Chiu, Charles Y.

Clinical metagenomics

Chiu, C. Y., & Miller, S. A. (2019) · Nature Reviews Genetics

Bacterial Identification and Susceptibility TestingGenomics and Phylogenetic Studies

Cited by 1,620

Clinical Metagenomic Next-Generation Sequencing for Pathogen Detection

Gu, W., Miller, S., & Chiu, C. Y. (2019) · Annual Review of Pathology: Mechanisms of Disease

Bacterial Identification and Susceptibility TestingGenomics and Phylogenetic Studies

Cited by 1,458

Clinical Metagenomic Sequencing for Diagnosis of Meningitis and Encephalitis

Wilson, M. R., Sample, H. A., Zorn, K. C., Arevalo, S., Yu, G., Neuhaus, J., Federman, S., Stryke, D., Briggs, B., Langelier, C., et al. (2019) · New England Journal of Medicine

Bacterial Identification and Susceptibility TestingBacterial Infections and Vaccines

Cited by 1,067

Actionable Diagnosis of Neuroleptospirosis by Next-Generation Sequencing

Wilson, M. R., Naccache, S. N., Samayoa, E., Biagtan, M., Bashir, H., Yu, G., Salamat, S. M., Somasekar, S., Federman, S., Miller, S., et al. (2014) · New England Journal of Medicine

Leptospirosis research and findingsBacterial Identification and Susceptibility Testing

Cited by 977

Transmission, infectivity, and antibody neutralization of an emerging SARS-CoV-2 variant in California carrying a L452R spike protein mutation

Deng, X., Garcia-Knight, M. A., Khalid, M. M., Servellita, V., Wang, C., Morris, M. K., Sotomayor-González, A., Glasner, D. R., Reyes, K. R., Gliwa, A. S., et al. (2021) · Cell

SARS-CoV-2 and COVID-19 ResearchCOVID-19 Clinical Research Studies

Cited by 651

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

Deng, X., Garcia-Knight, M. A., Khalid, M. M., Servellita, V., Wang, C., Morris, M. K., Sotomayor-González, A., Glasner, D. R., Reyes, K. R., Gliwa, A. S., et al. (2021) · Cell

SARS-CoV-2 and COVID-19 ResearchCOVID-19 Clinical Research Studies

Cited by 651

Establishment and cryptic transmission of Zika virus in Brazil and the Americas

Faria, N. R., Quick, J., Claro, I. M., Thézé, J., de Jesus, J. G., Giovanetti, M., Kraemer, M. U. G., Hill, S. C., Black, A., da Costa, A. C., et al. (2017) · Nature

Mosquito-borne diseases and controlViral Infections and Vectors

Cited by 616

Rapid metagenomic identification of viral pathogens in clinical samples by real-time nanopore sequencing analysis

Greninger, A. L., Naccache, S. N., Federman, S., Yu, G., Mbala, P., Bres, V., Stryke, D., Bouquet, J., Somasekar, S., Linnen, J. M., et al. (2015) · Genome Medicine

Genomics and Phylogenetic StudiesViral Infections and Outbreaks Research

Cited by 558

Validation of Metagenomic Next-Generation Sequencing Tests for Universal Pathogen Detection

Schlaberg, R., Chiu, C. Y., Miller, S., Procop, G. W., Weinstock, G., the Professional Practice Committee and Committee on Laboratory Practices of the American Society for Microbiology, & the Microbiology Resource Committee of the College of American Pathologists (2017) · Archives of Pathology & Laboratory Medicine

Bacterial Identification and Susceptibility TestingGenomics and Phylogenetic Studies

Cited by 550

A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples

Naccache, S. N., Federman, S., Veeraraghavan, N., Zaharia, M., Lee, D., Samayoa, E., Bouquet, J., Greninger, A. L., Luk, K.-C., Enge, B., et al. (2014) · Genome Research

Genomics and Phylogenetic StudiesBacterial Identification and Susceptibility Testing

Cited by 460

Integrating host response and unbiased microbe detection for lower respiratory tract infection diagnosis in critically ill adults

