Novel, Fastidious, Gram-negative Bacilli Isolated from Clinical Wound Specimens
644. Phenotypic and Genomic Analysis of Novel, Fastidious, Gram-negative Bacilli Isolated from Clinical Wound Specimens Open
Background Animal bites are considered the thirteenth leading cause of nonfatal ED visits. Epidemiology studies have shown a rise in dog bites during the COVID-19 pandemic in the U.S. In Oct. 2020, we received a facultatively anaerobic, no…
View article: Human Bocavirus Capsid Messenger RNA Detection in Children With Pneumonia
Human Bocavirus Capsid Messenger RNA Detection in Children With Pneumonia Open
Detection of HBoV mRNA but not DNA was associated with CAP, supporting a pathogenic role for HBoV in CAP. HBoV mRNA could be a useful target for diagnostic testing.
View article: Viral Pathogen Detection by Metagenomics and Pan-Viral Group Polymerase Chain Reaction in Children With Pneumonia Lacking Identifiable Etiology
Viral Pathogen Detection by Metagenomics and Pan-Viral Group Polymerase Chain Reaction in Children With Pneumonia Lacking Identifiable Etiology Open
RNA-seq and PVG PCR identified additional viruses, some known to be pathogenic, in NP/OP specimens from one-third of children hospitalized with CAP without a previously identified etiology. Both broad-range methods could be useful tools in…
View article: Taxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression profiling
Taxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression profiling Open
Taxonomer enables rapid, accurate, and interactive analyses of metagenomics data on personal computers and mobile devices.
View article: Unbiased Detection of Respiratory Viruses by Use of RNA Sequencing-Based Metagenomics: a Systematic Comparison to a Commercial PCR Panel
Unbiased Detection of Respiratory Viruses by Use of RNA Sequencing-Based Metagenomics: a Systematic Comparison to a Commercial PCR Panel Open
Current infectious disease molecular tests are largely pathogen specific, requiring test selection based on the patient's symptoms. For many syndromes caused by a large number of viral, bacterial, or fungal pathogens, such as respiratory t…
View article: The Suspected Infected Prosthetic Joint: Clinical Acumen and Added Value of Laboratory Investigations
The Suspected Infected Prosthetic Joint: Clinical Acumen and Added Value of Laboratory Investigations Open
Consensus definitions have emerged for the discrimination between infected and uninfected prosthetic joints but diagnostic uncertainty often occurs. We examined the accuracy of orthopaedic surgeons' assessments to diagnose the infected pro…