3180
The Resurgence of Reference Quality Genome Sequence

Date: Tuesday, January 12, 2016
Time: 4:00 PM-6:10 PM
Room: Pacific Salon 1
Organizer:
Michael Schatz
4:00 PM
The Resurgence of Reference Quality Genomes
Michael Schatz, Cold Spring Harbor Laboratory; Hayan Lee, Stony Brook University; James Gurtowski, Cold Spring Harbor Laboratory; Shinjae Yoo, Brookhaven National Laboratory; Maria Nattestad, Cold Spring Harbor Laboratory; Shoshana Marcus, City University of New York; Sara Goodwin, Cold Spring Harbor Laboratory; W. Richard McCombie, Cold Spring Harbor Laboratory

4:20 PM
High Quality, Highly Contiguous Genome Assemblies Now
Nicholas H. Putnam, Dovetail Genomics; Brendan O'Connell, Dovetail Genomics; Jonathan C. Stites, Dovetail Genomics; Brandon J. Rice, Dovetail Genomics; Andrew Fields, Dovetail Genomics; Paul D. Hartley, Dovetail Genomics; Charles W. Sugnet, Dovetail Genomics; David Haussler, UC Santa Cruz; Daniel S. Rokhsar, DOE Joint Genome Institute; Richard E. Green, UC Santa Cruz

4:40 PM
Scalable Parallel Algorithms for de novo Assembly of Complex Genomes
Evangelos Georganas, Lawrence Berkeley National Laboratory; Aydin Buluc, Lawrence Berkeley National Laboratory; Jarrod Chapman, DOE Joint Genome Institute; Steven Hofmeyr, Lawrence Berkeley National Laboratory; Rob Egan, DOE Joint Genome Institue; Chaitanya Aluru, UC Berkeley; Leonid Oliker, Lawrence Berkeley National Laboratory; Daniel S. Rokhsar, DOE Joint Genome Institute; Katherine Yelick, Lawrence Berkeley National Laboratory

5:00 PM
Using PacBio Long Reads to Generate a High Quality Reference for the Allotetraploid Coffea arabica and its Maternal Diploid Ancestor Coffea eugenioides
Marcela Yepes, Cornell University/ School of Integrative Plant Sciences/ Plant Pathology and Plant Microbe Biology Section; Alvaro Gaitan, Centro Nacional de Investigaciones de Cafe, CENICAFE; Marco A. Cristancho, Colombian Center for Bioinformatics and Computational Biology (Bios); Luis Fernando Rivera, Colombian Center for Bioinformatics and Computational Biology (Bios); Juan Carlos Correa, Colombian Center for Bioinformatics and Computational Biology (Bios); Carlos Ernesto Maldonado, Centro Nacional de Investigaciones de Cafe, CENICAFE; Carmenza E. Gongora, Centro Nacional de Investigaciones de Cafe, CENICAFE; Andres Mauricio Villegas, Centro Nacional de Investigaciones de Cafe, CENICAFE; Huver Posada, Federacion Nacional de Cafeteros de Colombia (FNC)/ Centro Nacional de Investigaciones de Café (CENICAFE); Aleksey Zimin, University of Maryland; James A Yorke, University of Maryland; Keithanne Mockaitis, Indiana University; Herb Aldwinckle, Cornell University/ School of Integrative Plant Sciences/ Plant Pathology and Plant Microbe Biology Section

5:20 PM
MaSuRCA Mega-Reads Assembly Technique for Haplotype Resolved Genome Assembly of Hybrid PacBio and Illumina Data
Aleksey Zimin, University of Maryland; James A. Yorke, University of Maryland; Guillaume Marcais, Insitutte for Physical Science and Technology

5:40 PM
How to Compare and Cluster Every Known Genome in about an Hour
Sergey Koren, National Human Genome Research Institute, National Institutes of Health; Brian D Ondov, National Biodefense Analysis and Countermeasures Center; Todd J. Treangen, National Biodefense Analysis and Countermeasures Center; Adam B Mallonee, National Biodefense Analysis and Countermeasures Center; Nicholas H. Bergman, National Biodefense Analysis and Countermeasures Center; Adam M Phillippy, National Human Genome Research Institute, National Institutes of Health

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