A5021420987- Physiological and biochemical adaptations
- Cancer Genomics and Diagnostics
- Fish biology, ecology, and behavior
- Molecular Biology Techniques and Applications
- Fish Biology and Ecology Studies
- Extracellular vesicles in disease
- MicroRNA in disease regulation
- Mitochondrial Function and Pathology
- Genetics, Aging, and Longevity in Model Organisms
- Fish Ecology and Management Studies
- Acute Myeloid Leukemia Research
- Radiomics and Machine Learning in Medical Imaging
- Evolution and Genetic Dynamics
- Reproductive biology and impacts on aquatic species
- Colorectal Cancer Treatments and Studies
- Cancer-related molecular mechanisms research
- Cholangiocarcinoma and Gallbladder Cancer Studies
- Aquaculture Nutrition and Growth
- Vitamin D Research Studies
- Circadian rhythm and melatonin
- BRCA gene mutations in cancer
- Single-cell and spatial transcriptomics
- RNA Research and Splicing
- Developmental Biology and Gene Regulation
- Bat Biology and Ecology Studies
Providence College
2021-2025
St. Joseph Health System
2021-2025
Oregon Health & Science University
2018-2023
Portland State University
2000-2018
Abstract Cell-free RNA (cfRNA) in plasma reflects phenotypic alterations of both localized sites cancer and the systemic host response. Here we report that cfRNA sequencing enables discovery messenger (mRNA) biomarkers with tissue origin-specific to types precancerous conditions solid hematologic malignancies. To explore diagnostic potential total from blood, sequenced samples eight hepatocellular carcinoma (HCC) ten multiple myeloma (MM) patients, 12 patients their respective conditions, 20...
The mechanisms that integrate environmental signals into developmental programs remain largely uncharacterized. Nuclear receptors (NRs) are ligand-regulated transcription factors orchestrate the expression of complex phenotypes. vitamin D receptor (VDR) is an NR activated by 1α,25-dihydroxyvitamin 3 [1,25(OH) 2 ], a hormone derived from 7-dehydrocholesterol (7-DHC). VDR signaling best known for regulating calcium homeostasis in mammals, but recent evidence suggests diversity uncharacterized...
Austrofundulus limnaeus is an annual killifish from the Maracaibo basin of Venezuela. Annual killifishes are unique among vertebrates in their ability to enter into a state dormancy at up three distinct developmental stages termed diapause I, II, and III. These embryos tolerant wide variety environmental stresses develop relatively slowly compared with nonannual fishes.These traits make them excellent model for research on interactions between genome environment during development, choice...
The annual killifish Austrofundulus limnaeus inhabits ephemeral ponds in northern Venezuela, South America, and is an emerging extremophile model for vertebrate diapause, stress tolerance, evolution. Embryos of A. regularly experience extended periods desiccation anoxia as a part their natural history have unique metabolic developmental adaptations. Currently, there are limited genomic resources available gene expression evolutionary studies that can take advantage system. We describe the...
Current methods for non-invasive prostate cancer (PrCa) detection have a high false-positive rate and often result in unnecessary biopsies. Previous work has suggested that urinary volatile organic compound (VOC) biomarkers may be able to distinguish PrCa cases from benign disease. The behavior of the nematode Caenorhabditis elegans been proposed as tool take advantage these potential VOC profiles. To test ability C. Bristol N2 controls, we performed chemotaxis assays using human urine...
Abstract Extracellular vesicles (EVs) have been shown as key mediators of extracellular small RNA transport. However, carriers cell-free messenger (cf-mRNA) in human biofluids and their association with cancer remain poorly understood. Here, we performed a transcriptomic analysis size-fractionated plasma from lung cancer, liver multiple myeloma, healthy donors. Morphology size distribution showed the successful separation large medium particles other soluble protein fractions. We developed...
e13048 Background: Treatment of metastatic (met) breast cancer (mBC) remains challenging due to tumor evolution, where tumors may acquire additional somatic alterations conferring resistance top treatment. We piloted a novel ctDNA assay, ProvSeq-Liquid (PS-L) in the longitudinal profiling mBC. PS-L is next generation sequencing assay that detects cfDNA variants 523 genes. determined reproducibility and applied cohort from newly diagnosed mBC patients compared paired primary met tissue...
The cellular signaling mechanisms and morphogenic movements involved in axis formation gastrulation are well conserved between vertebrates. In nearly all described fish, the initial patterning of embryonic occur concurrently with epiboly. However, annual killifish may be an exception to this norm. Annual inhabit ephemeral ponds South America Africa permanent populations persist by production stress-tolerant eggs. Early development is unique among vertebrates because their blastomeres...
