| Actionable diagnosis of neuroleptospirosis by next-generation sequencing MR Wilson, SN Naccache, E Samayoa, M Biagtan, H Bashir, G Yu, ... New England Journal of Medicine 370 (25), 2408-2417, 2014 | 963 | 2014 |
| Clinical metagenomic sequencing for diagnosis of meningitis and encephalitis MR Wilson, HA Sample, KC Zorn, S Arevalo, G Yu, J Neuhaus, ... New England Journal of Medicine 380 (24), 2327-2340, 2019 | 866 | 2019 |
| Rapid metagenomic identification of viral pathogens in clinical samples by real-time nanopore sequencing analysis AL Greninger, SN Naccache, S Federman, G Yu, P Mbala, V Bres, ... Genome medicine 7, 1-13, 2015 | 610 | 2015 |
| The gene expression signatures of melanoma progression C Haqq, M Nosrati, D Sudilovsky, J Crothers, D Khodabakhsh, BL Pulliam, ... Proceedings of the National Academy of Sciences 102 (17), 6092-6097, 2005 | 524 | 2005 |
| A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples SN Naccache, S Federman, N Veeraraghavan, M Zaharia, D Lee, ... Genome research 24 (7), 1180-1192, 2014 | 516 | 2014 |
| Rapid pathogen detection by metagenomic next-generation sequencing of infected body fluids W Gu, X Deng, M Lee, YD Sucu, S Arevalo, D Stryke, S Federman, ... Nature medicine 27 (1), 115-124, 2021 | 508 | 2021 |
| Transmission, infectivity, and neutralization of a spike L452R SARS-CoV-2 variant X Deng, MA Garcia-Knight, MM Khalid, V Servellita, C Wang, MK Morris, ... Cell 184 (13), 3426-3437. e8, 2021 | 480 | 2021 |
| Laboratory validation of a clinical metagenomic sequencing assay for pathogen detection in cerebrospinal fluid S Miller, SN Naccache, E Samayoa, K Messacar, S Arevalo, S Federman, ... Genome research 29 (5), 831-842, 2019 | 477 | 2019 |
| A novel outbreak enterovirus D68 strain associated with acute flaccid myelitis cases in the USA (2012–14): a retrospective cohort study AL Greninger, SN Naccache, K Messacar, A Clayton, G Yu, S Somasekar, ... The Lancet Infectious Diseases 15 (6), 671-682, 2015 | 430 | 2015 |
| Nanopore DNA sequencing and genome assembly on the International Space Station SL Castro-Wallace, CY Chiu, KK John, SE Stahl, KH Rubins, ... Scientific reports 7 (1), 18022, 2017 | 401 | 2017 |
| Diagnosis of neuroinvasive astrovirus infection in an immunocompromised adult with encephalitis by unbiased next-generation sequencing SN Naccache, KS Peggs, FM Mattes, R Phadke, JA Garson, P Grant, ... Clinical Infectious Diseases 60 (6), 919-923, 2015 | 329 | 2015 |
| Cryptic transmission of SARS-CoV-2 in Washington state T Bedford, AL Greninger, P Roychoudhury, LM Starita, M Famulare, ... Science 370 (6516), 571-575, 2020 | 313 | 2020 |
| Transmission, infectivity, and antibody neutralization of an emerging SARS-CoV-2 variant in California carrying a L452R spike protein mutation X Deng, MA Garcia-Knight, MM Khalid, V Servellita, C Wang, MK Morris, ... MedRxiv, 2021 | 282 | 2021 |
| Genomic surveillance reveals multiple introductions of SARS-CoV-2 into Northern California X Deng, W Gu, S Federman, L Du Plessis, OG Pybus, NR Faria, C Wang, ... Science 369 (6503), 582-587, 2020 | 279 | 2020 |
| An ensemble strategy that significantly improves de novo assembly of microbial genomes from metagenomic next-generation sequencing data X Deng, SN Naccache, T Ng, S Federman, L Li, CY Chiu, EL Delwart Nucleic acids research 43 (7), e46-e46, 2015 | 258 | 2015 |
| Genes and pathways downstream of telomerase in melanoma metastasis S Bagheri, M Nosrati, S Li, S Fong, S Torabian, J Rangel, DH Moore, ... Proceedings of the National Academy of Sciences 103 (30), 11306-11311, 2006 | 170 | 2006 |
| Metagenomic sequencing with spiked primer enrichment for viral diagnostics and genomic surveillance X Deng, A Achari, S Federman, G Yu, S Somasekar, I Bártolo, S Yagi, ... Nature microbiology 5 (3), 443-454, 2020 | 156 | 2020 |
| Shotgun transcriptome, spatial omics, and isothermal profiling of SARS-CoV-2 infection reveals unique host responses, viral diversification, and drug interactions D Butler, C Mozsary, C Meydan, J Foox, J Rosiene, A Shaiber, D Danko, ... Nature communications 12 (1), 1660, 2021 | 153 | 2021 |
| The eukaryotic gut virome in hematopoietic stem cell transplantation: new clues in enteric graft-versus-host disease J Legoff, M Resche-Rigon, J Bouquet, M Robin, SN Naccache, ... Nature medicine 23 (9), 1080-1085, 2017 | 145 | 2017 |
| Clinical metagenomic identification of Balamuthia mandrillaris encephalitis and assembly of the draft genome: the continuing case for reference genome sequencing AL Greninger, K Messacar, T Dunnebacke, SN Naccache, S Federman, ... Genome medicine 7, 1-14, 2015 | 118 | 2015 |
Charles ChiuProfessor of Laboratory Medicine and Medicine / Infectious Diseases, University of California, SanVerified email at ucsf.edu