2019 Agenda

Wednesday, February 27

*Abstract Selected Talk
11:00 aM – 8:00 PM
Meeting Registration
Calusa Ballroom Foyer  

Plenary Session

Genomics I (Elaine Mardis, The Institute for Genomic Medicine at Nationwide Children’s Hospital, Chair)

Calusa Ballroom 6 – 12

5:00 PM – 5:05 PM
Opening Remarks – Richard Wilson
The Institute for Genomic Medicine at Nationwide Children’s Hospital, Board Member and Co-Founder of AGBT
5:05 PM – 5:35 PM
Alex Kentsis, Memorial Sloan Kettering Cancer Center
“Why do young people get cancer?”
5:35 PM – 6:05 PM
Ben Raphael, Princeton University

“Copy number aberrations in cancer: past, present, and future”.

6:05 PM – 6:25 PM
*Sanja Vickovic, Broad Institute of MIT and Harvard
“Spatial mapping of host-microbiome interactions in the gut”
6:25 PM – 6:45 PM
*JOSHUA COHEN, JOHNS HOPKINS UNIVERSITY “Detection and localization of surgically resectable cancers with a multi-analyte blood test”
7:00 PM – 10:00 PM
Welcome Reception
On the Beach

Thursday, February 28, Morning

7:30 am – 9:00 aM
Sunset Terrace
8:00 am – 3:00 aM
Meeting Registration
Calusa Ballroom Foyer

Plenary Session:

Technology I  (Beth Shapiro, University of California, Santa Cruz, Chair) 

Calusa Ballroom 6 – 12

9:00 am – 9:30 AM
Aviv Regev, Broad Institute of MIT and Harvard

“Cell atlases as road maps to human disease”

9:30 am – 10:00 AM
Elodie Ghedin, New York University

“Neo Y and Neo X: tracking sex chromosome evolution in parasitic nematodes of humans”

10:00 am – 10:20 AM
*Michael Schatz, Johns Hopkins University
“100 genomes in 100 days: The structural variant landscape in tomato genomes”
10:20 am – 10:50 AM
Coffee Break
Sponsors’ Promenade, Levels 1 and 2
10:50 am – 11:10 AM
*Hagen Tilgner, Weill Medical College of Cornell University
“Isoform sequencing in tissues, cell types and thousands of cells”
11:10 am – 11:30 AM
*Tyson Clark, GenapSys

“Electrical detection of single base incorporations enables high accuracy sequencing on a small scalable platform”

11:30 am – 11:50 AM
Poster Flash Talks, (Martin Hirst, University of British Columbia, Chair)

Thursday, February 28, Afternoon

12:00 pm – 1:00 pM
10X Genomics Silver Sponsor Workshop

Palms Ballroom | Complimentary Lunch Provided 
“Gain a multidimensional view of complex systems”

12:00 pm – 1:00 pM
AGBT Lunch
Sunset Terrace
1:00 pm – 2:30 pM
Poster Session with Coffee & Dessert

Banyan Ballroom, Level 1

Plenary Session:

Evolutionary Genomics (Len Pennacchio, Lawrence Berkeley National Laboratory, Chair)

Calusa Ballroom 6 – 12

2:30 pm – 3:00 pM
Holly Bik, University of California, Riverside

Visualizing the unknown: a new frontier for exploring microbiome data”

3:00 pm – 3:30 pM
Andrew Clark, Cornell University

“Heterochromatin and genome evolution”

3:30 pm – 3:50 pM
*Hadas Keren-Shaul, Weizmann Institute of Science
“Single cell-RNA-seq identifies a unique microglia type associate with Alzheimer’s disease”
3:50 pm – 4:10 pM
*Daniel Neafsey, Harvard T.H. Chan School of Public Health
“Rewinding the tape: Historical pathogen population genomics using selective genome enrichment to identify non-classical drug resistance mechanisms”
4:20 pm – 5:20 pM
NanoString Silver Sponsor Workshop

Palms Ballroom | Complimentary refreshments provided 

Joseph M. Beechem, Sr. V.P. of Research & Development, NanoString Technologies
“GeoMxTM Digital Spatial Profiler:  Delivering on the promise of Spatial Genomics”

Peter Nelson, Member, Divisions of Human Biology and Clinical Research, Fred Hutchinson Cancer Research Center
“Mapping the microenvironment composition in metastatic prostate cancer by multi-analyte profiling using the GeoMx Digital Spatial Profiler”

