Ernesto Nakayasu | Environmental Molecular Sciences Laboratory

Mammary and milk microbiomes and metabolomes - Understanding early variation and impacts on risk for mammary inflammation and mastitis

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Exclusive breastfeeding for at least 4 mo is considered the optimal form of nutrition for most newborns, yet many women experience substantial roadblocks in meeting this goal. One of the most common…

Metabolic profiling to dissect the role of HLA-B27 in axial spondyloarthritis

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

Axial spondyloarthritis (axSpA) and other spondyloarthropathies (SpAs) affect approximately 3 million Americans and are some of the most prevalent rheumatic diseases 18. AxSpA includes ankylosing…

Mechanisms of the protective effects of dietary omega-3 fatty acids and carotenoids in age-related macular degeneration

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

The goal of the proposed project is to deepen our understanding of the lipid pathways involved in age-related macular degeneration (AMD) and the protective effects of dietary omega-3 fatty acids (…

A Systems Biology Approach to Infectious Diseases Research for EnteroPathogens

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

Develop and apply new "Systems Biology" approaches to the study of bacterial pathogen species Salmonella and Yersinia, this includes proteomics, transcriptomics, metabolomics, lipidomics,…

Statistical Methodology for Characterization of Macromolecular Similarity

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

John Cort

As with any drug, approval of generic versions of macromolecular drugs requires rigorous evaluation of therapeutic equivalence to the reference drug in order to assure similar efficacy and safety…

Multi-platform 'Omics Analysis to Determine TB Vaccine Correlates

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jennifer Kyle

In recent years, mass spectrometry-based integrated multi-omics analyses have allowed for powerful interrogations of patient samples, and the identification of correlates of risk for tuberculosis…

Characterization of Effector and Host Proteins Involved in Host-Pathogen Interactions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The multiple mechanisms by which pathogenic enterobacteria of the genus Salmonella infect their host indicate a complex host-pathogen relationship. The pathogen secretes dozens of proteins, termed &…

The effect of monoclonal antibodies against HSP60 on Histoplasma capsulatum extracellular vesicles

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

The capacity of the human fungal pathogen Histoplasma capsulatum (Hc) to cause severe invasive disease is attributed to the fungus’ ability to subvert host responses, especially in the setting of…

A Molecular Atlas of the Developing Lung

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The United States is one of the top nations for prematurely born infants and has a correspondingly high dayone infant mortality rate. Expanding our understanding of alveologenesis is a critical step…

Discovery of Host Proteins Involved in Host-Pathogen Interactions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The multiple mechanisms by which pathogenic enterobacteria of the genus Salmonella infect their host indicate a complex host-pathogen relationship. The pathogen secretes dozens of proteins, termed &…

Effector-mediated ubiquitin manipulation in Legionella pneumophila pathogenesis

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

Ubiquitination is catalyzed by a cascade of 3 enzymes (E1, E2 and E3) that links the carboxyl terminus of ubiquitin mainly to the side chains of lysine residues. This process controls a variety of…

Proteomics Laboratory for The Environmental Determinants of Diabetes in the Young

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Type 1 diabetes mellitus (T1D) is a common autoimmune disease in children and results from autoimmune destruction of insulin-producing pancreatic ?-cells triggered by complex interactions of…

A Molecular Atlas of the Developing Lung

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The United States is one of the top nations for prematurely born infants and has a correspondingly high dayone infant mortality rate. Expanding our understanding of alveologenesis is a critical step…

Discovery of Host Proteins Involved in Host-Pathogen Interactions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The multiple mechanisms by which pathogenic enterobacteria of the genus Salmonella infect their host indicate a complex host-pathogen relationship. The pathogen secretes dozens of proteins, termed &…

Proteomic Assessment of Genes of Unknown Function

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

Understanding the full repertoire of biological functions has proven elusive, hampering our ability to predict outcomes of biological processes, such as infections or impacts of toxins. PNNL will…

BetaMarker: Biomarkers of Beta Cell Stress in Type 1 Diabetes

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Type 1 diabetes (T1D) is generally accepted to result from impaired immune tolerance, leading to the autoimmune destruction of islet beta cells. However, the durable preservation of beta cell…

BRAVE Agile: WSU-Signatures of Metabolic Dysregulation from Sleep Cycle Disruption

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Fatigue induced by sleep deprivation, sleep cycle disturbance, or a combination of the two is common in first responder populations. Sleep cycle disruption shifts central and peripheral "clocks…

Statistical Methodology for Characterization of Macromolecular Similarity

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

John Cort

As with any drug, approval of generic versions of macromolecular drugs requires rigorous evaluation of therapeutic equivalence to the reference drug in order to assure similar efficacy and safety…

Evaluation of type 1 diabetes biomarker candidates in plasma samples of the DAISY cohort

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

Type 1 diabetes (T1D) is a devastating disease that reduce the life expectancy by over one decade. Its treatment is based solely on exogenous insulin administration and there is no cure or remission…

The effect of monoclonal antibodies against HSP60 on Histoplasma capsulatum extracellular vesicles

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

The capacity of the human fungal pathogen Histoplasma capsulatum (Hc) to cause severe invasive disease is attributed to the fungus’ ability to subvert host responses, especially in the setting of…

Proteomics Laboratory for The Environmental Determinants of Diabetes in the Young

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Type 1 diabetes mellitus (T1D) is a common autoimmune disease in children and results from autoimmune destruction of insulin-producing pancreatic ?-cells triggered by complex interactions of…

Proteomics Laboratory for The Environmental Determinants of Diabetes in the Young

