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LuNER: Multiplexed SARS-CoV-2 detection in clinical swab and wastewater samples Open

Elizabeth C. Stahl, Allan Gopez, Connor A. Tsuchida, Vinson B. Fan, Erica A. Moehle , et al. · 2022

Clinical and surveillance testing for the SARS-CoV-2 virus relies overwhelmingly on RT-qPCR-based diagnostics, yet several popular assays require 2–3 separate reactions or rely on detection of a single viral target, which adds significant …

LuNER: Multiplexed SARS-CoV-2 detection in clinical swab and wastewater samples Open

Elizabeth C. Stahl, Allan Gopez, Connor A. Tsuchida, Vinson B. Fan, Erica A. Moehle , et al. · 2021

Detection of Neoplasms by Metagenomic Next-Generation Sequencing of Cerebrospinal Fluid Open

Wei Gu, Andreas M. Rauschecker, Elaine Hsu, Kelsey C. Zorn, Yasemin Sucu , et al. · 2021

This case-control study showed that CSF mNGS, which has low specimen volume requirements, does not require the preservation of cell integrity, and was orginally developed to diagnose neurologic infections, can also detect genetic evidence …

Detection of cryptogenic malignancies from metagenomic whole genome sequencing of body fluids Open

Wei Gu, Eric Talevich, Elaine Hsu, Zhongxia Qi, Anatoly Urisman , et al. · 2021

Detection of Neoplasms by Metagenomic Sequencing of Cerebrospinal Fluid Open

Wei Gu, Andreas M. Rauschecker, Elaine Hsu, Kelsey C. Zorn, Yasemin Sucu , et al. · 2021

Importance Malignant neoplasms of the central nervous system (CNS) are frequently not detected by cerebrospinal fluid (CSF) flow cytometry or cytology, and clinical phenotypes can overlap with inflammatory meningoencephalitis. Objective To…

Detection of Cryptogenic Malignancies from Metagenomic Whole Genome Sequencing of Body Fluids Open

Wei Gu, Eric Talevich, Elaine Hsu, Zhongxia Qi, Anatoly Urisman , et al. · 2021

Detection of Cryptogenic Malignancies from Metagenomic Whole Genome Sequencing of Body Fluids Wei Gu^1,2,3,4*, Eric Talevich⁵, Elaine Hsu¹, Zhongxia Qi¹, Anatoly Urisman⁶

Detection of Neoplasms by Metagenomic Sequencing of Cerebrospinal Fluid Open

Wei Gu, Andreas M. Rauschecker, Elaine Hsu, Kelsey C. Zorn, Yasemin Sucu , et al. · 2021

Detection of Neoplasms by Metagenomic Sequencing of Cerebrospinal Fluid Wei Gu, MD, PhD^1,2*, Andreas M. Rauschecker, MD, PhD³, Elaine Hsu, BS¹, Kelsey C. Zorn, BS⁴, Yasemin Sucu, BS¹, …

Detection of Neoplasms by Metagenomic Sequencing of Cerebrospinal Fluid Open

Wei Gu, Andreas M. Rauschecker, Elaine Hsu, Kelsey C. Zorn, Yasemin Sucu , et al. · 2021

Detection of Neoplasms by Metagenomic Sequencing of Cerebrospinal Fluid Wei Gu^1,2*, Andreas M. Rauschecker³, Elaine Hsu¹, Kelsey C. Zorn⁴, Yasemin Sucu¹, Scot Federman¹, All…

Detection of Neoplasms by Metagenomic Sequencing of Cerebrospinal Fluid Open

Wei Gu, Andreas M. Rauschecker, Elaine Hsu, Kelsey C. Zorn, Yasemin Sucu , et al. · 2021

Detection of Neoplasms by Metagenomic Sequencing of Cerebrospinal Fluid Wei Gu, MD, PhD^1,2*, Andreas M. Rauschecker, MD, PhD³, Elaine Hsu, BS¹, Kelsey C. Zorn, BS⁴, Yasemin Sucu, BS¹, …

A diagnostic host response biosignature for COVID-19 from RNA profiling of nasal swabs and blood Open

Dianna Ng, Andrea Granados, Yale Santos, Venice Servellita, Gregory M. Goldgof , et al. · 2021

SARS-CoV-2 infection elicits a distinct host response in nasal swabs and blood that can be used to diagnose COVID-19.

