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Beacon: Representation, Visualization, and Modeling of Signaling Pathways in Higher Plants

Beacon: Representation, Visualization, and Modeling of Signaling Pathways in Higher Plants. Lenwood S. Heath Department of Computer Science Blacksburg, VA 24061. Beacon Workshop Virginia Tech August 13, 2012. History and People. NSF ABI funded project, 2011-2015

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Beacon: Representation, Visualization, and Modeling of Signaling Pathways in Higher Plants

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  1. Beacon: Representation, Visualization, and Modeling of Signaling Pathways in Higher Plants Lenwood S. Heath Department of Computer Science Blacksburg, VA 24061 Beacon Workshop Virginia Tech August 13, 2012 8/13/2012 Beacon Overview

  2. History and People • NSF ABI funded project, 2011-2015 • Investigators: Ruth Grene, Lenny Heath, Andy Pereira • Graduate students: Elijah, Curtis, and Delasa • Postdoc: SubodhSrivastava • Undergraduate students • Proposal developed in collaboration with iPlant 8/13/2012 Beacon Overview

  3. System Diagram 8/13/2012 Beacon Overview

  4. Beacon Objectives • Systems Biology Graphical Notation (SBGN) Activity Flow curation tool • Curation workshop to build signaling networks • Beacon database • Several import/export formats • Simulation engine • Inference engine using omics data 8/13/2012 Beacon Overview

  5. ABA Pathway — SBGN-ED 8/13/2012 Beacon Overview

  6. ABA Pathway — Beacon Editor 8/13/2012 Beacon Overview

  7. Beacon Benefits • Database of plant signal transduction pathways • Compatibility with various standards • Simulation — asking “What if?” questions • Inference using omics data • Development of phenotypic assays to test predictions from simulations and inferences 8/13/2012 Beacon Overview

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