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Crowdsourcing à la sbv IMPROVER: the challenge of being your own client

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Biases affect decision-making. Sometimes you need the crowd to help validate solutions, especially when it comes to science.

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Crowdsourcing à la sbv IMPROVER: the challenge of being your own client

  1. 1. www.sbvimprover.com Crowdsourcing à la sbv IMPROVER The challenge of being your own client. Dr. Adrian Stan Senior Scientist PMI R&D, Philip Morris Products S.A., Quai Jeanrenaud 5, CH-2000, Neuchatel, Switzerland CrowdSourcing Week Global, September 12th, 2019, San Francisco, USA
  2. 2. WHAT TYPE OF CROWDSOURCING IS SBV? Data Science Biology Medicine Found at the intersection of these disciplines, sbv IMPROVER aims to provide a measure of quality control of industrial research and development by verifying the methods being used. The sbv IMPROVER project is a collaborative effort led and funded by PMI Research and Development.
  3. 3. SOME HISTORY… Diagnostic Signature Challenge Network Verification Challenge I Species Translation Challenge Network Verification Challenge II Systems Toxicology Challenge I Singapore Datathon Israel Epigenomics Challenge Japan Biological Interpretation Datathon Microbiomics Challenge Systems Toxicology Challenge II Metagenomics Diagnosis for IBD Challenge 2012 2013 2014 2015 2016 2017 2018 2019
  4. 4. Formulation Delivery 1 Delivery 2 Delivery 3 HOW DOES IT WORK FOR THE COMPANY?
  5. 5. Formulation Delivery 1 Delivery 2 Delivery 3 Benchmark/Validate Benchmark/Validate A step in the pipeline of the project that needs validation or benchmarking. HOW DOES IT WORK FOR THE COMPANY?
  6. 6. Formulation Delivery 1 Delivery 2 Delivery 3 Benchmark/Validate A step in the pipeline of the project that needs validation or benchmarking. Benchmark/Validate Delivery 4 HOW DOES IT WORK FOR THE COMPANY?
  7. 7. For example, this step requires the use of a machine learning method. Formulation Delivery 1 Delivery 2 Delivery 3 Benchmark/Validate A step in the pipeline of the project that needs validation or benchmarking. Benchmark/Validate Delivery 4 HOW DOES IT WORK FOR THE COMPANY?
  8. 8. THE FIVE STAGES OF A CHALLENGE Prepare Launch Run Rank Share Define a scientific question, gather data, formulate the problem, and prepare the website. Launch the website and advertise to the community - use social media, advertisement companies, etc. Organise webinars, answer questions from participants, and maintain the website. Keep advertising. Gather the solutions, score them, and rank the participants. Publish the scientific outcome of the challenge, promote it at conferences.
  9. 9. THE FIVE STAGES OF A CHALLENGE TIME CONSUMING Prepare Launch Run Rank Share • Over the years, we have learned to define the scope of challenges such that the scoring part has become more efficient. In general, broader questions lead to a very broad range of answers. • Because of the emphasis on verification of the sbv IMPROVER platform, we can define precise questions and even offer template files for results. Question Narrow Fast Slow Solution Slow Fast Broad Prepare Rank
  10. 10. PARTICIPANTS & MOTIVATION Because we are addressing a small population pool, the communication strategy and channels are the most important components to ensure the success of a given challenge. Data Source: World Development Indicators (data.worldbank.org) Percentage of R&D Scientists in the Population • Young researchers and professionalswith a science background, • Between 25 and 40 years old, • Already working with machine learning, software, and data, • From academia: Post-Doc, PhD • From companies: Data Science, Machine learning, Bioinformatics.
  11. 11. ADVERTISING Previous Participants Direct Outreach Internal Scientific Engagement Blogs Conferences Job fairs Ambassadors Press Releases Social Media Posts Partner Companies
  12. 12. LET’S TALK ABOUT THE BENEFITS For participants For the company Peer recognition and self- esteem Co-author publications Be part of a pioneering community, working together to improve how scientific research is verified Monetary incentives Access a network of experts Continuous learning Contribute and work towards consensus in the scientific community Scientific publications Complement peer review Drive innovation in science with crowdsourced solutions Scientific outreach
