NGS Data Management: Sequencing Systems, Storage & Analysis Header 

Day 1  |  Day 2 

NGS Data Management convenes hardware/software engineers, database architects, storage managers, systems integrators and analysts who are managing the data, as well as biological/medical researchers who are generating the sequences and the bioinformaticists who are analyzing and interpreting the data. This program is designed to provide perspectives from each specialty, with an emphasis on how they can be integrated into a cohesive, comprehensive team to manage the sequencing data deluge.

 

» UPDATE – NGS ALL ACCESS PACKAGE NOW AVAILABLE 

SAVE UP TO 950 EUR off the regular admission when registering for both back-to-back sequencing events:

NGS Data Management (11-12 October)
NGS: Molecular Diagnostics Magnified (12-13 October)

Register online today (make sure to choose the NGS All Access Package option) or call our customer service representatives at +1 781-972-5400. 


TUESDAY, 11 OCTOBER

9:00 Conference Registration and Morning Coffee

 

 

Mining Sequencing Data 

9:30 Chairperson’s Opening Remarks

Burkhard Tümmler, Ph.D., Professor, Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School



 

KEYNOTE SPEAKER

9:35 Quick and Dirty Assembly and Analysis of Whole Genome Sequencing  Data in Public Health Emergencies

Dag HarmsenDag Harmsen, M.D., Head of Research, Periodontology Department, University Hospital Münster

Next generation sequencing (NGS) has fundamentally altered genomic research. New developments will bring NGS costs and performance down to an everybody's technology with extreme potential for ultra-fast and accurate molecular bacterial typing for public health epidemiology and clinical microbiology. However, especially bioinformatics constraints currently restrict the application of NGS to few highly experienced laboratories. Experiences from the Ion Torrent PGM sequencing made during the 2011 German EHEC O104:H4 and the Dutch Klebsiella Oxa-48 hospital outbreaks, will be used to demonstrate IT requirements and strategies for rapid analysis of such data

10:05 Exploring the Impact of Rare Sequences in Large Community Data Sets

Alban Ramette, Ph.D., Research Scientist, Microbial Habitat Group, Max Planck Institute for Marine Microbiology

High-throughput sequencing techniques are becoming attractive to molecular biologists and ecologists as they enable exploring diversity patterns in environmental samples at an unprecedented resolution. Yet, the definition of what fractions of a dataset should be considered as rare or dominant has neither been satisfactorily addressed. Here a new multivariate strategy, MultiCoLA, is described to systematically assess the impact of various rarity cutoff levels on the resulting dataset structure and on the consistency of the further ecological interpretation.

10:35 Coffee Break - Networking with Sponsors

 

FEATURED SPEAKER

11:15 Applications of RNA-Seq in Microbial Genomics

Burkhard Tümmler, Ph.D., Professor, Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School

The presentation will show applications of deep cDNA sequencing for refined genome annotation, the mapping of operons and transcription start sites, the identification of non-coding RNAs and the reliable quantification of transcript irrespective of the absolute expression level. cDNA sequencing is more sensitive and less biased than array technologies to detect the differential regulation of lowly and highly abundant transcripts.

11:45 On Post-Transcriptional Processes and Their Footprints

Steve Hoffmann, Ph.D., Junior Research Group, Transcriptome Bioinformatics, Leipzig University

A number of post-transcriptional processes leave specific footprints in RNA sequencing data. These modifications vary from non-templated CCA-addtion to chemical modifications of specific nucleotides adding yet another layer of complexity to transcriptome organization. Thus, high-throughput RNA sequencing technologies could prove valuable to identify and study novel mechanisms of regulation in a fast and cost-effective way.

