Estimation of secondary household attack rates for emergent spike L452R SARS-CoV-2 variants detected by genomic surveillance at a community-based testing site in San Francisco.Clin Infect Dis. 2021
Performance Characteristics of a Rapid SARS-CoV-2 Antigen Detection Assay at a Public Plaza Testing Site in San FranciscoJ. of Infect. Disease, 2020
Rapid deployment of SARS-CoV-2 testing: The CLIAHUBPLOS Pathogens, 2020
Community Transmission of Severe Acute Respiratory Syndrome Coronavirus 2 Disproportionately Affects the Latinx Population During Shelter-in-Place in San FranciscoInfectious Disease Society of America, 2020
IDseq-An open source cloud-based pipeline and analysis service for metagenomic pathogen detection and monitoringOxford Academic, 2020
Temporal airway microbiome changes related to ventilator associated pneumonia in childrenEuropean Respiratory Journal, 2020
ReScan, a Multiplex Diagnostic Pipeline, Pans Human Sera for SARS-CoV-2 AntigensCell Reports Medicine, 2020
vFam is a HMMER3 database of profile hidden Markov models (HMMs) built from all the viral proteins present in RefSeq. Use of the vFam database may provide greater sensitivity for the detection of highly divergent viral proteins than the use of traditional alignment tools, such as BLAST. Click here to go to the vFam download page.