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Type 1 diabetes mellitus (T1D) is a common autoimmune disease in children and results from autoimmune destruction of insulin-producing pancreatic ?-cells triggered by complex interactions of…

EMERGING VIRUS-HOST CELL PROTEIN INTERACTION NETWORKS

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

The overall goal of this proposal is to identify and characterize cellular proteins that bind to viral hemorrhagic fever viruses. Specifically, we focus on RNA viruses from four families: the…

Statistical Methodology for Characterization of Macromolecular Similarity

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

John Cort

As with any drug, approval of generic versions of macromolecular drugs requires rigorous evaluation of therapeutic equivalence to the reference drug in order to assure similar efficacy and safety…

Single Cell Resolution Omics Analysis of T1D islets

Lead Institution

National Institutes of Health

Principal Investigator

Charles Ansong

Type 1 diabetes mellitus (T1D) is a chronic disease resulting from the autoimmune destruction of insulin-producing pancreatic beta cells. In addition to evolving ideas about the role of beta cells in…

A Systems Biology Approach to Infectious Diseases Research for EnteroPathogens

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

Develop and apply new "Systems Biology" approaches to the study of bacterial pathogen species Salmonella and Yersinia, this includes proteomics, transcriptomics, metabolomics, lipidomics,…

EMERGING VIRUS-HOST CELL PROTEIN INTERACTION NETWORKS

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

The overall goal of this proposal is to identify and characterize cellular proteins that bind to viral hemorrhagic fever viruses. Specifically, we focus on RNA viruses from four families: the…

Integrative fungal lipidomics map: a tool to visualize lipid metabolism in large omics experiments

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Erin Bredeweg

Fungi have highly versatile lipid metabolisms, making them an excellent platform for developing antifungal therapies and biotechnological products. However, fungal lipid metabolism has been well…

A Systems Biology Approach to Infectious Diseases Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

Project type

Exploratory Research

We describe an integrated program for coupling advanced capabilities in high-throughput transcriptomics, proteomics, and metabolomics with a comprehensive informatics infrastructure and a…

A Molecular Atlas of the Developing Lung

Lead Institution

National Institutes of Health

Principal Investigator

Charles Ansong

The United States is one of the top nations for prematurely born infants and has a correspondingly high dayone infant mortality rate. Expanding our understanding of alveologenesis is a critical step…

Mammary and milk microbiomes and metabolomes - Understanding early variation and impacts on risk for mammary inflammation and mastitis

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Exclusive breastfeeding for at least 4 mo is considered the optimal form of nutrition for most newborns, yet many women experience substantial roadblocks in meeting this goal. One of the most common…

Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

David Camp

Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

BetaMarker: Biomarkers of Beta Cell Stress in Type 1 Diabetes

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Type 1 diabetes (T1D) is generally accepted to result from impaired immune tolerance, leading to the autoimmune destruction of islet beta cells. However, the durable preservation of beta cell…

Metabolic Landscape of the Aging Lung

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jennifer Kyle

Aging is a major risk factor for the majority of acute and chronic diseases of the lung, including emphysema, pulmonary fibrosis, and lower respiratory tract infections. In this study we will…

A Systems Biology Approach to Infectious Diseases Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

Project type

Exploratory Research

We describe an integrated program for coupling advanced capabilities in high-throughput transcriptomics, proteomics, and metabolomics with a comprehensive informatics infrastructure and a…

The effect of monoclonal antibodies against HSP60 on Histoplasma capsulatum extracellular vesicles

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

The capacity of the human fungal pathogen Histoplasma capsulatum (Hc) to cause severe invasive disease is attributed to the fungus’ ability to subvert host responses, especially in the setting of…

Alternative RNA splicing events contribute to the onset of islet dysfunction in type 1 diabetes

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ernesto Nakayasu

Type 1 diabetes (T1D) is a results from the autoimmune destruction of pancreatic β cells, which are the cells responsible for insulin production and secretion in the boby. Despite T1D is primarily…

Characterization of Effector and Host Proteins Involved in Host-Pathogen Interactions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

Project type

Exploratory Research

The multiple mechanisms by which pathogenic enterobacteria of the genus Salmonella infect their host indicate a complex host-pathogen relationship. The pathogen secretes dozens of proteins, termed &…

BetaMarker: Biomarkers of Beta Cell Stress in Type 1 Diabetes

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Type 1 diabetes (T1D) is generally accepted to result from impaired immune tolerance, leading to the autoimmune destruction of islet beta cells. However, the durable preservation of beta cell…

Does the brain differentially alter metabolic and immunologic programs in the bone marrow in a pathogen-specific manner?

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Sneha Couvillion

: A wide variety of pathogens present an acute survival challenge in humans, and our ability to rapidly and precisely respond to these pathogens is critical to our survival as a species. Although…

NMR-based metabolomics of the enteropathogens Salmonella and Yersinia

Lead Institution

Washington State University Tri-Cities

Principal Investigator

Kathleen McAteer

Project type

Large-Scale EMSL Research

The goal of this research is to analyze and reconstruct intercellular and intracellular networks in Salmonella and Yersinia using multiple types of -omics data. Although we hope to gain a more…

Proteomic Assessment of Genes of Unknown Function

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

Understanding the full repertoire of biological functions has proven elusive, hampering our ability to predict outcomes of biological processes, such as infections or impacts of toxins. PNNL will…

Multi-omic 3D tissue maps for a Human BioMolecular Atlas

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Weijun Qian

Spatially resolved molecular maps of mammalian organs hold significant promise in providing a deeper under-standing of human organ functioning in health and disease states. Fundamental to this is an…

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