RNA-Seq Conference – Final Agenda

RNA-Seq Insights into the Active Genome

Part of the X-Gen Congress and Expo
March 14-18 San Diego, CA

Transcriptomics underpins many fields of biological science. While RNA-Seq is perhaps the most complex NGS application, the determination of expression levels of specific genes, differential splicing, and allele-specific expression of transcripts addresses many biological-related issues. These range from basic cellular function to the understanding of biological vents that govern the development and progression of disease. NGS is transforming our understanding of transcriptomes and giving new biological insights into the “active genome.”

(download the final agenda… )

Day 1 – Wed, March 16th

Plenary Keynote Session:
The Personal Impact of Sequencing from Patient to Population

It Takes a Village
Hugh Rienhoff, M.D., Director, MyDaughtersDNA.org

Data-Driven Personalized Medicine
Atul Butte, M.D., Ph.D., Assistant Professor, Pediatrics, Medicine, Computer Science, Stanford University, Lucille Packard Children’s Hospital

Clinical Significance of Indigenous Genome Sequencing
Vanessa Hayes, Ph.D., Professor, Human Genomics, J. Craig Venter Institute

Luncheon Presentation Sponsored by: Agilent Technologies


RNA-Seq in Solving Real World Biological Problems
Erik Flemington, Ph.D., Professor, Pathology, Tulane Health Sciences Center; Professor, Cancer Research, Program Leader, Cancer Genetics program, Tulane Cancer Center

Integrating Short, Long, and Paired-End Sequencing to Study Dynamic Transcriptomes During Neural Differentiation of Human Embryonic Stem Cells
Jiaqian Wu, Ph.D., Postdoctoral Research Fellow, Genetics, Stanford University School of Medicine

Scaffolding a Caenorhabditis nematode Genome with RNA-Seq
Ali Mortazavi, Ph.D., California Institute of Technology (invited)

The Transcriptome of the Human Pathogen Trypanosoma brucei at Single-Nucleotide Resolution
Christian Tschudi, Ph.D., Associate Professor, Epidemiology of Microbial Diseases, Yale University

Widespread and Unexpected Effects of RDR2 Mutation on the Expression of Transposons, Genes and 24 NT Small RNAs
Yi Jia, Ph.D., Postdoctoral Associate, Department of Plant Breeding and Genetics, Cornell University

Day 2 – Thurs, March 17th

Targeted Sequencing

Targeted Sequencing in Cancer Genomics
Olivier Harismendy, Ph.D., Assistant Project Scientist, Moores Cancer Center, University of California, San Diego

RNA-Seq Analysis of the Innate Immune Response Using Scripture
Manuel Garber, Senior Computational Biologist, Computational Biology, Broad Institute

Talk Title to be Announced Sponsored by Beckman Coulter
Speaker to be Announced

Flowcell-Based, Strand-Specific, Unbiased RNA Sequencing
Lira Mamanova, Ph.D., Staff Scientist, R&D Sequencing Technology Group, Wellcome Sanger Institute

Noncanonical Transcripts in Yeast and Human Surveyed Using 3′-End RNA-Seq
Oh Kyu Yoon, Ph.D., Postdoctoral Fellow, Molecular & Cell Biology, University of California, Berkeley

CONCURRENT TRACKS – Create Your Own Agenda

Data Analysis

Featured Speaker: Statistical Methods and Software for High-Throughput Gene Expression Experiments Using mRNA-Seq
Sandrine Dudoit, Ph.D., Professor, Biostatistics and Statistics, University of California, Berkeley

Sponsored by:   DNAStar

Software Drive Presentation Using Transcriptomics to Identify the Algal Lipid Trigger
Christopher Yohn, Ph.D., Section Leader, Sapphire Energy

Statistical Methods for the Analysis of RNA-Seq Data
Wei Li, Ph.D., Assistant Professor, Biostatistics, Molecular and Cellular Biology, Baylor College of Medicine

Unveiling Transcriptome Structure by Accurate Mapping of RNA-Seq Reads
Jinze Liu, Ph.D., Assistant Professor, Computer Science, University of Kentucky

Plant Transcriptomes

Integration of the Soybean Transcriptome and
Genome Sequence: A Powerful Combination to Investigate Soybean Comparative and Functional Genomics
Marc Libault, Ph.D., Research Scientist, Plant
Sciences, University of Missouri

De novo Transcriptome Sequencing of Waterhemp, Amaranthus Tuberculatus, and Its Application for
Studies of Herbicide Target-Site Genes
Chance Riggins, Ph.D., Postdoctoral Research
Associate, Department of Crop Sciences, University of Illinois, Urbana

Using mRNA-Seq to Understand Glycine Max-
Phakopsora pachyhrizi Interaction
Arianne Tremblay, Ph.D., Research Associate,
Agricultural Research Center, USDA

Dissecting Gene Regulatory Networks in Plants through Identification of DNA Binding Sites and Cell Type-Specific Analysis of the Transcriptome and Translatome
Hans Holtan, Ph.D., Principal Scientist, Expression Profiling & Systems Biology, Mendel Biotechnology, Inc.

Day 3 – Fri, March 18th

Plenary Session: Sequencing Selects
X-Gen Congress and Expo is proud to launch Sequencing Selects. Matching the NGS platform or service provider for your research project is a balancing act of cost-quality-quantity. The best qualified people to help answer these questions are customers. Hear real-world experiences
from selected users hosted by NGS platform and service providers. Compare, contrast, and come away with concrete conclusions.

Next-Next Generation Sequencing

Recognition Tunneling for DNA Sequencing
Stuart Lindsay, Ph.D., Professor, Physics and Chemistry Director, Center for Single Molecular Biophysics, Arizona State University

Low-Cost Diagnostic DNA Sequencer
Stephen J. Gordon, Ph.D., President & CEO, Intelligent Bio-Systems, Inc.

Moving Polony Sequencing into the Third Generation
Jeremy S. Edwards, Ph.D., Co-Director, Mathematical Modeling, New Mexico Spatiotemporal Modeling Center

Rapid Single Molecule Level Genomic Analysis Using Disposable Nanochannel Arrays
Gary Zweiger, Ph.D., Vice President, Business Development, BioNanomatrix, Inc.

Nanopore DNA Sequencing with MspA
Jens Gundlach, Ph.D., Professor, Biological Physics, University of Washington