Computational and Data Challenges for Genomic Sequencing

...at SuperComputing 2015 conference in Austin, Texas.
Sunday, November 15th 2015 from 9:00am to 12:30pm

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Computational and Data Challenges for Genomic Sequencing

Genomic sequencing is one of the most vital biological tasks today because of its promise to (1) improve human health through precision medicine, (2) discover sustainable sources of energy, and (3) help us better understand our world. This workshop is dedicated to discovering how to leverage HPC know-how to improve important biological processing that is critically dependent on a scalable compute and data infrastructure. We will also discuss some of the “human factors” that are necessary to glue the distinct computational, research and data components together. The ability to collaborate productively across disciplines is clearly an important component of advancing scientific throughput. We aim to help support the acceleration of scientific progress and innovation by spurring interdisciplinary understanding through human interaction.

WORKSHOP ORGANIZERS

Steve Bailey, National Institutes of Health
Shane Canon, Lawrence Berkeley National Laboratory
Kjiersten Fagnan, Bioinformatics Consultant, Department of Energy's Joint Genome Institute
Patricia Kovatch, Icahn School of Medicine at Mount Sinai
Ravi Madduri, Argonne National Laboratory
Eric Stahlberg, National Institutes of Health, National Cancer Institute
Dan Stanzione, Texas Advanced Computing Center
Matthew Vaughn, Director of Life Sciences, Texas Advanced Computing Center
Jaroslaw Zola, University of Buffalo

Goal

Our goal is to build an interdisciplinary community of biologists, computer and computational scientists in order to identify and work towards solving joint short- and long-term challenges in managing data and computations in genomic analytics piplines. We want to provide a forum where we can leverage state-of-the-art technologies and our collective efforts to improve the field. Many traditional HPC centers are learning to adapt to the diverse workload of genomic sequencing and many biologists are discovering the advantages that HPC can bring to their research. By sharing our diverse experiences and common concerns, we can reduce duplication and leverage our joint efforts to drive towards overall progress in this field.

Background

We began building this interdisciplinary community at our SC’14 BOF that attracted 88 participants. This workshop proposal is a direct consequence of the outpouring of support and enthusiasm from the BOF participants for a full day workshop. Several of our new organizers, speakers and the linked Computational Approaches for Cancer workshop are a direct outgrowth of the success of the SC’14 BOF. Because of the large number of BOF attendees and their clear passion for the topics they discussed, we are proposing this workshop to continue the momentum started at SC’14.

Schedule