24-26 April 2018

San Francisco, USA

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Day One
Wednesday, April 25, 2018

Day Two
Thursday, April 26, 2018

08.00
Registration

09.00
Chairperson’s Opening Remarks

Utilising RNA-Seq to Forward Drug Discovery and Development

09.10
RNA-Seq as a CLIA Test for Gene Fusion Identification and Beyond

  • Jin Jen Co-Director, Genome Analysis Core, Mayo Clinic

Synopsis

• Current clinical needs for an NGS based whole transcriptome test
• Critical elements required to develop a CLIA test for RNA-Seq
• Novel discoveries and new applications using RNA-Seq in clinical settings

09.40
Presentation in Collaboration with Qiagen: Presentation details TBC

10.10
RNA Sequencing From the 3’ end: Methods and Implications

  • Bin Tian Professor & Director of Genome Informatics, Rutgers New Jersey Medical School

Synopsis

• Review of methods to sequence RNA from the 3’ end
• Diversity of 3’ end of RNA for biomedical and clinical research
• Data analysis of 3’ end diversity using RNA-Seq and ScRNA-Seq

10.40
Speed Networking

11.10
Morning Refreshments

11.40
Detection of Virial Transcripts or Genomes Using RNA-Seq

  • Piotr Mieczkowski Research Associate Professor, Director of High Throughput Sequencing Facility, UNC

Synopsis

• Analysis of viral transcription or viral RNA genomes is becoming standard practice using
RNA-Seq application
• Sensitivity of new RNA library preparation chemistries for low input, or low-quality RNA
from the FFPE fixed samples is under investigation and testing
• I will introduce technologies applied to projects focused on analysis of polyomavirus
mediated disease (oncogenesis) in immunocompromised patients and Dengue virus
genotype testing using RNA extracted from plasma

12.10
Display of RNA-seq data in the UCSC Genome Browser

  • Brian Lee Manager, QA team, UCSC Genome Browser

Synopsis

  • Learn about Browser-resident data tracks
  • Load your own RNA-seq data into Genome Browser
  • Use Exon-only mode to display only the relevant portion of the genome

12.40
Targeted Single-Cell RNA Expression Profiling for Biomarker Discovery

Synopsis

  • We developed a genome-wide, targeted RNA expression profiling assay with 19,000 validated primer pairs leveraging the sensitivity (single-cell level) of multiplex RT-PCR with throughput and depth of NGS
  • Use of gene-specific primers enables direct analysis of total RNA isolate without the need for globin and rRNA depletion from whole blood
  • We show assay performance in analyzing the level of immune cell infiltration in tumor samples, and identify active pathways in tumor, xenograft samples and cell lines treated with small molecules

12.55
Lunch

Advancing Basic Research Through Harnessing Next Generation Sequencing Techniques

13.55
Transcriptome-Guided Genomic Alignment

  • Thomas Wu Principal Scientist, Bioinformatics & Computational Biology, Genentech

Synopsis

• A longstanding problem in RNA-Seq analysis has been whether to align to a
transcriptome (useful for measuring expression) or to a genome (useful for analyzing
splicing)
• We have implemented a strategy that uses the transcriptome as a guide in performing
genomic alignment, addressing the needs for both expression and splicing analysis
• This strategy speeds up alignment significantly, and also improves accuracy, especially
at the ends of reads

14.25
Identifying Host Determinants of HIV Latency Using Single-Cell RNA-Seq

  • Satish Pillai Associate Investigator, Blood Systems Research Institute, Associate Professor, UCSF Dept. of Lab Medicine

14.55
Afternoon Refreshments & Poster Session

15.30
Interactive Roundtable Sessions

Synopsis

This will be an hour long interactive session dedicated to discussing the common challenges, solutions and advancements
within the field, with the opportunity to learn and share from and with your colleagues on the following topics:

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17.00
Chair’s Closing Remarks and End of Day 1

17.10
QIAGEN Hosted Drinks Reception