Software Applications and Services

As data generation increases, there is a need for workflows that are reproducible across infrastructures and empower scientists and researchers to apply cutting-edge analysis methods. One problem is scientific data are not centralized or standardized and are fragmented—from instrumentation to clinical research to legacy software. A second problem is critical validation of algorithms is commonly overlooked. There are real-world differences in data equivalence for integration and analysis, without adequate contextual information. A third problem is navigating vendor silos and deciding between all-in-one solutions or niche providers. The Software Applications and Services track explores these problems and how biopharma companies implementing solutions to drive data strategies and scientific decision-making by leveraging software tools and data platforms. Case studies will be presented on software tools to facilitate data manipulation, data analytics approaches, data methods and standards approaches, integration strategies, transparency, efficiency, security, and cost-effective solutions. What are critical approaches to validation of complex software development that will have to deal with missing/incomplete data, conflicting data, sparse data, etc.? These will become increasingly important as regulatory agencies evolve procedures and rules for implementation.

Final Agenda

Monday, April 20

9:00 am - 5:00 pm Hackathon*

*Pre-registration required.

Tuesday, April 21

7:30 am Workshop Registration Open and Morning Coffee

8:30 am - 3:30 pm Hackathon*

*Pre-registration required.

8:30 - 11:30 am Recommended Morning Pre-Conference Workshops*

W5. Giving the Personalized Digital Health Ecosystem a FAIRshake

Amir Lahav, ScD, Digital Health Innovation Consultant

Avi Ma’ayan, PhD, Professor, Department of Pharmacological Sciences; Director, Mount Sinai Center for Bioinformatics, Icahn School of Medicine at Mount Sinai

12:30 - 3:30 pm Recommended Afternoon Pre-Conference Workshops*

W16. Dealing with Instrument Data at Scale: Challenges and Solutions

Rachana Ananthakrishnan, Head, Products, Globus, University of Chicago

*Separate registration required.

2:00 - 6:30 Main Conference Registration Open

4:00 Welcome Remarks

Cindy Crowninshield, RDN, LDN, Executive Event Director, Cambridge Healthtech Institute




4:05 Keynote Introduction

4:15 PLENARY KEYNOTE PRESENTATION: NIH’s Strategic Vision for Data Science

Susan K. Gregurick, PhD, Associate Director, Data Science (ADDS) and Director, Office of Data Science Strategy (ODSS), National Institutes of Health





Rebecca Baker, PhD, Director, HEAL (Helping to End Addiction Long-term) Initiative, Office of the Director, National Institutes of Health





5:00 - 7:00 Welcome Reception in the Exhibit Hall with Poster Viewing (Sponsorship Opportunity Available)

Wednesday, April 22

7:30 am Registration Open and Morning Coffee

8:00 Welcome Remarks

Allison Proffitt, Editorial Director, Bio-IT World




8:05 Keynote Introduction

8:15 Toward Preventive Genomics: Lessons from MedSeq and BabySeq

Robert Green, MD, MPH, Professor of Medicine (Genetics) and Director, G2P Research Program/Preventive Genomics Clinic, Brigham & Women’s Hospital, Broad Institute, and Harvard Medical School




8:45 PANEL DISCUSSION: Game On: How AI, Citizen Science, and Human Computation Are Facilitating the Next Leap Forward

Pietro Michelucci, PhD, Director, Human Computation Institute






Additional Panelists to be Announced

9:45 Coffee Break in the Exhibit Hall with Poster Viewing


10:50 Organizer’s Welcome Remarks

Cambridge Healthtech Institute

10:55 Chairperson’s Remarks

11:00 AIDEAS Web: The New Generation Web Enabled Cheminformatics Platform

Rishi Gupta, Principal Research Scientist, Data Science and Informatics, AbbVie, Inc.

The first part of the presentation will showcase the technology on which AIDEAS Web is built. The second part will focus on AIDEAS Lite which has enabled scientists across AbbVie by making several workflows seamless and easy to use. We will present a few examples to highlight the ability of AIDEAS to provide advanced scientific workflows within one of the best visual analytics frameworks that easily allows users to share information and define multiple analysis templates. Authors: Pierrick Chabot, Rishi Gupta.

11:30 Harmonizing Lab Device and System Integration for Lab Workflow Automation

Andreas Steinbacher, PhD, R&D Informatics and Machine Learning/Artificial Intelligence Leader for Lab Automation, Roche Innovation Center Munich

Lab device and system integration are too expensive, inflexible and time-consuming due to a lack of industry-wide standards. Instead of advocating for one specific software standard, this contribution suggests another way – a lab device integration ‘rule book’. The intention is to streamline the communication between instrument vendor, IT department, and lab scientist by defining different lab instrument complexity and integration levels.

12:00 pm Sponsored Presentation (Opportunity Available)

12:30 Session Break

12:40 Luncheon Presentation I to be Announced

1:10 Luncheon Presentation II (Sponsorship Opportunity Available)

1:40 Session Break


1:50 Chairperson’s Remarks

Gurpreet Kanwar, MBA, PMP, Senior Manager, Project Delivery Service, NAV CANADA

1:55 SaaS Healthcare Platform that Enable Organizations to Drive Efficient Healthcare with Integrated Data

Ardy Arianpour, CEO & Co-Founder, Seqster

2:25 Effectively Completing the Projects with Water-Agile-Fall Model

Gurpreet Kanwar, MBA, PMP, Senior Manager, Project Delivery Service, NAV CANADA

Water-Agile-Fall is a way to develop software without using full agile practices. It is the way to combine traditional planning in waterfall and execution in Agile way. Organizations are trying to execute agile practices but unable to give full control to project teams and prefer to have top down control similar to waterfall methodology. In this presentation you will learn the advantages and disadvantages of using Water-Agile-Fall, when Agile teams fall into Waterfall, hybrid model for executing projects with sample projects.