Abstract Many emerging technologies are reliant on circulating cell-free DNA (cfDNA) and RNA (cfRNA) applications in the clinic. However, impact of diurnal cycles or daily meals analytes poorly understood may be confounding factors when developing diagnostic platforms. To begin addressing this knowledge gap, we obtained plasma from four healthy donors serially sampled five times during 12 h a single day. For all samples, measured concentrations cfDNA cfRNA using both bulk measurements...
Free-living aquatic embryos are often at risk of exposure to ultraviolet radiation (UV-R). Successful completion embryonic development depends on efficient removal DNA lesions, and thus many have mechanisms reverse lesions induced by UV-R. However, little is known how that able enter dormancy may respond UV-R subsequent damage. Embryos the annual killifish Austrofundulus limnaeus unique among vertebrates because their normal includes (1) a complete dispersion blastomeres prior formation...
Life persists, even under extremely harsh conditions. While the existence of extremophiles is well known, mechanisms by which these organisms evolve, perform basic metabolic functions, reproduce, and survive extreme physical stress are often entirely unknown. Recent technological advances in terms both sampling studying have yielded new insight into their evolution, physiology behavior, from microbes viruses to plants eukaryotes. The goal "Life on Edge-the Biology Organisms Inhabiting...
Understanding mitochondrial DNA (mtDNA) evolution and inheritance has broad implications for animal speciation human disease models. However, few natural models exist that can simultaneously represent mtDNA transmission bias, mutation, copy number variation. Certain isolates of the nematode Caenorhabditis briggsae harbor large, naturally-occurring deletions several hundred basepairs affecting NADH dehydrogenase subunit 5 (nduo-5) gene be functionally detrimental. These deletion variants...
Embryos of Austrofundulus limnaeus can tolerate extreme environmental stresses by entering into a state metabolic and developmental arrest known as diapause. Oxidative stress is ubiquitous in aerobic organisms the unique biology ecology A. likely results frequent repeated exposures to oxidative during development. Antioxidant capacity was explored development measuring antioxidant due small molecules several enzymatic systems. Diapause II embryos survive for days 1% hydrogen peroxide without...
The annual killifish Austrofundulus limnaeus inhabits ephemeral ponds in regions of Venezuela, South America. Permanent populations A. are maintained by production stress-tolerant embryos that able to persist the desiccated sediment. Previous work has demonstrated have a remarkable ability tolerate extended periods anoxia and desiccating conditions. After considering temperature, highest known tolerance when compared any other vertebrate yet studied. Oxygen is completely essential for...
<title>Abstract</title> Population-scale genomics programs may enable increased access to genomic medicine. The Genomic Medicine for Everyone (Geno4ME) program was established across the diverse seven-state Providence Health system research and genome-guided care pathways patients’ lifetimes. Key components included targeted multi-lingual outreach underrepresented groups, a novel electronic informed consent (e-consent) education platform, whole genome sequencing (WGS) with clinical return of...
Prior to pancreatic ductal adenocarcinoma (PDAC), acini cells change their morphology through intraepithelial neoplasia (PanIN) stages, becoming increasingly dysplastic as stroma and tissue hypoxia increase. This increasing forms a cancer promoting microenvironment, wherein we propose metabolic changes trigger aberrant mitochondrial networks form healthy tissue. We developed superresolution imaging directly quantify structural response patient histology, whereby DNA-PAINT can provide...
Abstract Prior to pancreatic ductal adenocarcinoma (PDAC), acini cells change their morphology through intraepithelial neoplasia (PanIN) stages, becoming increasingly dysplastic as stroma and tissue hypoxia increase. This increasing forms a cancer promoting microenvironment, wherein we propose metabolic changes trigger aberrant mitochondrial networks form healthy tissue. We developed superresolution imaging directly quantify structural response patient histology, whereby DNA-PAINT can...
e15035 Background: Precision therapies and immunotherapies have revolutionized cancer care, with novel genomic biomarker-associated being introduced into clinical practice rapidly. We assessed the utility of comprehensive profiling (CGP)-based testing for identifying biomarkers associated approved therapies, in precision medicine basket trials (CT) across a large cohort advanced patients Providence health system. Methods: Advanced were tested utilizing CGP workflow between 2019-2021....
Abstract Extracellular vesicles (EVs) have been shown as key mediators of extracellular small RNA transport. However, carriers cell-free messenger (cf-mRNA) in human biofluid and their association with cancer remain poorly understood. Here, we performed a transcriptomic analysis size-fractionated plasma from lung cancer, liver multiple myeloma, healthy donors. Morphology size distribution showed the successful separation medium EVs non-vesicular carriers. We developed strategy to purify...
Abstract Introduction: Early cancer detection remains as a critical challenge to improve patient’s survival and clinical outcome. A non-invasive liquid biopsy permits the analysis of multiple circulating biomarkers including cell free nucleic acids extracellular vesicles that facilitate discovery disease. We hypothesize cancer-derived contain heterogeneous surface membrane proteins and/or representing original tumor, requiring tools which can identify be detected simultaneously. However,...