Literature DB >> 23549146

Seeking the wisdom of crowds through challenge-based competitions in biomedical research.

J C Costello1, G Stolovitzky.   

Abstract

“Challenge-based competitions” refers to a framework for addressing fundamental research questions in which the community is presented with a challenge, the data to address the challenge, and independent, unbiased assessment to rank submitted solutions. Although the typical result of such efforts is a robust performance evaluation of diverse methodologies, challenge-based competitions reach far beyond algorithm assessment. Here, we discuss the impact of challenge-based competitions in the areas of organizing and building communities and driving innovation.

Mesh:

Year:  2013        PMID: 23549146     DOI: 10.1038/clpt.2013.36

Source DB:  PubMed          Journal:  Clin Pharmacol Ther        ISSN: 0009-9236            Impact factor:   6.875


  17 in total

1.  Crowdsourced analysis of clinical trial data to predict amyotrophic lateral sclerosis progression.

Authors:  Robert Küffner; Neta Zach; Raquel Norel; Johann Hawe; David Schoenfeld; Liuxia Wang; Guang Li; Lilly Fang; Lester Mackey; Orla Hardiman; Merit Cudkowicz; Alexander Sherman; Gokhan Ertaylan; Moritz Grosse-Wentrup; Torsten Hothorn; Jules van Ligtenberg; Jakob H Macke; Timm Meyer; Bernhard Schölkopf; Linh Tran; Rubio Vaughan; Gustavo Stolovitzky; Melanie L Leitner
Journal:  Nat Biotechnol       Date:  2014-11-02       Impact factor: 54.908

2.  The structural and functional signatures of proteins that undergo multiple events of post-translational modification.

Authors:  Vikas Pejaver; Wei-Lun Hsu; Fuxiao Xin; A Keith Dunker; Vladimir N Uversky; Predrag Radivojac
Journal:  Protein Sci       Date:  2014-06-11       Impact factor: 6.725

Review 3.  Crowdsourcing biomedical research: leveraging communities as innovation engines.

Authors:  Julio Saez-Rodriguez; James C Costello; Stephen H Friend; Michael R Kellen; Lara Mangravite; Pablo Meyer; Thea Norman; Gustavo Stolovitzky
Journal:  Nat Rev Genet       Date:  2016-07-15       Impact factor: 53.242

4.  Systematic review of innovation design contests for health: spurring innovation and mass engagement.

Authors:  Stephen W Pan; Gabriella Stein; Barry Bayus; Weiming Tang; Allison Mathews; Cheng Wang; Chongyi Wei; Joseph D Tucker
Journal:  BMJ Innov       Date:  2017-10-27

5.  Prediction of overall survival for patients with metastatic castration-resistant prostate cancer: development of a prognostic model through a crowdsourced challenge with open clinical trial data.

Authors:  Justin Guinney; Tao Wang; Teemu D Laajala; Kimberly Kanigel Winner; J Christopher Bare; Elias Chaibub Neto; Suleiman A Khan; Gopal Peddinti; Antti Airola; Tapio Pahikkala; Tuomas Mirtti; Thomas Yu; Brian M Bot; Liji Shen; Kald Abdallah; Thea Norman; Stephen Friend; Gustavo Stolovitzky; Howard Soule; Christopher J Sweeney; Charles J Ryan; Howard I Scher; Oliver Sartor; Yang Xie; Tero Aittokallio; Fang Liz Zhou; James C Costello
Journal:  Lancet Oncol       Date:  2016-11-16       Impact factor: 41.316

6.  Profiling the baseline performance and limits of machine learning models for adaptive immune receptor repertoire classification.

Authors:  Chakravarthi Kanduri; Milena Pavlović; Lonneke Scheffer; Keshav Motwani; Maria Chernigovskaya; Victor Greiff; Geir K Sandve
Journal:  Gigascience       Date:  2022-05-25       Impact factor: 7.658

7.  A community effort to assess and improve drug sensitivity prediction algorithms.

Authors:  James C Costello; Laura M Heiser; Elisabeth Georgii; Mehmet Gönen; Michael P Menden; Nicholas J Wang; Mukesh Bansal; Muhammad Ammad-ud-din; Petteri Hintsanen; Suleiman A Khan; John-Patrick Mpindi; Olli Kallioniemi; Antti Honkela; Tero Aittokallio; Krister Wennerberg; James J Collins; Dan Gallahan; Dinah Singer; Julio Saez-Rodriguez; Samuel Kaski; Joe W Gray; Gustavo Stolovitzky
Journal:  Nat Biotechnol       Date:  2014-06-01       Impact factor: 54.908

8.  Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines.

Authors:  Kyle Ellrott; Matthew H Bailey; Gordon Saksena; Kyle R Covington; Cyriac Kandoth; Chip Stewart; Julian Hess; Singer Ma; Kami E Chiotti; Michael McLellan; Heidi J Sofia; Carolyn Hutter; Gad Getz; David Wheeler; Li Ding
Journal:  Cell Syst       Date:  2018-03-28       Impact factor: 10.304

9.  Toward better benchmarking: challenge-based methods assessment in cancer genomics.

Authors:  Paul C Boutros; Adam A Margolin; Joshua M Stuart; Andrea Califano; Gustavo Stolovitzky
Journal:  Genome Biol       Date:  2014-09-17       Impact factor: 13.583

10.  An optically active isochroman-2H-chromene conjugate potently suppresses neuronal oxidative injuries associated with the PI3K/Akt and MAPK signaling pathways.

Authors:  Ling-Xue Tao; Sha-Sha Ji; Dóra Szalóki; Tibor Kovács; Attila Mándi; Sándor Antus; Xun Ding; Tibor Kurtán; Hai-Yan Zhang
Journal:  Acta Pharmacol Sin       Date:  2020-05-11       Impact factor: 6.150

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