12:15 Panel Discussion with Morning Speakers

12:45 Lunch for Purchase in Exhibit Hall 9

13:45 Dedicated Poster Viewing in Exhibit Hall 9

 

Storage in the Clouds 

Sponsored by
SGI(1) 
14:30 Chairperson’s Remarks

Simon Appleby, Biosciences  Manager, EMEA, Business Development, SGI

 

 

Podcast14:35 Clouds and Bioinformatics - Podcast

Folker Meyer, Ph.D., Computational Biologist, Institute for Genomics and Systems Biology, Argonne National Lab

New clouds or infrastructure as a service (IAAS) architectures are becoming available. Bioinformatics is ideally positioned to use them, but existing applications require extensive modifications to efficiently use the new environment. I will present a use case, showing the changes made to the popular MG-RAST web service backend to allow the use of “the cloud.”

Sponsored by
IBM small logo
15:05 Next Generation of NGS Data Management and IT Considerations

Rolf Porsche, Ph.D., IBM Partner, Head of Pharma, Life Sciences and Healthcare, IBM

IBM is currently working with leading Sequencing Centers on data management challenges posed by whole genome sequencing activities. It is shown how leading edge hardware and software solutions can be used to address the related extreme requirements. In addition, IBM Research has partnered with Roche 454 to develop a new “DNA Transistor” based sequencing technology. While the technical challenges are significant, the partners are optimistic about being able to succeed with this exciting project. This discussion will also include information on current IT infrastructure for NGS as well as discussions on HPC Clouds.

15:35 Refreshment Break - Networking with Sponsors

Sponsored by
Data Direct Networks - small logo
16:15 Simplifying Scientific Collaboration with the Cloud

Detlef Labrenz, Sales Representative, DataDirect Networks, Inc.
Jose L. Alvarez, Director Life Sciences, DataDirect Networks, Inc.

Research often calls for collaboration among teams spread across remote locations. This discussion will describe how iRODS and DataDirect’s WOS Object Storage system work together to create a distributed private storage cloud that manages replication and data protection and a framework to manage access to the data across disparate organizations.

Sponsored by
Appistry
16:30 Rapid Analysis of Next-Generation Sequence Data in a Secure High-Performance Computing Environment
Michael Groner, Chief Architect, Life Sciences, Appistry, Inc.
The analysis of the growing amount of data generated by next-generation sequencing (NGS) methods requires the application of high performance computing techniques for rapid processing and analysis.  Pipelines for analysis of exome, whole genome and RNA-Seq data have been developed by a combination of parallelization and optimization of pipeline processes. This results in an inexpensive, secure, fault tolerant and efficient computing environment. An analysis of the speed and accuracy of custom NGS pipelines will be shown.
 


16:45 NGS-AaaS: Next-Generation Sequencing-Annotation as a Service
Carole Goble, Professor, Computer Science, University of Manchester
Next-generation sequencing technologies bring genome-wide sequencing within the reach of a greater number of research labs. The $1000 genome, however, is accompanied by the $100,000 analysis. To enable labs with limited bioinformatics capability or local compute provision to benefit from NGS, we are using the commercial Amazon EC2 cloud and the open source Taverna workflow system to operate an on-demand, low cost, on-line analytics service for DNA analysis. As a case study we will present an AaaS application for understanding genetic variation between cattle breeds.

17:15 The Atlas Platform for Secure Life Science Applications in the Cloud

Misha Kapushesky, Ph.D., Functional Genomics Team Leader, EBI, Cambridge

17:45 UPPNEX - A Solution for Next-Generation Sequencing Data Management and Analysis

Ola Spjuth, Ph.D., Scientific Coordinator, UPPNEX; Application Expert, UPPMAX, Uppsala University

Jonas Hagberg, M.Sc., Project Leader, UPPNEX; System Expert, UPPMAX, Uppsala University

UPPNEX and System Expert, UPPMAX, Uppsala University UPPNEX is the Swedish national project for next-generation sequencing data management and analysis using a shared computational cluster with a parallel file system, a graphical client for end users, a web-based knowledge base, and associated system- and application experts. We here present how UPPNEX tackles the many challenges when providing solutions for scientists in the rapidly evolving NGS landscape.

18:15 Sponsored Presentation (Opportunity Available) 

18:30 Interactive Breakout Discussion Groups

19:15 BIOTECHNICA EVENT NIGHT - Keynote Presentation followed by Networking Reception. Live music and dancing

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