2:55 Next-Generation Bio-Data Management Systems

Vasu Rangadass, PhD, CEO, Next-Generation Bio-Data Management Systems, L7 Informatics, Inc.

3:25 Refreshment Break in the Exhibit Hall with Poster Viewing


4:00 Chairperson’s Remarks

4:05 Icy2.0: A Newly Redesigned Open and Free Software for Bioimage Analysis

Jean-Christophe Olivo-Marin, PhD, Head, BioImage Analysis Unit and Director, Institute Carnot Pasteur Microbes et Santé, Institut Pasteur

We present Icy2.0, which is a major evolution of our previous free and open software for bioimage analysis Icy. This release has three important features: 1) the ability to handle very large images (> 4Gb); 2) the possibility to process long sequences; and 3) a totally redesigned web site for improved interactions with the users community.

4:35 Image Management for Research: To What End

Paul Whitehead, PhD, Head, IT Business Partner, Leads Discovery & Optimization, Bristol-Myers Squibb

Advanced digital microscopes have revolutionized biology and pharmaceutical research, generating massive volumes of images, including 3D and time series data. But scientists can’t study what they can’t measure. The need to quantify biological characteristics, such as cell count, or to calculate metrics such as drug occupancy, has driven a need to seamlessly ingest, annotate, share, analyze and archive image datasets. This project seeks to make image datasets easily discoverable, accessible, transformable, and analyzable, and to ensure that numeric datasets derived from image datasets are easily transferable to downstream data analysis platforms.


5:05 System Architecture for Large-Scale Genetic/Genomic Data Science

Jake Emerson, Computational Lead, Cube Initiative and Principal Scientific Software Engineer, The Jackson Laboratory



5:35 Best of Show Awards Reception in the Exhibit Hall with Poster Viewing

6:45 End of Day

Thursday, April 23

7:30 am Registration Open and Morning Coffee

8:00 Organizer’s Remarks

Cindy Crowninshield, RDN, LDN, Executive Event Director, Cambridge Healthtech Institute




8:05 Awards Program Introduction

8:10 Benjamin Franklin Award and Laureate Presentation

J.W. Bizzaro, Managing Director,




Discngine8:35 Bio-IT World Innovative Practices Awards

Allison Proffitt, Editorial Director, Bio-IT World




9:00 AI in Pharma: Where We Are Today and How We Will Succeed in the Future

Natalija Jovanovic, PhD, Chief Digital Officer, Sanofi Pasteur




9:45 Coffee Break in the Exhibit Hall and Poster Competition Winners Announced at 10:00


10:30 Organizer’s Remarks

Cambridge Healthtech Institute

10:35 Chairperson’s Remarks

10:40 It Takes a Village vs Field of Dream Approaches for Data-Driven Standards

Lynn Schriml, PhD, Associate Professor, Epidemiology and Public Health Department and Institute of Genome Sciences, University of Maryland School of Medicine

11:10 iMicrobe Project and Potentially the NMDC and the Practicalities, Pain Points of Standards within the Context of Tool Development

Bonnie Hurwitz, PhD, Assistant Professor, Biosystems Engineering, University of Arizona

11:40 Sponsored Presentation (Opportunity Available)

12:10 pm Session Break

12:20 Luncheon Presentation (Sponsorship Opportunity Available) or Enjoy Lunch on Your Own

1:20 Dessert Refreshment Break in the Exhibit Hall with Last Chance Poster Viewing



1:55 Chairperson’s Remarks

Kevin Davies, PhD, Executive Editor, The CRISPR Journal, Mary Ann Liebert, Inc.


Chris Dagdigian, Co-Founder and Senior Director, Infrastructure, BioTeam, Inc.

Vivien Bonazzi, PhD, Chief Biomedical Data Scientist, Managing Director, Deloitte

Tim Cutts, PhD, Head, Scientific Computing, Wellcome Trust Sanger Institute

Kjiersten Fagnan, PhD, Chief Informatics Officer, Data Science and Informatics Leader, DOE Joint Genome Institute, Lawrence Berkeley National Laboratory

Matthew Trunnell, Vice President and Chief Data Officer, Fred Hutchinson Cancer Research Center

The “Trends from the Trenches” will celebrate its 10th Anniversary at Bio-IT! Since 2010, the “Trends from the Trenches” presentation, given by Chris Dagdigian, has been one of the most popular annual traditions on the Bio-IT Program. The intent of the talk is to deliver a candid (and occasionally blunt) assessment of the best, the worthwhile, and the most overhyped information technologies (IT) for life sciences. The presentation has helped scientists, leadership, and IT professionals understand the basic topics related to computing, storage, data transfer, networks, and cloud that are involved in supporting data-intensive science. In 2020, Chris will give the “Trends from the Trenches” presentation in its original “state-of-the-state address” followed by guest speakers giving podium talks on relevant topics. An interactive Q&A moderated discussion with the audience follows. Come prepared with your questions and commentary for this informative and lively session.

4:00 Close of Conference

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