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Bioinformatics: Algorithms

Date: Monday, January 13, 2014
Time: 7:00 AM-10:00 PM
Room: Grand Exhibit Hall
P1055
RNA-Seq-based Genome Annotation using mGene.ngs and MiTie
Gunnar Rätsch, Memorial Sloan-Kettering Cancer Center

P1056
AREOS - a Repeat Element Oriented Short Read Simulator
Daniel R Farias, Federal University of Pelotas; Cristian Chaparro, Instituto Tecnológico Vale ITV; Olivier Panaud, University of Perpignan; Antonio Costa De Oliveira, Federal University of Pelotas

P1057
String Graph Assembly for Diploid Genomes with Long Reads
Jason Chin, Pacific Biosciences; David Rank, Pacific Biosciences; Paul Peluso, Pacific Biosciences

P1058
A Comparison of Assemblers and Strategies for Complex Large Genome Sequencing with PacBio® Long Reads
Jenny Gu, Pacific Biosciences; Richard Hall, Pacific Biosciences; Cheryl Heiner, Pacific Biosciences; Brian Sogoloff, Broad Institute of MIT & Harvard; James Meldrim, Broad Institute of MIT & Harvard; Kristen Connolly, Broad Institute of MIT & Harvard; Terrance Shea, Broad Institute of MIT & Harvard; Carsten Russ, Broad Institute; Christina Cuomo, Broad Institute of MIT & Harvard; Les J. Szabo, USDA-ARS, University of Minnesota

P1059
Anchored Assembly: A Novel Approach for Accurate and Comprehensive Variant Detection in Next-Generation Sequencing Data
Jeremy Bruestle, Spiral Genetics; Becky Drees, Spiral Genetics

P1060
Gene Network Reconstruction By Integration of Biological Prior Knowledge
Yupeng Li, University of Georgia; Scott Jackson, University of Georgia

P1061
Parallel Computing to Speed up Whole-Genome Bayesian Regression Analyses
Hao Cheng, Department of Animal Science, Iowa State University

P1062
A Bayesian Method of QTL Mapping for Multiple Traits in Recombinant Inbred Lines Derived from a Four-Way Cross
Takeshi Hayashi, NARO Agricultural Research Center (NARC); Akio Ohyama, NARO Institute of Vegetable and Tea Science (NIVTS); Hiroyoshi Iwata, The University of Tokyo

P1063
Predicting Combining Ability and the Stability of Genomic Selection
Jason Peiffer, North Carolina State University; Benjamin Lynch, North Carolina State University; Trudy Mackay, North Carolina State University; Eric Stone, North Carolina State University

P1064
Salix purpurea cv. Fish Creek De Novo Transcriptome Evaluation and Gene Expression Analysis Using RNA-Seq Data
Emmanuel Gonzalez, University of Montreal

P1065
Investigation of Chimeric Gene Assembly in a Polyploid Genome
Charles F. Crane, USDA-ARS

P1066
Detecting X-Linked Association with a Variance Test of X-Inactivation
Li Ma, Department of Animal and Avian Sciences, University of Maryland; Alon Keinan, Cornell University

P1067
Bayesian Multi-Phenotype Genome-Wide Association Methods for Experimental Designs of Arbitrary Complexity
Anthony Greenberg, Cornell University; Jason Mezey, Cornell University; Susan McCouch, Cornell University; Jean-Luc Jannink, Cornell University

P1068
Managing Challenging and Unexpected Cluster Patterns When Genotyping Plants and Other Complex Genomes
Ali Pirani, Affymetrix Inc.; Teresa A. Webster, Affymetrix Inc.

P1069
Evaluating Novel Metagenomic Classification Algorithms for Forensic Microbial Detection
Sam Minot, Signature Science, LLC; Krista Ternus, Signature Science, LLC; Stephen Turner, University of Virginia; Jonathan Allen, Lawrence Livermore National Laboratory; Bruce Budowle, University of North Texas Health Science Center; Dana Kadavy, Signature Science, LLC

P1070
Connecting Phenotypes or Traits to Biological Processes and Molecular Functions in Plants
Joachim W. Bargsten, Plant Research International, Wageningen University; Jan-Peter Nap, Plant Research International, Wageningen University; Gabino F. Sanchez Perez, Plant Research International, Wageningen University; Aalt D.J. van Dijk, Plant Research International, Wageningen University

P1071
Inferring Genome-Scale Transcriptional Networks from Large-Scale Gene Expression Data
Jun Li, The Samuel Roberts Noble Foundation; Hairong Wei, Michigan Technological University; Tingsong Liu, The Samuel Roberts Noble Foundation; Patrick Xuechun Zhao, The Samuel Roberts Noble Foundation

P1072
New Eukaryotic Gene Finder Integrating RNA-Seq and Protein Mapping into ab initio Algorithm with Semi-Supervised Training
Alexandre Lomsadze, Georgia Institute of Technology; Hamid Reza Hassanzadeh Hassanzadeh, Georgia Institute of Technology; Paul D Burns, Georgia Institute of Technology; Mark Borodovsky, Georgia Institute of Technology

P1073
Simultaneous Gene Finding in Aligned Genomes
Mario Stanke, University of Greifswald; Stefanie König, University of Greifswald; Lizzy Gerischer, University of Greifswald

P1090
Consideration Of Field Heterogeneities In The Calculation Of Variety Means From Agronomic Trial Data: Comparisons Between A Nearest Neighbor Adjustment Method And Experimental Designs Like Lattices And Latinized Alpha-Designs
Julie Soula, DORIANE Research Software and Services; Tristan Duminil, DORIANE SAS - Research Software and Consulting; Sébastien Bardet, DORIANE Research Software and Services; Jean-Marc Bernard, Biosearch Data Management; Frédéric Royer, Biosearch Data Management

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