Agenda

Download the 2014 Meeting Guide (pdf)

Wednesday May 28, 2014

7:30 - 8:30 American Breakfast Buffet      Sponsored by NEB
8:30 - 8:45 Welcome Intro from Los Alamos National Laboratory TBD
x Session Chairs Chair: Donna Muzny &
Chair: Bob Fulton
8:45 - 9:30 Recent Advances in Cancer Genomics Rick Wilson
Sponsored by Sage Science
9:30 - 9:50 Genomics on Google Cloud Platform: Store, Process, Explore and Collaborate Jonathan Bingham
9:50 - 10:10 Rapid cloud-based data processing and analysis of >15,000 whole exomes in a collaborative setting promotes novel gene discovery Narayanan Veeraraghavan
10:10 - 10:40  Beverages and Snacks Provided Sponsored by DNAnexus
10:40 - 11:00 The Contiguity is Near  ---  PacBio Steve Turner
11:00 - 11:20 illumina NGS update  ---  illumina Kelly Hoon
11:20 - 11:40 The Ion PGM® Hi-QTM Sequencing Polymerase: Reducing Systematic Error, Increasing Accuracy, and Improving Read-length   --  Thermo Anelia Kraltcheva
11:40 - 12:20 Next Generation Sequencing Technology Panel Discussion Chair: Bob Fulton                  
Chair: Patrick Chain
12:20 - 1:45pm Coronado Lunch Buffet      Sponsored by PacBio
x Session Chairs Chair: Tina Graves                               Chair: Darren Grafham
1:45 - 2:00 Enabling Sequence-based Technologies for Clinical Diagnostics: FDA Division of Microbiology Devices Perspective  Heike Sichtig
2:00 - 2:15 FDA GenomeTrakr: building an international public heath lab network for foodborne pathogen tracking Ruth Timme
2:15 - 2:30 The BCM-HGSC Clinical Exome: from concept to implementation Christian Buhay
2:30 - 2:45 High Speed Variant Finding in Adenocarcinoma of the Lung using WGS Sterling Thomas
2:45 - 3:00 Sequence analysis of plasmid diversity amongst hospital-associated carbapenem-resistant Enterobactericeae  Sean Conlan
3:00 - 3:15 Whole Genome Sequencing of Respiratory Viruses From Clinical Nasopharyngeal Swabs Darrell Dinwiddie
3:15 - 3:30 Analyzing TB drug resistance Bette Korber
3:30 - 4:00pm Beverages and Snacks Provided Sponsored by BioNano
x Session Chairs Chair:Mike Fitzgerald                               Chair: Alla Lapidus
4:00 - 4:15 Universal Tail Amplicon sequencing for identification, characterization, classification & rare variant detection using biodefense and public health organisms  Rebecca Colman
4:15 - 4:30 Use of whole genome sequencing to determine the molecular mechanisms responsible for decreased susceptibility and resistance to azithromycin in Neisseria gonorrhoeae David Trees
4:30 - 4:45 Transcriptional signatures in microbial diagnostics Roby Bhattacharyya
4:45 - 5:00 Next generation sequencing (NGS) as an enhanced surveillance tool – the tale of Salmonella enterica serovar Heidelberg outbreaks associated with chicken consumption Eija Trees
5:00 - 5:15 Towards Clinical utility in a next generation sequencing analytical pipeline Darren Grafham
5:15 - 5:30 Genomics Capability Development and Cooperative Research  Helen Cui
5:30 - 5:45 HIV-1 Subtype Surveillance in Kenya: the puzzle of Emerging drug resistance and Implications on Continuing care Raphael Lihana
5:45 - 6:00 Next Generation Sequencing Capability at NCDC – Lugar Center in Georgia Gvantsa Chanturia
6:30 - 8:00 pm Poster Session with Meet & Greet Party (Sponsored by Roche)  Food & Drinks Sponsored by Roche
8:00 - 9:30 pm  Poster Session with Meet & Greet Party (Sponsored by Roche)  Food & Drinks

