Please note that the details of this Challenge are no longer open. This challenge is awarded and is no longer accepting new submissions. You can:

Identify Organisms from a Stream of DNA Sequences

STATUS: Awarded
POSTED: Dec 28 2012
SOURCE: InnoCentive

This is a Reduction-to-Practice Challenge that requires written documentation and delivery of source code implementing an algorithm that solves the problem.  A real-time online scoring utility and leaderboard will be available for this Challenge beginning 13-Feb.

Challenge ID: 9933138
Team Project Rooms are available on this Challenge Team Share Challenge Share
Challenge Overview


This Challenge seeks innovative algorithms to analyze samples that contain mixed segments of genetic sequence from next-generation sequencing instruments and report the identities of each organism represented in the sample and characterization of all non-host organisms.  Technical details and requirements are available in the full description. 

Submissions to the Challenge must include the following: 

  1. A detailed description of the proposed algorithm, and how it addresses each Technical Requirement listed in the Detailed Description of the Challenge.  The project documentation should be include a well-articulated rationale, and be supported by relevant references.
  2. Source code implementing the proposed algorithm.  Include all dependencies, packages, databases, documentation, and information to generate test results by Seeker.  

The award is contingent upon evaluation and validation of the submitted Solutions by the Seeker.  During the evaluation period, the Seeker will validate top-scoring submissions using additional data similar to the test data provided in the Challenge. 

To receive an award, Solvers will be required to grant the Seeker full rights for use by U.S. Government agencies and affiliates in the form of an irrevocable, worldwide, perpetual, royalty-free, non-exclusive license to distribute, display, modify, and reproduce any portion of the submission.  Intellectual property rights for commercial applications are NOT desired by the Seeker, and therefore will remain with respective authors/inventors.  In addition, the Solver will retain rights to publish or release the submission as open source if the Solver desires.  The solution must outscore the Benchmark solution being run by the Seeker to receive an award.

Employees, Faculty, Students, and Affiliates (as determined by DTRA) of the Massachusetts Institute of Technology are not eligible to participate in this DTRA Algorithm Challenge (Challenge ID 9933138).


About the Seeker:

This Challenge is sponsored by the U.S. Government’s Defense Threat Reduction Agency (DTRA).  DTRA’s mission is to make the world safer by reducing the threat of weapons of mass destruction.

This work is sponsored by the Defense Threat Reduction Agency under Air Force Contract #FA8721-05-C-0002. Opinions, interpretations, recommendations and conclusions are those of the authors and are not necessarily endorsed by the United States Government.

What is InnoCentive?

InnoCentive is the global innovation marketplace where creative minds solve some of the world's most important problems for cash awards up to $1 million. Commercial, governmental and humanitarian organizations engage with InnoCentive to solve problems that can impact humankind in areas ranging from the environment to medical advancements.

What is an RTP Challenge?

An InnoCentive RTP (Reduction to Practice) Challenge is a prototype that proves an idea, and is similar to an InnoCentive Theoretical Challenge in its high level of detail. However, an RTP requires the Solver to submit a validated solution, either in the form of original data or a physical sample. Also the Seeker is allowed to test the proposed solution. For details about treatment of IP rights, please see the Challenge-Specific Agreement.

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