John McPherson, Deputy Director and Associate Director for Basic Science at UC Davis Comprehensive Cancer Center
“Spatially resolving RNA biomarkers using GeoMx Digital Spatial Profiler for early diagnosis and prognosis in melanoma”

Thursday, February 28, Evening

5:20 pm – 7:15 pM
Dinner on your own
5:30 pm – 7:15 pM
Women’s Networking Event
Calusa Terrace

Concurrent Session:

Computational Biology, (Mike Zody, New York Genome Center, Chair)

Calusa Ballroom 6 – 12

7:30 pm – 7:50 pM
Yaniv Erlich, Columbia University/MyHeritage
“Identity inference of genomic data using long-range familial searches”
7:50 pm – 8:10 pM
Richard Green, University of California, Santa Cruz
“Detecting archaic human ancestry using a fast algorithm for ancestral recombination graph inference”
8:10 pm – 8:30 pM
Beryl Cummings, Broad Institute of MIT and Harvard
“Transcript expression-aware annotation increases power for rare variant discovery in Mendelian and complex disease”
8:30 pm – 8:50 pM
Joshua Levin,  Broad Institute of MIT and Harvard
“Human brain organoids that reproducibly generate the cellular diversity of the neocortex”
8:50 pm – 9:10 pM
Arend Sidow, Stanford University
“Reference-assisted de novo assembly of diploid human genomes on the basis of read cloud data and the comprehensive characterization of structural variants in personal genomes”
9:10 pm – 9:30 pM
Mikhail Kolmogorov, University of California, San Diego
“Assembly of long error-prone reads using repeat graphs”

Concurrent Session:

Cancer (John McPherson, University of California, Davis, Chair)

Calusa Ballroom 1 – 5

7:30 pm – 7:50 pM
Catherine Cottrell, Nationwide Children’s Hospital
“Design and implementation of a comprehensive genomic profiling protocol for rare and refractory pediatric cancer and hematologic disease”
7:50 pm – 8:10 pM
Sergey Aganezov, Johns Hopkins University  
Reconstructing haplotype-specific cancer genome karyotypes with multiple sequencing technologies
8:10 pm – 8:30 pM
Joseph Boland, National Cancer Institute
“Understanding the role of HPV Integration on the stability of the human genome from pre-cancer to cancer”
8:30 pm – 8:50 pM
Zarko Manojlovic, University of Southern California Institute of Translational Genomics
“Comprehensive molecular profiling of metastatic disease in prostate cancer”
8:50 pm – 9:10 pM
Katherine McNamara, Stanford University
“Spatial and temporal profiling of protein and RNA in the tumor-immune microenvironment during short-term targeted therapy in HER2-positive breast cancer using GeoMx™ Digital Spatial Profiler”
9:10 pm – 9:30 pM
Jiannis Ragoussis, McGill University
“Single cell DNA-seq and single cell RNA-seq of 20,000 Glioblastoma cells identifies, heterogeneity, clonal evolution and replication patterns associated with progenitor cells”
9:30 pM
Passport to Prizes

Sponsors’ Promenade Levels 1&2, and Lanai Suites

Friday, march 1, Morning

7:30 am – 9:00 aM
Sunset Terrace

Plenary Session:

Genomics II (Christopher Mason, Weill Cornell Medicine, Chair)

Calusa  Ballroom 6 – 12

9:00 am – 9:30 aM
Wendy Bickmore, The University of Edinburgh
Spatial organization of the human genome”
9:30 am – 10:00 aM
John Charles, NASA Johnson Space Center (retired)
“From here to Mars: How the Twins Study and the year-long ISS mission have moved us closer to the red planet”
10:00 am – 10:20 aM
*Wilfried Haerty, Earlham Institute
“Characterization of splicing diversity and gene fusions through Nanopore sequencing”
10:20 am – 10:50 aM
Coffee Break

Sponsors’ Promenade, Levels 1&2

10:50 am – 11:10 aM
*Karen Miga, University of California, Santa Cruz

“Generating high-quality reference human genomes using PromethION nanopore sequencing”

11:10 am – 11:30 aM
*Ivan Liachko, Phase Genomics, Inc

“Linking the resistome to the microbiome: A culture-free method    to link plasmid, virus, and antimicrobial resistance genes to their hosts in complex microbial populations”

