Jason McDermott | Environmental Molecular Sciences Laboratory

Persistence Control SFA

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Robert Egbert

Emergent genomic tools present transformational opportunities for the U.S. bioeconomy, including potential to design synthetic rhizosphere microbiomes to generate secure, sustainable, stress-tolerant…

Prediction of response of microbial interaction networks cycling carbon to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ryan McClure

Harnessing the soil microbiome presents transformational opportunities to optimize the economic and environmental value of our nation’s soil microbiomes, including maintaining soil organic matter…

Center for Application of Advanced Clinical Proteomic Technologies for Cancer (NCI U24; 59963)

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Tao Liu

The overall objective of the PNNL Clinical Proteome Characterization Center (PCPCC) is to facilitate cancer biomarker development by linking the cancer genotype to the cancer phenotype using detailed…

Prediction of soil microbiome phenotypic responses to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jason McDermott

The goal of this project is to attain a systems level understanding of the soil microbiome and its phenotypic response to changing moisture through a tractable, spatially explicit examination of the…

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,…

Persistence Control SFA

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Robert Egbert

Emergent genomic tools present transformational opportunities for the U.S. bioeconomy, including potential to design synthetic rhizosphere microbiomes to generate secure, sustainable, stress-tolerant…

Massively Parallel Molecular Profiling of Breast Cancer

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Richard Smith

Molecular profiling of breast cancer into subcategories based on functional ER expression and amplification of HER2 has significantly enhanced our understanding of the disease, and has pointed the…

Prediction of response in soil microbiome carbon utilization to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jason McDermott

This project is directed under the “Phenotypic Response of the Soil Microbiome to Environmental Perturbations” SFA project awarded to Pacific Northwest National Laboratory. The goal of the SFA is to…

Membrane Biology Research Campaign: Use of synthetic biology to probe molecular machines in photosynthesis

Lead Institution

Washington University in St. Louis

Principal Investigator

Himadri Pakrasi

Project type

Research Campaign

We have shown in our previous EMSL collaborations our ability to develop systems-level models of cyanobacterial processes. In the present proposal, our objective is to characterize and…

Persistence Control SFA

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Robert Egbert

Emergent genomic tools present transformational opportunities for the U.S. bioeconomy, including potential to design synthetic rhizosphere microbiomes to generate secure, sustainable, stress-tolerant…

A Molecular Atlas of the Developing Lung

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Richard Corley

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…

OHSU-PNNL Northwest Co-laboratory for Integrated Omics

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jon Jacobs

An essential component of the OHSU-PNNL Northwest CoLaboratory for Integrated Omics (CoLab) is the collaborative pursuit of joint research projects that leverage the compelling biomedical model…

Center for Application of Advanced Clinical Proteomic Technologies for Cancer (NCI U24; 59963)

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Richard Smith

The overall objective of the PNNL Clinical Proteome Characterization Center (PCPCC) is to facilitate cancer biomarker development by linking the cancer genotype to the cancer phenotype using detailed…

A scalable mass spectrometry platform for proteome mapping of brain tissues

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Tujin Shi

The brain is the most complex organ in the mammalian body. Bulk analysis obscures heterogeneity of cell types present even in the smallest brain regions. Multi-omics single-cell resolution 3D…

Massively Parallel Molecular Profiling of Breast Cancer

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Richard Smith

Molecular profiling of breast cancer into subcategories based on functional ER expression and amplification of HER2 has significantly enhanced our understanding of the disease, and has pointed the…

Prediction of response of microbial interaction networks cycling carbon to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Ryan McClure

Harnessing the soil microbiome presents transformational opportunities to optimize the economic and environmental value of our nation’s soil microbiomes, including maintaining soil organic matter…

Advancing ecosystem understanding of carbon turnover and storage through molecular characterization

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Kirsten Hofmockel

The coupling between concurrently changing carbon (C) and nitrogen (N) cycles remains a key uncertainty in understanding feedbacks between the terrestrial C cycle and climate change. Decades of…

Bioinformatics Tools to Define the Proteomic State of the Cell

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

William Cannon

Project type

Capability Research

During the next three years we intend to enhance mass spectrometry-based proteomic analysis by building a new generation of tools for peptide identification. The accurate identification of protein…

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…

Advancing ecosystem understanding of carbon turnover and storage through molecular characterization

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Kirsten Hofmockel

EMSL Staff Proposal: The coupling between concurrently changing carbon (C) and nitrogen (N) cycles remains a key uncertainty in understanding feedbacks between the terrestrial C cycle and climate…

Prediction of soil microbiome phenotypic responses to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jason McDermott

The goal of this project is to attain a systems level understanding of the soil microbiome and its phenotypic response to changing moisture through a tractable, spatially explicit examination of the…

Prediction of soil microbiome phenotypic responses to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jason McDermott

The goal of this project is to attain a systems level understanding of the soil microbiome and its phenotypic response to changing moisture through a tractable, spatially explicit examination of the…

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…

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,…

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…

Structural Characterization and Interactions of Conformationally Heterogeneous States of Biomolecules

Lead Institution

Universidade Federal de Pernambuco

Principal Investigator

Thereza Soares Da Silva

Project type

Large-Scale EMSL Research

This proposal seeks computational resources for the application of long-scale and enhanced sampling techniques to characterize the inherently flexible and conformationally highly heterogeneous…

Pore to core: Changes in osmotic conditions due to varying antecedent soil moisture conditions drive microbial community composition

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Vanessa Bailey

Recent research has shown that bacterial invasion by phage, detected via CRISPR inserts, increases with increasing osmotic stress. We seek access to EMSL computing resources to explore existing…

Regulating Space: Bacterial Mastery of the Host Actin Cytoskeleton

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jason McDermott

Project type

Large-Scale EMSL Research

Abstract: The host plasma membrane, the landscape for environmental and physical perturbations by many microbial pathogens, enhances or diminishes signal transduction by altering diffusivity and…

Prediction of response in soil microbiome carbon utilization to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jason McDermott

Project type

FICUS Research

The goal of this project is to attain a systems level understanding of the soil microbiome and its phenotypic response to changing moisture through a tractable, spatially explicit examination of the…

Projects