
BioCompute Objects: Tools for Communicating Next Generation Sequencing Data and Analysis
Agenda for The 2019 BioCompute Workshop, co-sponsored by the U.S. Food and Drug Administration (FDA), the George Washington University, and the BioCompute Partnership
Date: Tuesday, May 14th, 2019, 9AM-5PM
Location: FDA White Oak Campus, 10903 New Hampshire Ave., Bldg. 31 Conference Center, room 1503 A, Silver Spring, MD 20993
Register: Eventbrite
- Define FDA NGS Research and Regulatory Need Generation - Introduce Strategies for working with large amounts of data - Discuss the challenges associated with communicating NGS workflows in clinical settings, security, implementation etc. Associate Professor of Biochemistry and Molecular Medicine, George Washington University, Co-Director of The McCormick Genomic and Proteomic Center Associate Office Director for Risk Assessment at U.S. Food & Drug AdministrationOpening Remarks
9:00 - 9:10 AM
FDA Perspective
Carolyn Wilson
Perspectives to Inform BioCompute
9:10 - 9:35 AM
Layperson's Explanation of BCO Specification and Utility | IEEE and ISO Status
Raja Mazumder and Jonathon Keeney
An introduction to the BioCompute project for non-engineers, and a description of the standardization efforts and current status.
9:35 - 9:50 AM
The Importance of Standardized Workflows in Patient Advocacy
Jeanne Barnett
9:50 - 10:45 AM
Panel Discussion featuring Genomic Working Group and other stakeholders
Eric Donaldson (co-moderator), Heike Schitig (co-moderator), Dennis Dean, Gil Alterovitz, Jeanne Barnett, Jonas Almeida, Elaine Thompson, Arifa Khan, Errol Strain
10:45 - 11:00 AM
Coffee Break
Operationalizing BCO Part I
11:00 - 11:10 AM
BCO Creation and Viewing in the HIVE Platform
Elaine Thompson & Mark Walderhaug
11:10 - 11:20 AM
The BioCompute Object Editor (bco_editor) Tool
Janisha Patel
11:20 - 11:30 AM
Seven Bridges Genomics BCO Creation
Dennis Dean
11:30 - 11:40 AM
From Bio-Docklets to Galaxy and back: BioCompute Objects for Standardized, Scalable Bioinformatics
Ntino Krampis
11:40 - 11:50 AM
Implementing Biocompute Objects to Address Bioinformatic Standardization for Whole Genome Sequencing of Mycobacterium Tuberculosis
Marco Schito
11:50 - 12:00 PM
Verification Kit Use Case: Technical Description
Anjan Purkayastha
12:00 - 12:10 PM
High Throughput Sequencing Communication with the FDA Through Trial Use of BCO with a Verification Kit
Eric Donaldson & Nuria Guimera
12:10 - 1:30 PM
Lunch Break
Operationalizing BCO Part II
1:30 - 1:50 PM
Multifaceted use of BCOs (Healthcare, physics, image analysis etc. and importance in IEEE and ISO process for broad usability)
Vahan Simonyan
1:50 - 2:00 PM
Re-executable BCOs with CWL & ResearchObjects
Michael Crusoe
2:00 - 2:10 PM
BCO Applications in Medicine with FHIR
Gil Alterovitz & James Jones
2:10 - 2:20 PM
BCO as a Manifest for Orchestrating Web API Ecosystems
Jonas Almeida
2:20 - 2:30 PM
Using BCOs to organize healthcare marketplace | Patient-driven Clinical Data Exchange
Robert Chu
2:30 - 3:00 PM
BCO Challenge on PrecisionFDA Platform Announcement
Overview of Precision FDA - Zivana Tezak
Discussion of future opportunities to integrate BCO into the precisionFDA platform - John Didion
App-a-thon announcement and details - Holly Stephens
Q&A3:00 - 3:15 PM
Coffee Break
Next Steps, Q&A, and Training
3:15 - 3:25 PM
Summary and Next Steps
Raja Mazumder
3:25 - 3:45 PM
Closing Remarks
Mark Walderhaug
3:45 - 5:00 PM
Q&A, BCO Training, and Hands-on Demos by the following teams:
HIVE (Naila Gulzar), Galaxy (Ntino Krampis and Nicola Soranzo), DNAnexus (John Didion), BCO Spec. use (Hadley King), BCO extensions and schema (Jason Travis)
*Coffee and lunch available for purchase at the onsite kiosk.