11:30 am – 11:50 PM
Poster Flash Talks (Federica Di Palma, Earlham Institute, University of East Anglia, Chair)

Friday, march 1, Afternoon

12:00 Pm – 2:00 PM
Twist Bioscience Gold Sponsor Workshop

Complimentary Lunch Provided | Palms Ballroom

Emily Leproust, Chief Executive Officer, Twist Bioscience
William Lee, Vice President of Bioinformatics, Helix
Renata Pellegrino, Technical Laboratory Director, The Center For Applied Genomics at The Children’s Hospital of Philadelphia
Brendan Blumenstiel, Associate Director, Broad Institute of MIT and Harvard
Pertteli Salmenperä, PhD, Molecular Technologies Director, Blueprint Genetics
“Leading the way in Target Enrichment: Exceptional performance, improved efficiency and rapid customization of targeted sequencing.”

12:00 Pm – 2:00 PM
AGBT Lunch
Sunset Terrace

Bronze Sponsor Workshops

Calusa Ballroom 6 – 12

2:15 Pm – 2:35 PM
BD Biosciences

Christina Chang, Senior Scientist, BD Life Sciences
“Multi-omics analysis in single cells”

2:35 Pm – 2:55 PM
New England Biolabs

Jennifer IshiiSequencing Development Manager, The New York Genome Center
“Advances in genome-wide methylation profiling”

2:55 Pm – 3:15 PM

Kevin Corcoran, Vice President & General Manager, Agilent
New developments in Next Generation Sequencing from Agilent”

3:15 Pm – 3:30 PM

Arvind Kothandaraman, Director of the NGS Product Portfolio, PerkinElmer
“Sample prep, simplified”

3:30 Pm – 3:45 PM

Jonas Korlach, Chief Scientific Officer, Pacific Biosciences
“Sequence with confidence: The next evolution of SMRT(R) sequencing”

3:45 Pm – 4:00 PM
Roche Sequencing

Rachel Kasinskas, Director of Support and Applications, Roche Sequencing
“Harnessing the versatility of KAPA RNA HyperPrep for challenging samples and custom depletion”

4:00 Pm – 4:15 PM
Thermo Fisher Scientific

Geoffrey Lowman, Sr. Staff Scientist, Molecular Biology, Thermo Fisher Scientific
“Emerging next-generation sequencing solutions for T-cell receptor repertoire analysis”

4:15 Pm – 4:27 PM

Jonathan Shaffer, Associate Director, NGS Assay Product Development
“Next generation QIAseq: Sequence what matters using kits with enhanced throughput, sensitivity and usability”

4:27 Pm – 4:39 PM
Promega Corporation

Douglas Horejsh, Senior Research Scientist
A collaborative solution provider for genome biology and sequencing workflows”

4:40 PM – 6:10 PM

Poster Session and Wine Reception

Banyan Ballroom, Level 1

Friday, March 1, Evening

6:15 Pm – 7:25 PM
AGBT Dinner

On the Beach

Concurrent Session:

Technology (Martin Hirst, University of British Columbia, Chair)

Calusa Ballroom 6 – 12

7:30 Pm – 7:50 PM
Samuel Rodriques, Massachusetts Institute of Technology
“An RNA ticker tape for recording the transcriptional dynamics of cells”
7:50 Pm – 8:10 PM
Mike Hunkapiller, Pacific Biosciences
High fidelity long reads for comprehensive genomic analysis”
8:10 Pm – 8:30 PM
Georg Seelig, University of Washington
“Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding”
8:30 Pm – 8:50 PM
Pol Van Dorpe, IMEC
“Label-free identification of single nucleobases in a DNA strand using surface enhanced Raman spectroscopy in solid state nanoslits”
8:50 Pm – 9:10 PM
Michael Wiley, University of Nebraska
“Rapid deployment of an illumina iSeq100 for accurate whole viral genome sequencing from clinical samples during an Ebola virus disease outbreak using the Nextera DNA flex library Prep kit followed by a newly developed targeted enrichment strategy”
9:10 Pm – 9:30 PM
Jason Underwood, Pacific Biosciences
“Single cell isoform sequencing (scIso-Seq) identifies novel full-length mRNAs and cell type-specific expression”

Concurrent Session:

