PrecisionFDA
COVID-19 Precision Immunology App-a-thon


Participants will develop applications and pipelines to illuminate the relationship between personalized adaptive immunity molecular data and COVID-19 disease variables.


  • Starts
    2020-11-30 16:15:27 UTC
  • Ends
    2021-01-30 04:59:45 UTC
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PrecisionFDA
VHA Innovation Ecosystem and precisionFDA COVID-19 Risk Factor Modeling Challenge


The Veterans Health Administration (VHA) Innovation Ecosystem and Food and Drug Administration (FDA) call on the scientific and analytics community to develop and evaluate computational models to predict COVID-19 related health outcomes in Veterans.


  • Starts
    2020-06-02 13:53:44 UTC
  • Ends
    2020-07-03 13:53:53 UTC
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PrecisionFDA
Truth Challenge V2: Calling Variants from Short and Long Reads in Difficult-to-Map Regions


This challenge calls on the public to assess variant calling pipeline performance on a common frame of reference, with a focus on benchmarking in difficult-to-map regions, segmental duplications, and the Major Histocompatibility Complex (MHC).


  • Starts
    2020-05-01 21:00:00 UTC
  • Ends
    2020-06-16 03:00:59 UTC
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PrecisionFDA
Gaining New Insights by Detecting Adverse Event Anomalies Using FDA Open Data


During the life-cycle of FDA regulated products, FDA collects data from a diversity of sources including voluntary reports from healthcare providers and patients. While cause and effect are not always conclusive or relevant in these reports, valuable insights into the impact of regulated products on public health have been found in individual reports and in evaluation of reported data. This challenge engages data scientists to use evolving data science techniques to identify anomalies that may lead to valuable public health information.


  • Starts
    2020-01-17 19:20:00 UTC
  • Ends
    2020-05-19 03:59:00 UTC
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PrecisionFDA
Brain Cancer Predictive Modeling and Biomarker Discovery Challenge


An estimated 86,970 new cases of primary brain and other central nervous system tumors are expected to be diagnosed in the US in 2019. Brain tumors comprise a particularly deadly subset of all cancers due to limited treatment options and the high cost of care. Clinical investigators at Georgetown University are seeking to advance precision medicine techniques for the prognosis and treatment of brain tumors through the identification of novel multi-omics biomarkers. In support of this goal, precisionFDA and the Georgetown Lombardi Comprehensive Cancer Center and The Innovation Center for Biomedical Informatics at Georgetown University Medical Center (Georgetown-ICBI) are launching the Brain Cancer Predictive Modeling and Biomarker Discovery Challenge! This challenge will ask participants to develop machine learning and/or artificial intelligence models to identify biomarkers and predict patient outcomes using gene expression, DNA copy number, and clinical data.


  • Starts
    2019-11-01 16:00:00 UTC
  • Ends
    2020-02-15 04:59:59 UTC
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PrecisionFDA
BioCompute Object (BCO) App-a-thon


PrecisionFDA is partnering with George Washington University and FDA/CBER HIVE to launch a BioCompute Object (BCO) App-a-thon. Participants will be given the opportunity to enhance standards around reproducibility and documentation of biomedical high-throughput sequencing through BCO creation and conformance. Beginner and advanced tracks will be available for all participant levels.


  • Starts
    2019-05-14 14:55:14 UTC
  • Ends
    2019-10-18 14:55:26 UTC
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PrecisionFDA
NCI-CPTAC Multi-omics Enabled Sample Mislabeling Correction Challenge - Subchallenge 2


Sample mislabeling (accidental swapping of patient samples) or data mislabeling (accidental swapping of patient omics data) is known to be one of the obstacles in basic and translational research because this accidental swapping contributes to irreproducible results and invalid conclusions. The objective of this challenge is to encourage development and evaluation of computational algorithms that can accurately detect and correct mislabeled samples using rich multi-omics datasets.


  • Starts
    2018-11-06 00:00:00 UTC
  • Ends
    2018-12-19 07:59:59 UTC
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PrecisionFDA
NCI-CPTAC Multi-omics Enabled Sample Mislabeling Correction Challenge - Subchallenge 1


Sample mislabeling (accidental swapping of patient samples) or data mislabeling (accidental swapping of patient omics data) is known to be one of the obstacles in basic and translational research because this accidental swapping contributes to irreproducible results and invalid conclusions. The objective of this challenge is to encourage development and evaluation of computational algorithms that can accurately detect and correct mislabeled samples using rich multi-omics datasets.


  • Starts
    2018-09-24 19:00:00 UTC
  • Ends
    2018-11-05 04:59:59 UTC
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PrecisionFDA
CDRH Biothreat Challenge


Provide challenge data sets and reference standards for performance comparison of bioinformatics tools used in the biothreat and infectious disease NGS diagnostics community. The focus of this challenge is to enable tool developers to test their algorithms on blinded mock-clinical and in silico metagenomics samples using provided regulatory-grade reference genomes from the FDA-ARGOS database. This will enable the community to look at bioinformatics pipeline performance using a fixed reference genome data standard. The challenge will help familiarize precisionFDA users with the agency’s innovative FDA-ARGOS database resource (www.fda.gov/argos).


