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Shaun Arevalo
Researcher at University of California, San Francisco
Publications - 12
Citations - 1464
Shaun Arevalo is an academic researcher from University of California, San Francisco. The author has contributed to research in topics: Metagenomics & Malignancy. The author has an hindex of 8, co-authored 12 publications receiving 625 citations. Previous affiliations of Shaun Arevalo include Boston Children's Hospital.
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Journal ArticleDOI
Clinical Metagenomic Sequencing for Diagnosis of Meningitis and Encephalitis
Michael R. Wilson,Hannah A. Sample,Kelsey C. Zorn,Shaun Arevalo,Guixia Yu,John Neuhaus,Scot Federman,Doug Stryke,Benjamin Briggs,Charles Langelier,Amy C. Berger,Vanja C. Douglas,S. Andrew Josephson,Felicia C. Chow,Brent D. Fulton,Joseph L. DeRisi,Jeffrey M. Gelfand,Samia N. Naccache,Jeffrey M. Bender,Jennifer Dien Bard,Jamie A. Murkey,Magrit Carlson,Paul M. Vespa,Tara Vijayan,Paul R Allyn,Shelley Campeau,Romney M. Humphries,Jeffrey D. Klausner,Czarina Ganzon,Fatemeh Memar,Nicolle Anne Ocampo,Lara Zimmermann,Stuart H. Cohen,Christopher R. Polage,Roberta L. DeBiasi,Barbara Haller,Ronald H. Dallas,Gabriela Maron,Randall T. Hayden,Kevin Messacar,Samuel R. Dominguez,Steve Miller,Charles Y. Chiu +42 more
TL;DR: Routine microbiologic testing is often insufficient to detect all neuroinvasive pathogens, so metagenomic NGS of CSF obtained from patients with meningitis or encephalitis improved diagnosis of neurologic infections and provided actionable information in some cases.
Journal ArticleDOI
Laboratory validation of a clinical metagenomic sequencing assay for pathogen detection in cerebrospinal fluid
Steve Miller,Samia N. Naccache,Samia N. Naccache,Erik Samayoa,Kevin Messacar,Shaun Arevalo,Scot Federman,Doug Stryke,Elizabeth Pham,Becky Fung,William J. Bolosky,Danielle Ingebrigtsen,Walter Lorizio,Sandra M. Paff,John A. Leake,Rick L. Pesano,Roberta L. DeBiasi,Samuel R. Dominguez,Charles Y. Chiu +18 more
TL;DR: The analytic performance of a laboratory-validated mNGS assay for pan-pathogen detection, to be used clinically for diagnosis of neurological infections from CSF, is demonstrated.
Journal ArticleDOI
Rapid pathogen detection by metagenomic next-generation sequencing of infected body fluids.
Wei Gu,Xianding Deng,Marco Lee,Yasemin D. Sucu,Shaun Arevalo,Doug Stryke,Scot Federman,Allan Gopez,Kevin Reyes,Kelsey C. Zorn,Hannah A. Sample,Guixia Yu,Gurpreet Ishpuniani,Benjamin Briggs,Eric D. Chow,Amy C. Berger,Michael R. Wilson,Candace Wang,Elaine Hsu,Steve Miller,Joseph L. DeRisi,Charles Y. Chiu +21 more
TL;DR: A universal method enables high-specificity, unbiased pathogen detection from diverse body fluids using metagenomic sequencing and may accelerate clinical decisions.
Posted ContentDOI
Laboratory Validation of a Clinical Metagenomic Sequencing Assay for Pathogen Detection in Cerebrospinal Fluid
Steve Miller,Samia N. Naccache,Erik Samayoa,Kevin Messacar,Shaun Arevalo,Scot Federman,Doug Stryke,Elizabeth Pham,Becky Fung,William J. Bolosky,Danielle Ingebrigtsen,Walter Lorizio,Sandra M. Paff,John A. Leake,Rick L. Pesano,Roberta L. DeBiasi,Samuel R. Dominguez,Charles Y. Chiu +17 more
TL;DR: The results demonstrate the analytic performance of a laboratory-validated mNGS assay for pan-pathogen detection, to be used clinically for diagnosis of neurological infections from CSF, and quality metrics, threshold values, and limits of detection were established.
Journal ArticleDOI
Metagenomic sequencing with spiked primer enrichment for viral diagnostics and genomic surveillance
Xianding Deng,Asmeeta Achari,Scot Federman,Guixia Yu,Sneha Somasekar,Inês Bártolo,Shigeo Yagi,Placide Mbala-Kingebeni,Jimmy Kapetshi,Steve Ahuka-Mundeke,Jean-Jacques Muyembe-Tamfum,Asim A. Ahmed,Asim A. Ahmed,Vijay S. Ganesh,Manasi Tamhankar,Jean L. Patterson,Nicaise Ndembi,Dora Mbanya,Dora Mbanya,Lazare Kaptue,Carole McArthur,José Esteban Muñoz-Medina,César González-Bonilla,Susana López,Carlos F. Arias,Shaun Arevalo,Steve Miller,Mars Stone,Michael P. Busch,Kristina Hsieh,Sharon Messenger,Debra A. Wadford,Mary A. Rodgers,Gavin Cloherty,Nuno R. Faria,Julien Thézé,Oliver G. Pybus,Zoraima Neto,Joana Morais,Nuno Taveira,John R. Hackett,Charles Y. Chiu +41 more
TL;DR: A new method is described that improves the sensitivity of viral detection compared with next-generation sequencing and enables the detection of emerging flaviviruses not specifically targeted a priori.