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


EMSL Project ID
47418

Abstract

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. Obtaining such systems-level understanding requires multiple broad and high-throughput -omics analytical capabilities. This project aims to facilitate BER research goals by implementing and applying advanced capabilities that are extended to cover important post- translational protein modifications as well as broad measurements of metabolites, lipids, and glycans. Together with more widely available genomics and transcriptomics resources, this project will provide the transformative “pan-omics” measurement capabilities needed to elucidate interacting networks of genes, proteins, and biochemical reactions in biological systems. New measurement platforms and integrated analytical strategies will be implemented in concert with computational advances necessary for handling increased data production rates, improved data processing algorithms, the development of methods to integrate multiple pan- omics data streams, and efforts needed to effectively disseminate results and information to collaborators and the broader scientific community. Developments will continue to be driven by and applied in the context of external collaborative projects aimed at garnering the knowledge needed to lay a foundation for predicting behaviors of and manipulating biological systems critical to DOE missions, including studies of microbial communities, photosynthetic eukaryotes, and eukaryote-prokaryote interactions (e.g., plant interactions with rhizobium symbionts).

Project Details

Start Date
2012-04-30
End Date
2014-09-30
Status
Closed

Team

Principal Investigator

Joshua Adkins
Institution
Pacific Northwest National Laboratory

Team Members

Xing Zhang
Institution
Pacific Northwest National Laboratory

Joshua Rosnow
Institution
Pacific Northwest National Laboratory

Geremy CD Clair
Institution
Pacific Northwest National Laboratory

Vanessa Paurus
Institution
Pacific Northwest National Laboratory

Christina Stevenson
Institution
Pacific Northwest National Laboratory

Levi Broeske
Institution
Pacific Northwest National Laboratory

Venkata BS Garimella
Institution
Pacific Northwest National Laboratory

Kent Bloodsworth
Institution
Pacific Northwest National Laboratory

Rosalie Chu
Institution
Environmental Molecular Sciences Laboratory

Natalie Sadler
Institution
Pacific Northwest National Laboratory

Samuel Payne
Institution
Pacific Northwest National Laboratory

Amy Boaro
Institution
Pacific Northwest National Laboratory

Chelsea Hutchinson
Institution
Pacific Northwest National Laboratory

Dian Su
Institution
Pacific Northwest National Laboratory

Tujin Shi
Institution
Pacific Northwest National Laboratory

Eric Merkley
Institution
Pacific Northwest National Laboratory

Xuefei Sun
Institution
Pacific Northwest National Laboratory

Daniel Orton
Institution
Pacific Northwest National Laboratory

Carrie Nicora
Institution
Pacific Northwest National Laboratory

Charles Ansong
Institution
National Institutes of Health

Aaron Wright
Institution
Pacific Northwest National Laboratory

Joseph Brown
Institution
Pacific Northwest National Laboratory

Matthew Monroe
Institution
Pacific Northwest National Laboratory

Ronald Moore
Institution
Pacific Northwest National Laboratory

Janani Shutthanandan
Institution
Pacific Northwest National Laboratory

Stephen Callister
Institution
Pacific Northwest National Laboratory

Kim Hixson
Institution
Pacific Northwest National Laboratory

Ioan Marginean
Institution
Pacific Northwest National Laboratory

Qibin Zhang
Institution
University of North Carolina Greensboro

Brian Lamarche
Institution
Environmental Molecular Sciences Laboratory

Vladislav Petyuk
Institution
Pacific Northwest National Laboratory

Yufeng Shen
Institution
CoAnn Technologies, LLC

Yehia Ibrahim
Institution
Pacific Northwest National Laboratory

Erin Baker
Institution
North Carolina State University

Errol Robinson
Institution
Pacific Northwest National Laboratory

Marina Gritsenko
Institution
Pacific Northwest National Laboratory

Tao Liu
Institution
Pacific Northwest National Laboratory

Nancy Colton
Institution
Pacific Northwest National Laboratory

Ryan Kelly
Institution
Brigham Young University

Feng Yang
Institution
Pacific Northwest National Laboratory

Weijun Qian
Institution
Pacific Northwest National Laboratory

Thomas Metz
Institution
Pacific Northwest National Laboratory

Jon Jacobs
Institution
Environmental Molecular Sciences Laboratory

Heather Olson
Institution
Environmental Molecular Sciences Laboratory

Gordon Anderson
Institution
Pacific Northwest National Laboratory

Christopher Oehmen
Institution
Pacific Northwest National Laboratory

Rui Zhao
Institution
Environmental Molecular Sciences Laboratory

Ljiljana Pasa-Tolic
Institution
Environmental Molecular Sciences Laboratory

Richard Smith
Institution
Pacific Northwest National Laboratory

Keqi Tang
Institution
Pacific Northwest National Laboratory

Karl Weitz
Institution
Pacific Northwest National Laboratory

David Koppenaal
Institution
Environmental Molecular Sciences Laboratory

Anil Shukla
Institution
Pacific Northwest National Laboratory

Mary Lipton
Institution
Environmental Molecular Sciences Laboratory