Carrie Nicora | Environmental Molecular Sciences Laboratory

Agile Biofoundry FY24-25

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Nathalie Munoz Munoz

This proposed EMSL Staff time proposal assists the DOE-EERE-BETO supported PNNL project: FY24-25 seven-national laboratory Agile BioFoundry (https://agilebiofoundry.org/). PNNL’s effort for this…

Determining how metabolic regulation can improve biofuel and bioproduct accumulation

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Mary Lipton

Photosynthetic organisms are promising sustainable sources of biofuels and bioproducts to help meet growing global needs. Microalgae utilize solar energy, consume CO2, can be cultivated on non-arable…

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…

Agile BioFoundry

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Kristin Burnum-Johnson

This proposed EMSL Resource Owner project, is a sub-project supporting two DOE-EERE-BETO supported PNNL projects: FY16-17 four-national laboratory “Agile BioFoundry” (ABF) seed project and a larger…

Coupling temporal variations in geochemistry to activities of microbial populations in the deep subseafloor biosphere

Lead Institution

Harvard University

Principal Investigator

Peter Girguis

Project type

Large-Scale EMSL Research

To date, studies of the oceanic subsurface biosphere have effectively demonstrated the existence of an active microbial community, and have begun to characterize community density and distribution…

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…

High-Throughput Proteomics: Applications and Development (PNNL Scope #40601 and #43488)

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Gordon Anderson

This project involves the application and development of high-throughput proteomics and quantitative measurement capabilities within biological systems. More so, application measurements will be…

Multi-marker Urine Test for Detection of Aggressive Prostate Cancer

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Weijun Qian

In prostate cancer disease management over-diagnosis and over-treatment have increasingly become major public concerns. Prostate cancer is primarily detected by serum PSA screening followed by a…

Urinary Proteome Monitoring for Transplant Injury

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

David Camp

We propose to achieve the objective of identifying novel urinary biomarkers for selected categories of renal transplant injury in two phases. We will first employ a discovery phase to comprehensively…

Agile BioFoundry

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Scott Baker

This proposed EMSL Resource Owner project, is a sub-project supporting two DOE-EERE-BETO supported PNNL projects: FY16-17 four-national laboratory “Agile BioFoundry” (ABF) seed project and a larger…

Pan-Omics Technology Development, Implementation, and Application to GSP Systems Biology Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The BER Genome Science Program aims to understand complex biological and environmental systems across spatial and temporal scales to develop predictive knowledge relevant to DOE mission challenges…

Extracellular Research Thrust for EMSL SSA

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Kirsten Hofmockel

This project will develop a conceptual framework that defines the biotic and abiotic mechanisms regulating the persistence of mineral associated organic matter (OM). The specific goals are to…

Genetically-Engineered, Nanoscale, Biosilica-Immobilized Functional Materials

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Guri Roesijadi

The next generation materials for the deployment of antibodies and receptors with the enhanced stability needed for real-world applications will be three dimensional nanosystems with multiscale…

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…

Diagnosis of sub-clinical cryptic group A streptococcal myonecrosis

Lead Institution

Boise VA Medical Center

Principal Investigator

Amy Bryant

Invasive group A streptococcal (GAS) infections associated with shock, multi-organ failure, necrotizing fasciitis with myonecrosis, and death emerged worldwide in the mid-1980s prompting an official…

Multi-marker Urine Test for Detection of Aggressive Prostate Cancer

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Weijun Qian

In prostate cancer disease management over-diagnosis and over-treatment have increasingly become major public concerns. Prostate cancer is primarily detected by serum PSA screening followed by a…

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…

Agile BioFoundry

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jon Magnuson

This proposed EMSL Resource Owner project, is a sub-project supporting DOE-EERE-BETO supported PNNL-national laboratory Agile BioFoundry (ABF) project. PNNL’s effort for this project, which includes…

Pan-Omics Technology Development, Implementation, and Application to GSP Systems Biology Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The BER Genome Science Program aims to understand complex biological and environmental systems across spatial and temporal scales to develop predictive knowledge relevant to DOE mission challenges…

Proteomics analysis of ovulation in primates

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Sneha Couvillion

To perform a parallel genomic (RNAseq, University of Oregon) and proteomic (PNNL) assessment of the ovarian follicle in the period prior to and at different time points after an ovulatory stimulus (i…

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…

Probing complex microbiomes using mass spectrometry and sequencing capabilities to understand how microbiomes are influenced by their environment

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Stephen Callister

This proposal will utilize next generation sequencing and mass spectrometry (MS) capabilities to address key knowledge gaps in our functional understanding of how complex microbiomes influence and…

Pan-Omics Technology Development, Implementation, and Application to GSP Systems Biology Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The BER Genome Science Program aims to understand complex biological and environmental systems across spatial and temporal scales to develop predictive knowledge relevant to DOE mission challenges…

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…

Agile BioFoundry

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jon Magnuson

This proposed EMSL Resource Owner project, is a sub-project supporting two DOE-EERE-BETO supported PNNL projects: FY16-17 four-national laboratory “Agile BioFoundry” (ABF) seed project and a larger…

Probing complex microbiomes using mass spectrometry and sequencing capabilities to understand how microbiomes are influenced by their environment

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Stephen Callister

This is a resource owner proposal as part of the MinT LDRD Initiative. The objective of this proposal is the development of sequencing and mass spectrometry capabilities to support research into how…

Developing a strategy to identify & validate pharmacodynamic kinase inhibitorbiomarkers

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Keqi Tang

The primary goal of the project is to develop mass spectrometry (MS) based assays capable of globally quantifying changes in kinase-specific phosphorylation stoichiometry. The specific work related…

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