|Genomic assays for identification of chikungunya virus in blood donors, Puerto Rico, 2014
Emerging Infectious Diseases 2015
|A novel outbreak enterovirus D68 strain associated with acute flaccid myelitis cases in the United States from 2012-2014
Lancet Infectious Diseases
|Diagnosis of neuroinvasive astrovirus infection in an immuno- compromised adult with encephalitis by unbiased next-generation sequencing
Clinical Infectious Diseases 2015
|Actionable diagnosis of neuroleptospirosis by next-generation sequencing
New England Journal of Medicine 2014
|A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples
Genome Research 2014
|The perils of pathogen discovery: origin of a novel parvovirus-like hybrid genome traced to nucleic acid extraction columns
Journal of Virology 2013
|Experimental cross-species infection of common marmosets by titi monkey adenovirus
PloS ONE 2013
|The genome sequence of Lone Star virus, a highly divergent bunyavirus found in the Amblyomma americanum tick
PLoS ONE 2013
|A novel adenovirus species associated with an acute respiratory outbreak in a baboon colony and evidence of coincident human infection
|The mitochondrial genome and a 60kb nuclear DNA segment from Naegleria fowleri, the causative agent of primary amoebic meningoencephalitis
J Euk Microbiol 2013
|Discovery of a novel polyomavirus in acute diarrheal samples from children
PloS ONE 2013
|A novel rhabdovirus associated with acute hemorrhagic fever in Africa
PLoS Pathogens 2012
|In-depth investigation of archival and prospectively collected samples reveals no evidence for XMRV infection in prostate cancer
PLoS ONE 2012
|Cross-species transmission of a novel adenovirus associated with a fulminant pneumonia outbreak in a titi monkey colony
PLoS Pathogens 2011
|A metagenomic analysis of pandemic influenza A (2009 H1N1) infection in patients from North America
PLoS ONE 2010
Cultivation and serological characterization of a human Theiler's-like cardiovirus associated with diarrheal disease J Virol 2010
Welcome to the UCSF Viral Diagnostics and Discovery Center (VDDC) and Chiu Laboratory at UCSF China Basin! The UCSF VDDC is a core facility for viral diagnostics arising from a multi-year collaborative agreement between UCSF and Abbott Laboratories.
Precision Diagnosis of Acute Infectious Diseases (PDAID)
Current tests in clinical microbiology fail to diagnose many life-threatening infections in a timely fashion, resulting in increased health care costs and likelihood of death. At UCSF, we have developed and clinically validated a metagenomic next-generation sequencing (mNGS) assay to reveal the cause of unknown infections that commonly elude physicians. This is a "needle-in-a-haystack" approach that allows us to identify all potential pathogens -- viruses, bacteria, fungi, and parasites -- in a single sequencing test. Powered by SURPI for computational analysis, we have as of June 2016 completed clinical laboratory validation of this assay for diagnosis of encephalitis and meningitis from cerebrospinal fluid (CSF). From June 2016 to June 2017, we will enroll and sequence CSF from 300 hospitalized patients in a prospective multi-center study to evaluate the clinical utility and cost-effectiveness of this mNGS laboratory-developed test.
Collaborators on the PDAID study (PI Chiu) include UC Davis, UCLA, Children's Hospital Colorado, Children's Hospital Los Angeles, Children's National Medical Center, St. Jude's Children Research Hospital, UC Berkeley, DNAnexus, Syapse, Google, Quest Diagnostics, Illumina, and the California Department of Public Health. This study is funded by the California Initiative to Advance Precision Medicine and philanthropic grants from the Sandler, Bowes, and Schwab Foundations.
New strain of enterovirus may have caused mystery paralysis
The New York Times, March 30th, 2015
NBC News, March 30th, 2015
The Washington Post, March 30th, 2015
UCSF, March 30th, 2015
Wired, March 30th, 2015
Denver Post, March 30th, 2015
KCBS in-depth: understanding the facts about the Ebola outbreak
Now that Ebola has made its way to the United States, medical experts are working hard to quell fear by offering the facts we know about the virus and how it is spread.
Basic Facts about Ebola
Amid questions and concerns over the recent cases of the deadly Ebola virus in the United States, KPIX 5’s interview with Dr. Charles Chiu, an expert on infectious diseases at University of California at San Francisco may provide answers.
Diagnosis of neuroleptospirosis by next-generation sequencing (June 5th, 2014)
Experimental DNA test helps diagnose teen from Cottage Grove, Wisconsin
Next-generation genomic sequencing tests for viruses, bacteria, fungi (June 11th, 2014).
Developed by the Chiu laboratory, SURPI is a new bioinformatics pipeline for rapid pathogen identification from next-generation sequencing data (June 4th, 2014).
CNN Erin Burnett Outfront
Yosemite warns of deadly virus linked to rodents (September 11th, 2012).
Virus mutation: California Academy of Sciences
Scientists are working hard to keep up on how viruses mutate especially with the recent outbreak of the H1N1 influenza virus (June 30, 2009).