Jennifer Kyle | Environmental Molecular Sciences Laboratory

Spatial Metabolomics and Glycomics for Human Kidneys

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Christopher Anderton

Acute kidney injury (AKI) and chronic kidney disease (CKD) are major contributors to overall morbidity and mortality in patients in the US. However, we lack a clear understanding of the major…

Iron, Ferroptosis and Ovarian Cancer

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Christopher Anderton

The goal of this proposal is to provide mechanistic information on the role of iron in ferroptosis, test how manipulating pathways of iron and lipid metabolism impact ferroptosis, and explore how…

Determining the Metabolome and Lipidome of Amniotic Fluid Across Gestation

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Chaevien Clendinen

The existing literature suggests that the composition of AF is dynamic and changes across gestation. It is rich in proteins, lipids, oligosaccharides, RNAs, and metabolites that potentially influence…

Omics analysis for fin, humpback, and gray whales to compare stress hormones and create baseline

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jennifer Kyle

PNNL staff proposed a seedling idea to the US Department of Energy's Water Power Technologies Office to perform a transcriptomics study to compare stress hormones with various whale species…

Multi-Scale Multi-Modality High Resolution Mapping of the Adult Human Lung

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Christopher Anderton

The Human Biomolecular Atlas Program (HuBMAP) is entering the production phase, with an emphasis on progressive, high sensitivity and specificity assays, prioritizing spatial biomolecular analysis…

Spatiotemporal mapping of lignocellulose decomposition by a naturally evolved fungal garden microbial consortium

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Kristin Burnum-Johnson

Some microbial communities composed of bacteria and fungi can readily breakdown plant matter into its component sugars. Leaf-cutter ants take advantage of such microbial communities by maintaining…

CPTAC Proteome Characterization Center

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Tao Liu

The overall objective of the PNNL Proteome Characterization Center (PCC) is to comprehensively characterize human tumor samples provided by the National Cancer Institute (NCI), and to integrate the…

Molecular analysis of exRNA carrier subclasses

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Tao Liu

As a consortium site, PNNL will perform proteomic and lipidomic analysis of exosome RNA (exRNA) carrier subclass samples generated using differential centrifugation, density gradient centrifugation,…

Determining the roles of sphingolipids in phagocytosis

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jennifer Kyle

Phagocytosis is a conserved cellular process that is not only critical to ingest and eliminate invading microbial pathogens but also to clear effete cells, and cellular debris. Phagocytosis also…

Dissection and Deciphering of the Soil Microbiome

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Janet Jansson

This proposal aims to address key gaps in our knowledge about the composition and functional roles of the tens of thousands of microbial species in soil. Although these microorganisms carry out…

Molecular analysis of exRNA carrier subclasses

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Tao Liu

As a consortium site, PNNL will perform proteomic and lipidomic analysis of exosome RNA (exRNA) carrier subclass samples generated using differential centrifugation, density gradient centrifugation,…

Undiagnosed Diseases Network Metabolomics Core

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

A state of the art metabolomics core will be a vital part of the Undiagnosed Diseases Network (UDN). However, in order for the UDN to realize it’s the full potential it is essential that the…

Resolution of Lipid Structural Diversity for Threat-Agnostic Signature Development

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jennifer Kyle

Development of threat-agnostic biosignatures is critical for detection of and response to biological threats that go beyond the historical list-based approach. Lipids are a class of structurally…

Modeling Host Responses to Understand Severe Human Virus Infections

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Richard Smith

This comprehensive and highly integrated systems biology program seeks to delineate the complex host responses that determine the outcome of infections with potentially lethal viruses. To achieve…

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…

Organo-I Scoping Efforts/Experiments for 200-UP-1 I-129 Remedy Evaluation Using Mass Spectrometry

Lead Institution

University of Arizona

Principal Investigator

Malak Tfaily

Isotopes of iodine were generated during plutonium production within the nine production reactors at the U.S. Department of Energy (DOE) Hanford Site. The short half-life 131I was released from the…

Structural characterization of polycyclopropanated high energy biofuels produced by fermentation

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

John Cort

This project will use NMR spectroscopy and mass spectrometry to elucidate structures and profile mixtures of novel fatty acids produced by engineered microorganisms.