  13. 13. • Belcastro, V. et al. The sbv IMPROVER Systems Toxicology computational challenge: Identification of human and species-independent blood response markers as predictors of smoking exposure and cessation status. Computational Toxicology, (2017). • Poussin, C. et al. Crowd-Sourced Verification of Computational Methods and Data in Systems Toxicology: A Case Study with a Heat-Not-Burn Candidate Modified Risk Tobacco Product. Chemical research in toxicology 30, 934-945, (2017). • sbv IMPROVER project team et al. Community-Reviewed Biological Network Models for Toxicology and Drug Discovery Applications. Gene regulation and systems biology 10, 51-66, (2016). • sbv IMPROVER project team et al. Reputation-based collaborative network biology. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 270-281 (2015). • sbv IMPROVER project team et al. Enhancement of COPD biological networks using a web-based collaboration interface. F1000Res. 4, 32, (2015). • Rhrissorrakrai, K. et al. Understanding the limits of animal models as predictors of human biology: lessons learned from the sbv IMPROVER Species Translation Challenge. Bioinformatics 31, 471-483, (2015). • Hoeng, J., Peitsch, M. C., Meyer, P. & Jurisica, I. Where are we at regarding species translation? A review of the sbv IMPROVER challenge. Bioinformatics 31, 451-452, (2015). • Boue, S. et al. Enhancement of COPD biological networks using a web-based collaboration interface. F1000Research 4 (2015). • Binder, J. et al. Reputation-based collaborative network biology, Pacific Symposium on Biocomputing.  270-281 (2015). • Bilal, E. et al. A crowd-sourcing approach for the construction of species-specific cell signaling networks. Bioinformatics 31, 484-491, (2015). • Poussin, C. et al. The species translation challenge-a systems biology perspective on human and rat bronchial epithelial cells. Scientific data 1,140009, (2014). • Tarca, A. L. et al. Strengths and limitations of microarray-based phenotype prediction: lessons learned from the IMPROVER Diagnostic Signature Challenge. Bioinformatics 29, 2892-2899, (2013). • Ansari, S. et al. On crowd-verification of biological networks. Bioinformatics and biology insights 7 (2013). • sbv IMPROVER project team et al. On Crowd-verification of Biological Networks. Bioinformatics and biology insights 7, 307-325, (2013). • Meyer, P. et al. Industrial methodology for process verification in research (IMPROVER): toward systems biology verification. Bioinformatics 28, 1193-1201, (2012). • Meyer, P. et al. Verification of systems biology research in the age of collaborative competition. Nature biotechnology 29, 811-815, (2011). PUBLICATIONS (16/6)
  14. 14. LOOKING FOR A NEW DIAGNOSTIC TOOL URL: https://www.sbvimprover.com/challenge-5 E-mail: Sbvimprover.RD@pmi.com
  15. 15. WHAT IS IT ABOUT? This challenge aims at finding the best classification algorithm that can be used for diagnosing Inflammatory Bowel Disease with data obtained from non-invasive clinical samples. Kaplan, G. G. The global burden of IBD: from 2015 to 2025, Nat. Rev. Gastroenterol. Hepatol. (2015) The global prevalence of IBD in 2015
  16. 16. THE STRUCTURE OF THE CHALLENGE Schematic representation of the challenge and its two sub-challenges. The two sub-challenges address different crowds: Sub-challenge 1 addresses the Bioinformatics crowd, while Sub-challenge 2 addresses a Data Science or Machine Learning crowd. We wanted to capture solutions from a wider audience. So, we split the challenge in two sub-challenges.
  17. 17. CONCLUSIONS • It is possible cor a company to organise and maintain its own crowdsourcing platform, one that aims at verification in an industrial setting. The sbv IMPROVER project, the websites, and the Symposia are part of a collaborative project designed to enable scientists to learn about and contribute to the development of a new crowdsourcing method for verification of scientific data and results. The project is led and funded by Philip Morris International. For more information on the focus of Philip Morris International’s research, please visit www.pmiscience.com. • For an R&D centre, crowdsourcing can mean an increase in the scientific output. • Scientific transparency is a consequence of crowdsourcing due to the extra layer of review that can be added through crowdsourcing that aims at verification. • The communication effort per challenge is significant but it engages a challenge- specific crowd. • Challenge-specific crowds are easier to communicate with and can bring significantly more pertinent solutions. They drive innovation faster.
  18. 18. Thank you!

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