Managing Crop Phenotype Data

This workshop will concentrate on the topic of specifying phenotypes so that they are efficiently queried in databases. A phenotype exists at the intersection of an individual (a breeding line for crop scientists), a trait, and a trial. There are challenges in specifying all three axes of this intersection. With genotyping costs down, we now live in a phenotype-limited research environment making it sensible to focus on storage and access to this precious resource. Furthermore, phenotypes are now linked to each other through their connection to genotypes and we gain inferential strength by cumulating them. We want to invite groups to present how they specify phenotypes and their related trial, trait, and plant or seed identities.
Date: Saturday, January 12, 2013
Time: 10:20 AM-12:30 PM
Room: Royal Palm Salon 5-6
Organizer:
Jean-Luc Jannink
10:20 AM
Introductory Remarks


10:25 AM
Managing Phenotypic Data For Use In Crop Simulation: Lessons From The ICASA Standards
Jeffrey W. White, USDA-ARS; Cheryl H. Porter, Dept. Agric. & Biol. Engineering, Univ. Florida; Gerrit Hoogenboom, Washington State University

10:40 AM
Phenotype Data -- The Final Frontier?
David Marshall, The James Hutton Institute

10:55 AM
“Phenom Networks” View Of Crop Improvement
Yaniv Semel, Phenome Networks; Daniel Zamir, The Hebrew University of Jerusalem

11:10 AM
Managing Crop Phenotypes Using Chado ND
Lukas Mueller, Boyce Thompson Institute for Plant Research

11:25 AM
Integrating Phenotypic Data With Genomic, Genetic and Genotypic Data Using Chado
Sook Jung, Washington State University; Taein Lee, Washington State University; Stephen P. Ficklin, Washington State University; Jing Yu, Washington State University; Dorrie Main, Washington State University

11:40 AM
Traits, Trials, and Tribulations in the Triticeae Toolbox
David E. Matthews, USDA ARS; Clay Birkett, USDA-ARS; Victoria Carollo Blake, USDA ARS WRRC; Peter Bradbury, USDA ARS-Cornell University; Jean-Luc Jannink, USDA ARS

11:55 AM
Managing Phenotyping Data in the Integrated Breeding Platform
Graham McLaren, GCP; Fred Okono, Generation Challenge Programme; Arllet Portugal, Generation Challenge Programme; Chunlin He, Generation Challenge Program; Mark Sawkins, Generation Challenge Programme; Ndeye Ndack Diop, Generation Challenge Programme, c/o CIMMYT; Xavier Delannay, Generation Challenge Programme, c/o CIMMYT; Jean-Marcel Ribaut, Generation Challenge Programme

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