A5088711063- HIV/AIDS drug development and treatment
- Hepatitis B Virus Studies
- CRISPR and Genetic Engineering
- Molecular Biology Techniques and Applications
- Hepatitis C virus research
- HIV Research and Treatment
- Cervical Cancer and HPV Research
- HIV/AIDS Research and Interventions
- RNA and protein synthesis mechanisms
- BRCA gene mutations in cancer
- Biosensors and Analytical Detection
- Viral Infections and Immunology Research
- Poxvirus research and outbreaks
- Bacillus and Francisella bacterial research
- Genomics and Phylogenetic Studies
- Liver Disease Diagnosis and Treatment
- Genomic variations and chromosomal abnormalities
- Herpesvirus Infections and Treatments
- AI in cancer detection
- Chemical and Physical Properties in Aqueous Solutions
- Antibiotics Pharmacokinetics and Efficacy
- SARS-CoV-2 detection and testing
- Neurological Disease Mechanisms and Treatments
- Cancer Genomics and Diagnostics
- Genomics and Chromatin Dynamics
ARUP Laboratories (United States)
2013-2024
ARUP Institute for Clinical and Experimental Pathology
2009-2023
University of Utah
2009
Myriad (Germany)
2003
Myriad Genetics
1999-2000
The University of Texas Health Science Center at San Antonio
1996
The University of Texas Health Science Center at Houston
1996
Brigham Young University
1996
ABSTRACT The genetic diversity of human immunodeficiency virus type 1 (HIV-1) has significant implications for diagnosis, vaccine development, and clinical management patients. Although HIV-1 subtype B is predominant in the United States, factors such as global travel, immigration, military deployment have potential to increase proportion non-subtype infections. Limited data are available on prevalence distribution non-B strains States. We sought retrospectively examine prevalence,...
Cytomegalovirus (CMV) resistance testing by targeted next-generation sequencing (NGS) allows for the simultaneous analysis of multiple genes. We developed and validated an amplicon-based Ion Torrent NGS assay to detect CMV mutations in UL27, UL54, UL56, UL97 compared results standard Sanger sequencing. primers were designed generate 83 overlapping amplicons four genes (~10 kb encompassing 138 mutation sites). An open-access software plugin was perform read alignment, call variants, interpret...
Infections with HIV-1 group M subtype B viruses account for the majority of HIV epidemic in Western world. Phylogeographic studies have placed introduction United States New York around 1970, where it grew into a major source spread. Currently, is estimated that over one million people are living US and most infected variants. Here, we aim to identify drivers dispersal by analyzing collection 23,588 pol sequences, collected drug resistance testing from 45 states during 2004–2011. To this...
ABSTRACT The accurate and sensitive measurement of hepatitis C virus (HCV) RNA is essential for the clinical management treatment infected patients as a research tool studying biology HCV infection. We evaluated linearity, reproducibility, precision, limit detection, concordance viral genotype quantitation Abbott investigational use only RealTi m e (RealTi e) assay using 2000 platform compared results to those Roche TaqMan Analyte-Specific Reagent (TaqMan) Bayer Versant bDNA 3.0 assay....
The mpox pandemic necessitated the rapid development of clinical assays for monkeypox virus detection. While majority specimens have high viral loads with corresponding early cycle threshold (CT) values, reports indicated some late CT values can represent false positive results. To mitigate this risk, Centers Disease Control and Prevention (CDC) published an advisory recommending repeat testing all ≥34. However, limited experimental data were available to support specific cutoff. In study,...
Two FDA-approved (in vitro diagnostic [IVD]) hepatitis B virus (HBV) viral load assays, the manual Cobas TaqMan HBV Test for use with High Pure System (HP) and automated AmpliPrep/Cobas v2.0 (CAP/CTM), were compared to a modified (not FDA-approved) version of HP assay by automating DNA extraction using Total Nucleic Acid Isolation (TNAI) kit on AmpliPrep. On average, CAP/CTM measurements 0.08 log IU/ml higher than results (n = 206), TNAI 0.17 166). The limit detection (LOD), as determined...
ABSTRACT We evaluated the FDA-approved Roche Cobas AmpliPrep/Cobas TaqMan (CAP/CTM) HIV-1 viral load assay for sensitivity, reproducibility, linearity, subtype detection, and correlation to Amplicor monitor test, version 1.5 (Amplicor). The limit of detection calculated by probit analysis was 23.8 copies/ml using 2nd International WHO Standard 30.8 Viral Quality Assurance (VQA) standard material. Serial dilutions six patient samples were used determine inter- intra-assay reproducibility...
HIV-1 antiretroviral therapy management requires sequencing the protease, reverse transcriptase, and integrase portions of pol gene. Most resistance testing is performed with Sanger sequencing, which has limited ability to detect minor variants. Next generation (NGS) platforms enable variant detection at frequencies as low 1% allowing for earlier modification therapy. Implementation NGS assays in clinical laboratory hindered by complicated assay design, cumbersome wet bench procedures,...
Results and conclusions are presented that characterize BRCA1 IVS16+6T-->C as a deleterious mutation. transcripts from peripheral blood mononuclear cells of breast cancer patient with the transition show loss heterozygous base within codon 871. Additionally, an aberrant RNA splicing product which incorporates 69 bases 5' end intron 16 at junction exons 17 is produced solely allele IVS16+6T-->C. This insertion contains two in-frame stop codons encodes protein truncated residue 1662 (plus 13...
Chronic hypertension has been reported to produce adverse cognitive effects in elderly individuals, perhaps by altering central nervous system hemodynamics. The beneficial or of antihypertensive drugs on these processes are not well understood. We examined the catopril (90 mg/kg/day) and propranolol (80 function brain blood flow hypertensive normotensive rats. Cognitive was assessed Morris water maze, regional measured [14C]iodoantipyrine method. Nineteen-month-old propranolol-treated rats...
Sequencing-based pathogen identification directly from clinical specimens requires time-consuming interpretation, especially with mixed chromatograms when multiple microorganisms are detected. We assessed RipSeq Mixed software for human papillomavirus (HPV) genotyping by comparison to the linear array HPV assay. provided rapid, sequencing-based typing single-type infections and coinfections 2 types.
The accurate detection and typing of high-risk human papillomavirus (HPV) are critical for cervical cancer screening. Hybrid Capture 2 (hc2) cobas HPV tests showed high agreement samples (94.4%, κ=0.72, n=693) moderate vaginal (κ=0.62, n=108). HPV16 HPV18 results were highly consistent between the Linear Array (κ≥0.96, n=197). Three hc2-negative repeatedly invalid by test due to β-globin control failures, highlighting amplification benefits. No cross-contamination was detected in a challenge...
None of the commercial HPV tests are U.S. FDA-approved for testing cervical cytology specimens in SurePath preservative. Still, ~30% is performed on this formalin-containing Formalin-induced DNA fragmentation and cross-linking may interfere with detection. We evaluated analytical sensitivity specimen stability cobas 4800 (Roche) Hybrid Capture 2 (HC2, Qiagen) residual samples preservative available within 1 week collection. Cobas was without heating at 120°C 20 min diluted 1:1 an alkaline...