Sponsored by Roche

Thursday, May 29, 2014

7:30 - 8:30 La Fonda Breakfast Buffet      Sponsored by NEB
8:30 - 8:45 Welcome Intro from Los Alamos National Laboratory TBD
x Session Chairs Chair: Johar Ali                         Chair:Donna Muzny
8:45 - 9:30 Dissecting the Missing Diagnostic Yield in exome sequencing Deanna Church               Sponsored by Personalis
9:30 - 10:00 A de novo Whole Genome Shotgun Assembler for Long Reads  Gene Myers
10:00 - 10:15 Speeding up NGS software development D. Lavenier
10:15 - 10:30 New Frontiers of Genome Assembly with SPAdes 3.1 Anton Korobeynikov
10:30 - 11:00 Beverages and Snacks Provided Sponsored by CLC Bio
11:00 - 11:15 Upgrading large genomes using Pacific Biosciences long reads and PBJelly software  Jeffrey Rogers
11:15 - 11:30 Assembly and Phasing of Polymorphic Heterozygous Diploid Genomes  Jason Chin
11:30 - 11:45 De novo Assembly of Medicago truncatula Genome Lines Using Illumina and Pacific Biosciences Sequencing Technologies  Thiruvarangan Ramaraj
11:45 - 12:00 Illumina sequencing with no artifacts  Zbyszek Otwinowski 
12:00 - 12:15 Near perfect de novo assemblies of eukaryotic genomes using PacBio long read sequencing  James Gurtowski
12:15 - 1:55 New Mexican Lunch Buffet      Sponsored by Promega
x Session Chairs Chair: Tina Graves                               Chair: Bob Fulton
1:55 - 2:10 Anchored Assembly: An Algorithm for Large Structural Variant Detection Using NGS Data Niranjan Shekar
2:10 - 2:20 De Novo Assembly and Structural Analysis Using Extremely Long Single-Molecule Imaging Han Cao
2:20 - 2:30 Human sequence assembly scaffolding using Irys genome maps  Heng Dai
2:30 - 2:45 Efficient de novo assembly of long NGS reads Martin Simonsen
2:45 - 3:00 de novo mammalian assembly of one-library PCR-free 250-base Illumina reads Iain MacCallum
3:00 - 3:15 Creating a Single Haplotype Human Genome Assembly Tina Graves-Lindsay
3:15 - 3:45 Beverages and Snacks Provided Sponsored by BioNano
x Session Chairs Chair: Alla Lapidus                              Chair: Darren Grafham
3:45 - 4:00 Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP) Stephanie Guida
4:00 - 4:15 TE-Tracker: systematic identification of transposition events through whole-genome resequencing Mohammed-Amin Madoui
4:15 - 4:30 Insights from analyzing Clostridium botulinum sequences Karen Hill
4:30 - 4:45 AntibodyMining ToolBox: An Open Source Tool for the Rapid Analysis of Antibody Repertoires Csaba Kiss
4:45 - 5:00 Genome evolution and GC patterns driven by recombination Anitha Sundararajan
5:00 - 5:15 Comprehensive identification of structural variants in a robustly characterized personal human genome William J Salerno
5:15 - 5:30 Methyl Sequencing, Dissecting the Subtleties of the Differentiated and Un-differentiated Genome Masoud Toloue
6:00 - 8:00pm Happy Hour at Cowgirl Cafe - Sponsored by illumina - Map Will be Provided Sponsored by illumina
8:00 - bedtime Dinner and Night on Your Own - Enjoy!!! x

Friday, May 30, 2014

7:30 - 8:30 Harvey House Breakfast Buffet      Sponsored by NEB
8:30 - 8:45 Welcome Intro from Los Alamos National Laboratory TBD
x Session Chairs Chair: Patrick Chain                        Chair: Alla Lapidus
8:45 - 9:30 The fly biome: Dispersal of Human Pathogens by Airborne Mechanical Vectors Stephan Schuster
Sponsored by Advanced Analytic
9:30 - 10:00 Multigenerational exposure to the Chernobyl environment in bank voles alters the mitochondrial genome  Robert Baker
10:00 - 10:15 Functional profiling of genomic fragments with Sequedex Ben McMahon
10:15 - 10:30 Rare OTUs Reveal Oral Microbiome Seeding Relationship between Tsimane Mother-Infant Dyads Who Practice Premastication Joe Alcock
10:30 - 11:00 Beverages and Snacks Provided Sponsored by Kapa Biosystems
11:00 - 11:15 Optimization of Metagenomic Methods for TEDDY Microbiome Study  Ginger Metcalf
11:15 - 11:30 Assessing the sensitivity of viral metagenomics  Nadim Ajami
11:30 - 11:45 Viral Metagenome Pipeline Christian Olsen
11:45 - 12:00 Recruiting human microbiome shotgun data to site-specific reference genomes  Gary Xie
12:00 - 12:15 Analysis of Mixtures Using Next Generation Sequencing (NGS) of Mitochondrial DNA: Forensic Applications  Henry Erlich
12:15 - 12:30 Selective Depletion of Abundant RNAs to Enable Transcriptome Analysis of Low Input and Highly Degraded RNA from FFPE Breast Cancer Samples  Bradley Langhorst
12:30 - 1:45 Santa Fe Deli Lunch Buffet      Sponsored by MRI
x Session Chairs Chair: Mike Fitzgerald                               Chair: Darren Grafham
1:45 - 2:00 A Targeted Sequencing Approach to Enable Enhanced Sensitivity in Variant Detection Bob Fulton
2:00 - 2:15 De Novo Mapping with Solid-State Detectors John Oliver
2:15 - 2:30 Further improvements to Illumina library preparation from challenging samples Maryke Appel
2:30 - 2:45 Technology advancements in large insert PacBio library construction for targeted sequencing Min Wang
2:45 - 3:00 Tools of the trade: resolving repetitive and complex regions in genomes using next-generation sequencing technologies and manual genome finishing Aye Wollam
3:00 - 3:15 Closing Discussions for General Meeting - discuss next year's meeting………..Now go out and enjoy Santa Fe! Chair: Chris Detter
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