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…

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…

Modeling Host Responses to Understand Severe Human Virus Infections

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Richard Smith

This comprehensive and highly integrated systems biology program seeks to delineate the complex host responses that determine the outcome of infections with potentially lethal viruses. To achieve…

Novel Interactomics Workflow for Protein-Protein and Protein-Lipid Interactions

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Stephanie Thibert

Macromolecular assemblies in cell membrane and organelles are compositionally and structurally complex and their identification and characterization represent a major barrier to understanding…

Metabolomics of programmed cell death

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jennifer Kyle

Lipidomics is the study of cellular lipids to understand the function and structure of biological systems. The interaction of lipids with other cellular components, including proteins and…

Integrated Pennycress Resilience Project (IPReP)

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Pubudu Handakumbura

Pennycress (Thlaspi arvense) is under development as a winter annual oilseed bioenergy crop for the 80 million-acre U.S. Midwest Corn Belt and other temperate regions including the Pacific Northwest…

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…

Lipidomics of circadian rhythm of vascular function in midlife adults

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jennifer Kyle

The proposed research study is to perform lipidomics analyses on human blood plasma collected from middle aged participants that underwent a 5-day laboratory circadian rhythm study. The laboratory…

Modeling Host Responses to Understand Severe Human Virus Infections

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

This comprehensive and highly integrated systems biology program seeks to delineate the complex host responses that determine the outcome of infections with potentially lethal viruses. To achieve…

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…

Undiagnosed Diseases Network Metabolomics Core

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

A state of the art metabolomics core will be a vital part of the Undiagnosed Diseases Network (UDN). However, in order for the UDN to realize it’s the full potential it is essential that the…

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…

Metabolomic and Lipidomic Analysis of Subjects with Galactosemia

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jennifer Kyle

Galactosemia is a rare, genetic, metabolic disease affecting how the body processes galactose. Classical galactosemia, affecting 1 in 30,000 to 60,000 newborns, is a severe form of the disease…

Detergent-free extraction of membrane proteins and lipids from native cells

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

John Melchior

Membrane proteins account for >30% of most genomes, yet only make up <4% of reported high-resolution structures in the protein data bank. Current approaches for isolating membrane proteins from…

Growth analysis in mixed microbial populations using microscopy coupled with computational approaches

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Alex Beliaev

Project type

Large-Scale EMSL Research

Microbial phototroph-heterotroph associations (PHA) are common in nature as they provide basis for many water- and terrestrial-based ecosystems. Metabolic interactions between partners are the…

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…

A Systems Biology Approach to Emerging Respiratory Viral Diseases

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

This Systems Biology Program will comprehensively analyze and model the molecular and cellular events and pathogen-host interactions that occur during the course of respiratory virus infection. Our…

Feedbacks between microbial community dynamics and the persistence of soil organic carbon

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Kirsten Hofmockel

Project type

Exploratory Research

Soil organic matter (SOM) is the largest active carbon reservoir in the terrestrial environment and significantly influences soil fertility, water quality, global C cycling and associated feedbacks…

Type 1 Diabetes Mellitus: Correlating the Gastrointestinal Microbiome, Urinary Proteome and Metabolome

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Type 1 diabetes mellitus (T1D) is characterized by autoimmune destruction of the insulin producing ?-cells of pancreatic islets. It is believed that T1D results from complex interactions between…

Modeling Host Responses to Understand Severe Human Virus Infections

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

This comprehensive and highly integrated systems biology program seeks to delineate the complex host responses that determine the outcome of infections with potentially lethal viruses. To achieve…

Modeling Host Responses to Understand Severe Human Virus Infections

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Richard Smith

This comprehensive and highly integrated systems biology program seeks to delineate the complex host responses that determine the outcome of infections with potentially lethal viruses. To achieve…

A Multi-Omics Data Exploration and Integration Web Application

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Lisa Bramer

In the biological and environmental sciences, data are being generated at an unprecedented rate. There are many scientific discoveries pertinent to DOE missions that are waiting to emerge from high…

Effects of Silymarin on the Metabolome

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

Silymarin (SM)-derived natural products interact with mammalian biomolecules in a specific and productive manner to cause changes in signal transduction and gene expression in a cell to protect 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…

Projects