Langelier, C., Kalantar, K. L., Moazed, F., Wilson, M. R., Crawford, E. D., Deiss, T., Belzer, A., Bolourchi, S., Caldera, S., Fung, M., et al. (2018) · Proceedings of the National Academy of Sciences

Bacterial Identification and Susceptibility TestingPneumonia and Respiratory Infections

Cited by 411

Diagnosis of Neuroinvasive Astrovirus Infection in an Immunocompromised Adult With Encephalitis by Unbiased Next-Generation Sequencing

Naccache, S. N., Peggs, K. S., Mattes, F. M., Phadke, R., Garson, J. A., Grant, P., Samayoa, E., Federman, S., Miller, S., Lunn, M. P., et al. (2015) · Clinical Infectious Diseases

Infectious Encephalopathies and EncephalitisViral gastroenteritis research and epidemiology

Cited by 294

Viral Infection in Acute Exacerbation of Idiopathic Pulmonary Fibrosis

Wootton, S. C., Kim, D. S., Kondoh, Y., Chen, E., Lee, J. S., Song, J. W., Huh, J. W., Taniguchi, H., Chiu, C., Boushey, H., et al. (2011) · American Journal of Respiratory and Critical Care Medicine

Interstitial Lung Diseases and Idiopathic Pulmonary FibrosisOccupational and environmental lung diseases

Cited by 285

A metagenomic analysis of pandemic influenza A (2009 H1N1) infection in patients from North America

Greninger, A. L., Chen, E. C., Sittler, T., Scheinerman, A., Roubinian, N., Yu, G., Kim, E., Pillai, D. R., Guyard, C., Mazzulli, T., et al. (2010) · PLoS ONE

Influenza Virus Research StudiesGenomics and Phylogenetic Studies

Cited by 193

Toward an understanding of changes in diversity associated with fecal microbiome transplantation based on 16S rRNA gene deep sequencing

Shahinas, D., Silverman, M., Sittler, T., Chiu, C., Kim, P., Allen-Vercoe, E., Weese, S., Wong, A., Low, D. E., & Pillai, D. R. (2012) · mBio

Clostridium difficile and Clostridium perfringens researchGut microbiota and health

Cited by 191

SARS-CoV-2 antibody magnitude and detectability are driven by disease severity, timing, and assay

Peluso, M. J., Takahashi, S., Hakim, J., Kelly, J. D., Torres, L., Iyer, N. S., Turcios, K., Janson, O., Munter, S. E., Thanh, C., et al. (2021) · Science Advances

SARS-CoV-2 and COVID-19 ResearchSARS-CoV-2 detection and testing

Cited by 130

Genomic Epidemiology Reconstructs the Introduction and Spread of Zika Virus in Central America and Mexico

Thézé, J., Li, T., du Plessis, L., Bouquet, J., Kraemer, M. U. G., Somasekar, S., Yu, G., de Cesare, M., Balmaseda, A., Kuan, G., et al. (2018) · Cell Host & Microbe

Mosquito-borne diseases and controlViral Infections and Vectors

Cited by 106

Longitudinal Transcriptome Analysis Reveals a Sustained Differential Gene Expression Signature in Patients Treated for Acute Lyme Disease

Bouquet, J., Soloski, M. J., Swei, A., Cheadle, C., Federman, S., Billaud, J.-N., Rebman, A. W., Kabre, B., Halpert, R., Boorgula, M., et al. (2016) · mBio

Vector-borne infectious diseasesBrucella: diagnosis, epidemiology, treatment

Cited by 101

RNA-seq analysis of gene expression, viral pathogen, and B-cell/T-cell receptor signatures in complex chronic disease

Bouquet, J., Gardy, J. L., Brown, S., Pfeil, J., Miller, R. R., Morshed, M., Avina-Zubieta, A., Shojania, K., McCabe, M., Parker, S., et al. (2017) · Clinical Infectious Diseases

Fibromyalgia and Chronic Fatigue Syndrome ResearchLong-Term Effects of COVID-19

Cited by 25