  • Starts
    2018-08-04 00:00:00 UTC
  • Ends
    2018-10-19 03:00:00 UTC
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PrecisionFDA
CFSAN Pathogen Detection Challenge


Identify the types and distribution of Salmonella strains in metagenomics samples


  • Starts
    2018-02-16 01:00:00 UTC
  • Ends
    2018-04-26 23:59:59 UTC
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PrecisionFDA
Hidden Treasures - Warm Up


Find variants injected into an NGS dataset


  • Starts
    2017-07-18 00:00:00 UTC
  • Ends
    2017-09-13 06:59:00 UTC
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Previous PrecisionFDA Challenges

Explore the results of previous challenges

App-a-thon in a Box
  • 28 responses
  • 79 followers
  • Challenge started
    31 Aug 2016 12:00 UTC
  • Submissions closed
    31 Dec 2016 23:59 UTC
  • Results announced
    04 Jan 2017 22:10 UTC
App-a-thon in a Box
Truth Challenge
  • 25 responses
  • 60 followers
  • Challenge started
    27 Apr 2016 03:59 UTC
  • Submissions closed
    27 May 2016 03:59 UTC
  • Results announced
    29 Jun 2016 13:30 UTC
Truth Challenge
Consistency Challenge
  • 17 responses
  • 55 followers
  • Challenge started
    26 Feb 2016 03:59 UTC
  • Submissions closed
    26 Apr 2016 03:59 UTC
  • Results announced
    26 May 2016 00:50 UTC
Consistency Challenge
Hidden Treasures - Warm Up
  • 157 responses
  • 0 followers
  • Challenge started
    18 Jul 2017 00:00 UTC
  • Submissions closed
    13 Sep 2017 06:59 UTC
  • Results announced
    TBD
Hidden Treasures - Warm Up
CFSAN Pathogen Detection Challenge
  • 49 responses
  • 57 followers
  • Challenge started
    16 Feb 2018 01:00 UTC
  • Submissions closed
    26 Apr 2018 23:59 UTC
  • Results announced
    TBD
CFSAN Pathogen Detection Challenge
CDRH Biothreat Challenge
  • 84 responses
  • 47 followers
  • Challenge started
    04 Aug 2018 00:00 UTC
  • Submissions closed
    19 Oct 2018 03:00 UTC
  • Results announced
    TBD
CDRH Biothreat Challenge
NCI-CPTAC Multi-omics Enabled Sample Mislabeling Correction Challenge - Subchallenge 1
  • 187 responses
  • 106 followers
  • Challenge started
    24 Sep 2018 19:00 UTC
  • Submissions closed
    05 Nov 2018 04:59 UTC
  • Results announced
    TBD
NCI-CPTAC Multi-omics Enabled Sample Mislabeling Correction Challenge - Subchallenge 1
NCI-CPTAC Multi-omics Enabled Sample Mislabeling Correction Challenge - Subchallenge 2
  • 137 responses
  • 63 followers
  • Challenge started
    06 Nov 2018 00:00 UTC
  • Submissions closed
    19 Dec 2018 07:59 UTC
  • Results announced
    TBD
NCI-CPTAC Multi-omics Enabled Sample Mislabeling Correction Challenge - Subchallenge 2
BioCompute Object (BCO) App-a-thon
  • 36 responses
  • 46 followers
  • Challenge started
    14 May 2019 14:55 UTC
  • Submissions closed
    18 Oct 2019 14:55 UTC
  • Results announced
    TBD
BioCompute Object (BCO) App-a-thon
Brain Cancer Predictive Modeling and Biomarker Discovery Challenge
  • 81 responses
  • 64 followers
  • Challenge started
    01 Nov 2019 16:00 UTC
  • Submissions closed
    15 Feb 2020 04:59 UTC
  • Results announced
    TBD
Brain Cancer Predictive Modeling and Biomarker Discovery Challenge
Gaining New Insights by Detecting Adverse Event Anomalies Using FDA Open Data
  • 8 responses
  • 30 followers
  • Challenge started
    17 Jan 2020 19:20 UTC
  • Submissions closed
    19 May 2020 03:59 UTC
  • Results announced
    TBD
Gaining New Insights by Detecting Adverse Event Anomalies Using FDA Open Data
Truth Challenge V2: Calling Variants from Short and Long Reads in Difficult-to-Map Regions
  • 66 responses
  • 36 followers
  • Challenge started
    01 May 2020 21:00 UTC
  • Submissions closed
    16 Jun 2020 03:00 UTC
  • Results announced
    TBD
Truth Challenge V2: Calling Variants from Short and Long Reads in Difficult-to-Map Regions