Digital droplet PCR accurately quantifies SARS-CoV-2 viral load from crude lysate without nucleic acid purification Open

Harish N. Vasudevan, Peng Xu, Venice Servellita, Steve Miller, Leqian Liu , et al. · 2021

Additional file 2 of Detection of cryptogenic malignancies from metagenomic whole genome sequencing of body fluids Open

Wei Gu, Eric Talevich, Elaine Hsu, Zhongxia Qi, Anatoly Urisman , et al. · 2021

Additional file 2: Table S1. Body fluid samples from patients positive for malignancy by cytology and/or flow cytometry.

Additional file 3 of Detection of cryptogenic malignancies from metagenomic whole genome sequencing of body fluids Open

Wei Gu, Eric Talevich, Elaine Hsu, Zhongxia Qi, Anatoly Urisman , et al. · 2021

Additional file 3: Table S2. Select microbiological cases that have overlapping features with cancer presentations.

Additional file 4 of Detection of cryptogenic malignancies from metagenomic whole genome sequencing of body fluids Open

Wei Gu, Eric Talevich, Elaine Hsu, Zhongxia Qi, Anatoly Urisman , et al. · 2021

Additional file 4: Table S3. Microbiological cases - all other cases.

Additional file 5 of Detection of cryptogenic malignancies from metagenomic whole genome sequencing of body fluids Open

Wei Gu, Eric Talevich, Elaine Hsu, Zhongxia Qi, Anatoly Urisman , et al. · 2021

Additional file 5: Table S4. Verification cohort.

Rapid pathogen detection by metagenomic next-generation sequencing of infected body fluids Open

Wei Gu, Xianding Deng, Marco Lee, Yasemin Sucu, Shaun Arevalo , et al. · 2020

Digital droplet PCR accurately quantifies SARS-CoV-2 viral load from crude lysate without nucleic acid purification Open

Harish N. Vasudevan, Peng Xu, Venice Servellita, Steve Miller, Leqian Liu , et al. · 2020

The COVID-19 pandemic caused by the SARS-CoV-2 virus motivates diverse diagnostic approaches due to the novel causative pathogen, incompletely understood clinical sequelae, and limited availability of testing resources. Given the variabili…

Direct Comparison of SARS-CoV-2 Analytical Limits of Detection across Seven Molecular Assays Open

Becky Fung, Allan Gopez, Venice Servellita, Shaun Arevalo, Coral Ho , et al. · 2020

Analytical sensitivity for SARS-CoV-2 detection is a key performance metric for the evaluation of viral detection assays. We determined analytical limits of detection for seven SARS-CoV-2 assays using serial dilutions of pooled patient mat…

Genomic surveillance reveals multiple introductions of SARS-CoV-2 into Northern California Open

Xianding Deng, Wei Gu, Scot Federman, Louis du Plessis, Oliver G. Pybus , et al. · 2020

Epidemic in Northern California Genome sequencing of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) outbreaks is valuable for tracing the sources and perhaps for drawing lessons about preventing future outbreaks. Genomic anal…

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

James P. Broughton, Xianding Deng, Guixia Yu, Clare L. Fasching, Venice Servellita , et al. · 2020

A Genomic Survey of SARS-CoV-2 Reveals Multiple Introductions into Northern California without a Predominant Lineage Open

Xianding Deng, Wei Gu, Scot Federman, Louis du Plessis, Oliver G. Pybus , et al. · 2020

The COVID-19 pandemic caused by the novel coronavirus SARS-CoV-2 has spread globally, resulting in >300,000 reported cases worldwide as of March 21st, 2020. Here we investigate the genetic diversity and genomic epidemiology of SARS-CoV-2 i…

Rapid Detection of 2019 Novel Coronavirus SARS-CoV-2 Using a CRISPR-based DETECTR Lateral Flow Assay Open

James P. Broughton, Xianding Deng, Guixia Yu, Clare L. Fasching, Jasmeet Singh , et al. · 2020

An outbreak of novel betacoronavirus, SARS-CoV-2 (formerly named 2019-nCoV), began in Wuhan, China in December 2019 and the COVID-19 disease associated with infection has since spread rapidly to multiple countries. Here we report the devel…