Biology (Penelope Bonnen, Baylor College of Medicine, Chair)

Calusa Ballroom 1 – 5

7:30 Pm – 7:50 PM
Gavin Oliver, Mayo Clinic
A novel approach to fusion transcript identification yields new diagnoses in rare Mendelian disease”
7:50 Pm – 8:10 PM
Dina Zielinski, Institut Curie
“Rare variant analysis of human neurodegenerative disorders guided by high-throughput yeast screens for alpha-synuclein toxicity”
8:10 Pm – 8:30 PM
Manuel Garber, University of Massachusetts Medical School
“Mapping and functionally characterizing complex regulatory interactions”
8:30 Pm – 8:50 PM
Manolis Kellis, Broad Institute of MIT and Harvard
“Single cell dissection”
8:50 Pm – 9:10 PM
Edward Rice,  University of Nebraska, Lincoln
“Chromosome-length haplotigs for cattle and yak from    trio-binning assembly of an F1 hybrid”
9:10 Pm – 9:30 PM
Joanna Kelley, Washington State University
“Widespread transcriptional remodeling in metabolic tissues of the grizzly bear”

Saturday, March 2, Morning

7:30 am – 9:00 aM
Sunset Terrace

Plenary Session:

Genetics (Federica Di Palma, Earlham Institute, University of East Anglia, Chair)

Calusa Ballroom 6 – 12

9:00 AM – 9:30 AM
Katherine Pollard, Gladstone Institute of Data Science & Biotechnology, University of California, San Francisco, Chan-Zuckerberg Biohub

“A population genetic view of human chromatin organization”

9:30 AM – 10:00 AM
Stephen Montgomery, Stanford University School of Medicine

“Functional genomics for rare variants and rare diseases”

10:00 AM – 10:20 AM
*Stephen Lincoln, Invitae
A rigorous study of the need for Sanger confirmation in clinical genetic testing”
10:20 AM – 10:50 AM
Coffee Break

Sponsors’ Promenade, Levels 1&2  

10:50 AM – 11:10 AM
*Andrew Mungall, Canada’s Michael Smith Genome Sciences Centre
“Genomic and epigenomic characterization of HIV+ cervical carcinoma in Uganda”
11:10 AM – 11:30 AM
*Konrad Karczewski, Broad Institute of MIT and Harvard

“Variation across 141,456 human exomes and genomes reveals the spectrum of loss-of-function intolerance in human protein-coding”

11:30 AM – 11:50 AM
*Adam Phillippy, National Human Genome Research Institute

“Telomere-to-telomere assembly of a complete human X chromosome”

12:00 AM – 1:00 PM
Illumina Silver Sponsor Workshop

Complimentary lunch provided | Palms Ballroom

Gary Schroth, Distinguished Scientist, Illumina, Inc.
Shawn Levy, Director, HudsonAlpha Institute for Biotechnology
“HiSeq, NovaSeq, and iSeq: Project transitions to leverage larger scale sequencing”

12:00 PM – 1:20 PM
AGBT Lunch
Sunset Terrace

Saturday, March 2, Afternoon

Plenary Session:

Technology II (Eric Green, National Human Genome Research Institute, Chair)

Calusa Ballroom 6 – 12

1:30 PM – 2:00 PM
Cole Trapnell, University of Washington
“Single-cell transcriptome analysis at whole-embryo scale”
2:00 PM – 2:30 PM
Chao-Ting Wu, Harvard Medical School
“Looking at chromosomes”
2:30 PM – 3:00 PM
Tuuli Lappalainen, New York Genome Cente
“Functional variation in the human genome: Lessons from the transcriptome”
3:00 PM – 3:30 PM
Coffee Break
Calusa Ballroom Foyer
3:30 PM – 3:50 PM
*Evan Macosko, Broad Institute of MIT and Harvard
“Slide-Seq: A scalable technology for measuring genome-wide expression at high spatial resolution”
3:50 PM – 4:10 PM
*Roy Tan, MGI Americas

“MGISEQ-T7 sequencer powered by DNBseqTM technology opens a new era of “broadband” sequencing”

4:10 PM – 4:15 PM
Passport Grand Prize Winner Announced
4:15 PM – 4:30 PM
Closing Comments and Meeting Feedback
7:00 PM – 10:00 PM
Farewell Dinner Party
On the Beach
*Abstract Selected Talk