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SAMPLE PREPARATION WORKSHOP PRESENTATIONS


BIOINFORMATICS WORKSHOP PRESENTATIONS


USER GROUP MEETING PRESENTATIONS

In Pursuit of Perfect Genome Sequencing
Michael Schatz, Ph.D., Bloomberg Distinguished Associate Professor of Computer Science and Biology, Johns Hopkins University and Cold Spring Harbor Laboratory
 
Detecting Structural Variants in PacBio Reads – Tools and Applications
Aaron Wenger, Ph.D., Staff Scientist, PacBio
 
Full-length 16S rRNA Gene Sequencing (and Longer) for Microbiome Analysis
Jethro Johnson, Ph.D., Postdoctoral Associate, The Weinstock Lab, The Jackson Laboratory for Genomic Medicine
 
SMRT-cappable-seq Reveals the Complex Operome of Bacteria
Bo Yan, Ph.D. Postdoc, New England Biolabs (NEB)
 
Quantification of CAG Repeat Instability in Huntington’s Disease
Ricardo Mouro Pinto, Ph.D., Instructor in Neurology, Center for Genomic Medicine, Massachusetts General Hospital, Harvard Medical School
 
Using SMRT Iso-Seq Sequencing to Dissect Polyploid Transcriptomes: Lesson Learned from Tetra- and Hexaploid Blueberries
Hamid Ashrafi, Ph.D., Assistant Professor, Department of Horticultural Science, North Carolina State University
 
SQANTI: Extensive Characterization of Long-read Transcript Sequences for Quality Control in Full-length Transcriptome Identification and Quantification
Manuel Tardaguila, Ph.D., Department of Microbiology and Cell Science, University of Florida

Consumables Products/Multiplexing Updates
Paul Kotturi, Ph.D., Senior Product Manager, PacBio
 
Iso-Seq and Target Enrichment Updates
Tyson Clark, Ph.D., Director, Applications Development, PacBio

SMRTbell Library Prep Updates
Sonny Mark, Manager, Field Applications Scientist, PacBio
 
Software and Data Analysis Updates
Roberto Lleras, Manager, Field Applications Scientist, Bioinformatics, PacBio


BREAKOUT SESSION I 

Amplicon Sequencing
Sonny Mark, Manager, Field Applications Scientist, PacBio

Rescuing Ebola Makona Using Reverse Genetics and SMRT Sequencing

David Kimmel, Research Technician, USAMRIID

BREAKOUT SESSION II 

Best Practices for Large Insert Libraries and Sequel System Sequencing
Melissa Smith, Ph.D., Assistant Director of Technology Development, Icahn Institute for Genomics and Multiscale Biology, Department of Genetics and Genomics Sciences, Icahn School of Medicine at Mount Sinai

Preparing extra-long DNA fragments for RS II and Sequel applications
Sara Goodwin, Ph.D., Manager of Technology Development, Cold Spring Harbor Laboratory

Microbial Multiplexing 16X Listeria monocytogene
Maria Hoffmann, Ph.D., Research Genome Microbiologist, FDA-CFSAN

Large Insert Library Prep/De Novo Assembly
Sonny Mark, Manager, Field Applications Scientist, PacBio


BREAKOUT SESSION III
 
Target Enrichment Sequencing
Tyson Clark, Ph.D., Director, Applications Development, PacBio
 
Iso-Seq Method and Analysis
Tyson Clark, Ph.D., Director, Applications Development, PacBio


BREAKOUT SESSION IV

Service Provider Operations
Overview Slides

Genomics Resource Center Overview
Luke Tallon, Scientific Director, Genomics Resource Center, Institute for Genome Sciences, University of Maryland


Longest Reads and Maximum Output: GENEWIZ’s Best Practices for PacBio Sequel Sequencing
David Corney, Ph.D., Senior Scientist, GENEWIZ

University of Delaware Sequencing & Genotyping Center
Erin Bernberg, Ph.D., Associate Scientist, University of Delaware

Icahn School of Medicine at Mount Sinai Technology Development Team
Melissa Smith, Ph.D., Assistant Director of Technology Development, Icahn Institute for Genomics and Multiscale Biology, Department of Genetics and Genomics Sciences, Icahn School of Medicine at Mount Sinai
 

 

Minor Variant Detection with Juliet
Roberto Lleras, Manager, Field Applications Scientist, Bioinformatics, PacBio
 
Structural Variant Detection with PBSV
Aaron Wenger, Ph.D., Staff Scientist, PacBio
 
Understanding, Curating, and Analyzing Your Diploid Genome Assembly
Sarah Kingan, Ph.D., Senior Scientist, Bioinformatics, PacBio
 
Chromosome-scale De Novo Assembly of Mammalian Genomes Using Chromatin Interaction Data
Jay Ghurye, Ph.D. Candidate, Department of Computer Science, University of Maryland
 
Keynote: Accurate Detection of Complex Structural Variation
Fritz J. Sedlazeck, Ph.D., Human Genome Sequencing Center, Baylor College of Medicine

Please note that not all speakers have given permission to share their presentations. Those that have are listed below.