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Bioinformatics: Software
Date: Monday, January 14, 2013
Time: 7:00 AM-10:00 PM
Room: Grand Exhibit Hall
Biological Computing Using the iPlant Discovery Environment
Joshua Stein, Cold Spring Harbor Laboratory;
Jerry Lu, Cold Spring Harbor Laboratory;
Christos Noutsos, Cold Spring Harbor Laboratory;
Liya Wang, Cold Spring Harbor Laboratory;
Roger A. Barthelson, University of Arizona, iPlant Collaborative;
Fusheng Wei, University of Arizona, iPlant Collaborative;
Naim Matasci, University of Arizona, iPlant Collaborative;
Eric Lyons, University of Arizona;
Nicole Hopkins, University of Arizona, iPlant Collaborative;
Andrew Lenards, University of Arizona, iPlant Collaborative;
Sheldon McKay, Dolan DNA Learning Center, Cold Spring Harbor Laboratory;
Matt Vaughn, Texas Advances Computing Ctr, University of Texas;
Dan Stanzione, Texas Advances Computing Ctr, University of Texas;
Stephen A. Goff, University of Arizona, iPlant Collaborative;
Doreen Ware, Cold Spring Harbor Laboratory;
The iPlant Collaborative, University of Arizona, iPlant Collaborative
WebApollo: A Web-based Sequence Annotation Editor for Distributed Community Annotation
Ed Lee, Lawrence Berkeley National Laboratory;
Gregg A Helt, Lawrence Berkeley National Laboratory;
Monica C. Munoz-Torres, Lawrence Berkeley National Laboratory;
Suzanna E. Lewis, Lawrence Berkeley National Laboratory;
Justin Reese, Division of Animal Sciences, University of Missouri;
Christopher Childers, Division of Animal Sciences, University of Missouri;
Christine G. Elsik, Division of Animal Sciences, University of Missouri;
Robert Buels, University of California, Berkeley;
Ian Holmes, University of California, Berkeley
Three New Tools to Dramatically Improve Draft Genome Assemblies
Kim C. Worley, Baylor College of Medicine;
Jiaxin Qu, Baylor College of Medicine;
Yue Liu, Baylor College of Medicine;
Adam C. English, Baylor College of Medicine;
Huaiyang Jiang, Baylor College of Medicine;
Xiang Qin, Baylor College of Medicine;
Yi Han, Baylor College of Medicine;
Min Wang, Baylor College of Medicine;
Donna M. Muzny, Baylor College of Medicine;
Jeffrey G. Reid, Baylor College of Medicine;
Stephen Richards, Baylor College of Medicine;
Richard A. Gibbs, Baylor College of Medicine
A Gene Discovery Method from Large-Scale Gene Expression Data with Next-Generation Sequencing Technology
Kentaro Yano, School of Agri., Meiji University;
Hiroko Tsuchida, Meiji University;
Taiki Kuchiki, Meiji University;
Koji Yokoyama, School of Agri., Meiji University;
Yuuki Yoshida, School of Agri., Meiji University;
Kayoko Kikue, Meiji University;
Hiroshi Chiba, TOHOKU CHEMICAL CO., LTD.;
Yoshifumi Tada, TOHOKU CHEMICAL CO., LTD.;
Akifumi Shimizu, The University of Shiga Prefecture
Visualizing Genetic Transmission Patterns in Plant Pedigrees
Paul Shaw, The James Hutton Institute;
Bill Thomas, The James Hutton Institute;
Luke Ramsay, The James Hutton Institute;
Robbie Waugh, The James Hutton Institute;
Jordi Comadran, The James Hutton Institute;
Gordon Stephen, The James Hutton Institute;
Iain Milne, The James Hutton Institute;
Martin Graham, Edinburgh Napier University;
Jessie Kennedy, Edinburgh Napier University;
David Marshall, The James Hutton Institute
Detecting Secreted Peptides in Plants Using SPADA (Secreted Peptide Alignment Discovery Algorithm)
Peng Zhou, Department of Plant Pathology, University of Minnesota;
Kevin A. T. Silverstein, Supercomputing Institute, University of Minnesota;
Liangliang Gao, Department of Plant Pathology, University of Minnesota;
Sumitha Nallu, Dept. of Ecology and Evolution, University of Chicago;
Joseph Guhlin, Department of Plant Pathology, University of Minnesota;
Nevin Young, Department of Plant Pathology, University of Minnesota
KBase: Plant Science
David Weston, Oak Ridge National Laboratory;
Doreen Ware, Cold Spring Harbor Laboratory;
Priya Ranjan, University of Tennessee, Knoxville;
Mustafa Syed, Oak Ridge National Laboratory;
Miriam Land, Oak Ridge National Laboratory;
Sergei Maslov, Brookhaven National Laboratory;
Shinjae Yoo, Brookhaven National Laboratory;
Dantong Yu, Brookhaven National Laboratory;
Michael Schatz, Cold Spring Harbor Laboratory;
James Gurtowski, Cold Spring Harbor Laboratory;
Matt Titmus, Cold Spring Harbor Laboratory;
Jer-Ming Chia, Cold Spring Harbor Labs;
Sunita Kumari, Cold Spring Harbor Laboratory;
Andrew Olson, Cold Spring Harbor Laboratory;
Shiran Pasternak, Cold Spring Harbor Laboratory;
Jim Thomason, Cold Spring Harbor Laboratory;
Mark Gerstein, Yale University;
Gang Fang, Yale University;
Darryl Reeves, Yale University;
Pamela Ronald, Joint BioEnergy Institute (JBEI);
TaeYun Oh, University of California, Davis;
Christopher Henry, Argonne National Laboratory;
Samuel M. D. Seaver, Argonne National Laboratory;
Adam Arkin, Lawrence Berkeley National Laboratory
AISO: Annotation of Image Segments using Ontologies
Nikhil Lingutla, Oregon State University;
Justin Preece, Dept. of Botany & Plant Pathology, Oregon State University;
Sinisa Todorovic, Oregon State University;
Pankaj Jaiswal, Dept. of Botany & Plant Pathology, Oregon State University
GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation
Dorrie Main, Washington State University;
Taein Lee, Washington State University;
Ping Zheng, Washington State University;
Sook Jung, Washington State University;
Stephen P. Ficklin, Washington State University;
Jodi Humann, Washington State University;
Jill Wegrzyn, University of California, Davis;
David Neale, University of California, Davis
CartograTree: Connecting Forest Tree Genomes, Phenotypes, and Environment
Hans Vasquez-Gross, University of California Davis;
Ben Figueroa, University of California, Davis;
John Yu, University of California, Davis;
Damian Gessler, University of Arizona;
David Neale, University of California, Davis;
Jill Wegrzyn, University of California, Davis
Pathway Modeling for Citrus Variation
Jose Carbonell, Institute for Genomcis and Computational Medicine, CIPF;
Nicolas Desoignies, Institute for Genomcis and Computational Medicine, CIPF;
Roberto Alonso, Institute for Genomcis and Computational Medicine, CIPF;
Javier Terol, Centro de Genomica, IVIA;
Manuel Talon, Centro de Genómica, IVIA;
Joaquin Dopazo, Institute for Genomcis and Computational Medicine, CIPF;
Ana Conesa, Institute for Genomcis and Computational Medicine, CIPF
