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What is your sequencing goal? Genome projects are becoming more numerous and more complex. Matching the NGS platform to your research project includes not only decisions concerning read length and coverage but efficient workflow strategies. Managing sequencing projects include both upstream sequencing runs and downstream data analysis. Moving forward practical knowledge generated from sequencing programs at large-scale sequencing centers must be dispersed and usable by smaller research labs. Hear real-world experiences and solutions from experienced users from large sequencing centers to core laboratories to specialized groups.

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Wednesday, March 16 

7:30 am Conference Registration

8:00 Java and Jive Breakfast Breakout Discussion Groups

These focused groups are designed for conference attendees to discuss important and interesting topics related to sequencing and genomic tools. These are moderated discussions with brainstorming and interactive problem solving, allowing conference participants from diverse areas to exchange ideas, experiences, and develop future collaborations around a focused topic. Complimentary coffee is included.

Please click here for a complete listing of Breakout Discussion Groups.


9:00 Close of Breakout Discussion Groups


9:15 Chairperson's Remarks

Kevin Davies, Ph.D., Editor-in-Chief, Bio-IT World

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

Podcast9:25 It Takes a Village

Hugh RienhoffHugh Rienhoff, M.D., Director, - Biography 

Next-generation sequencing has made possible the study of rare genetic disease where traditional linkage analysis is not possible because of the rarity of the disorder. This description fits more than 2000 familial diseases. But the discovery of the genetic cause of rare disease remains a formidable challenge demanding the talents of many to generate the necessary data that rises to the level of proof of causality. 

10:05 Data-Driven Personalized Medicine

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

Dr. Butte builds and applies tools that convert more than 15 billion points of molecular, clinical, and epidemiological data measured by researchers and clinicians over the past decade into insights into diagnostic and therapeutic potential. Dr. Butte, a bioinformatician and pediatric endocrinologist, will highlight his recent work on the first clinical evaluation of a patient presenting with a personal genome. 

10:45 Networking Coffee Break in Exhibit Hall with Poster Viewing

11:15 Clinical Significance of Indigenous Genome Sequencing

Vanessa HayesVanessa Hayes, Ph.D., Professor, Human Genomics, J. Craig Venter Institute - Biography 

The African continent, birthplace of all modern man, home to a third of the world’s ethnic diversity, and epicenter for many globally significant diseases, has been poorly characterized in genetic terms. With a focus on recently diverged populations, non-migrant Africans have largely been excluded from the era of genomics and therefore disease association studies. Data will be presented from the first indigenous genome sequencing and how defining indigenous genome diversity will advance genotype-phenotype correlations of global significance.

11:55 Close of Session

12:15 pm Luncheon PresentationSponsored by
Agilent Technologies

Understanding Glaucoma through Genome-Wide Targeted Exome Re-Sequencing

Terry Gaasterland, Ph.D., Professor, University of San Diego, CaliforniaPrimary open angle glaucoma is a complex disease with genetic foundations, but to date, with no clear causal gene variants. We are sequencing exomes from ~300 cases to compare with 500+ random controls. This talk will present results from Phase 1 in which we evaluated alternative methods for capture, library preparation, and analysis, and established standards for the full project.    

Sponsored by
12:50 Luncheon Presentation
Partnering for Multi-omics Excellence
Joyce Peng, Ph.D., Marketing Director, BGI Americas
With the diverse analytical technologies now available, we can focus the full spectrum of multi-omics methods on the important research questions that impact agriculture and human health. BGI is deeply committed to supporting multi-omics research by providing our deep sequencing, analytical, and cloud computing resources to our collaborators and clients. Here we present projects that make use of leading-edge genomic, transcriptomic, epigenomic, proteomic, metagenomic, and single-cell sequencing methods, with special focus on research relevant to human disease and agriculture.


CONCURRENT TRACKS - Create Your Own Agenda 



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2:15 Chairperson’s Remarks

Erik Flemington, Ph.D., Professor, Pathology, Tulane Health Sciences Center; Professor, Cancer Research, Program Leader, Cancer Genetics program, Tulane Cancer Center

2:20 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

2:50 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

Sponsored by
Partek New
3:20 Multi-Layer and Integrative Analysis of the Whole Transcriptome in Gastric Cancer

Han Liang, Ph.D., Assistant Professor, Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center

3:50 Networking Refreshment Break in Exhibit Hall with Poster Viewing

4:30 The Transcriptome of the Human Pathogen Trypanosoma brucei at Single-Nucleotide Resolution

Christian Tschudi, Ph.D., Associate Professor, Epidemiology of Microbial Diseases, Yale University

5:00 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

5:30 Evening Reception

6:30 Close of Day


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2:15 Chairperson’s Remarks

Thomas Schwei, Vice President and General Manager, DNASTAR, Inc.

2:20 ChIP-PaM: An Algorithm for Identifying Transcription Factor Targets through ChIP-Seq Data

Song Wu, Ph.D., Assistant Member, Biostatistics, St. Jude Children’s Research Hospital

2:50 An Integrated Pipeline for Analyzing ChIP-Seq Transcription Factor Datasets

Gordon Robertson, Ph.D., Staff Scientist, Canada’s Michael Smith Genome Sciences Centre, British Columbia Cancer Agency

3:20 BiNGS!SL-Seq: Computational Analytical Pipeline to Analyze and Interpret Genome-Wide Synthetic Lethal Screen

Aik Choon Tan, Ph.D., Assistant Professor, Bioinformatics, Medical Oncology, University of Colorado Denver School of Medicine

3:50 Networking Refreshment Break in Exhibit Hall with Poster Viewing

4:30  RNA Binding Networks Determined by CLIP-SeqGene Yeo, Ph.D., Assistant Professor, Cellular and Molecular Medicine, Institute for Genomic Medicine, University of California, San Diego 

5:00 Analysis of High-Resolution and Genome-Scale DNA Methylation DataElena Harris, Ph.D., Research Associate, Molecular and Computational Biology, University of Southern California 

5:30 Evening Reception

6:30 Close of Day


Genotype to Phenotype Correlations 

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2:15 Chairperson’s Remarks 

Matthew Hudson, Ph.D., Associate Professor, Department of Crop Sciences, Institute for Genomic Biology, Energy Biosciences Institute, University of Illinois, Urbana 

Featured Speaker  

2:20 Comparative Genomics of Plant-Pathogen Interactions

Richard Michelmore, Ph.D., Professor and Director, The Genome Center, University of California, Davis

2:50 Using Sequencing for Biofuel Crop Improvement

Matthew Hudson, Ph.D., Associate Professor, Department of Crop Sciences, Institute for Genomic Biology, Energy Biosciences Institute, University of Illinois, Urbana


3:20 RNA-Seq Atlas of Glycine Max: A Guide to the Soybean TranscriptomeGregory May, President, National Center for Genome Resources

3:50 Refreshment Break in Exhibit Hall 

4:30 Use of High-Throughput Sequencing to Identify Transposon Insertions Underlying Mutant Phenotypes in High-Copy Mutator Lines of Maize

Alice Barkan, Ph.D., Professor, Biology, Institute of Molecular Biology, University of Oregon

5:00 SNP Discovery by High Throughput Sequencing in Soybean

Trupti Joshi, Plant Sciences, University of Missouri, Columbia

5:30 Evening Reception

6:30 Close of Day


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