• Competition Pool
    October 23 11:00am
    lap swim more »
  • Homecoming: De-stress Fest
    October 23 6:00pm
    Kick back, relax, and relieve the stress of midterms at De-stress fest.  more »
  • Competition Pool
    October 24 5:30am
    lap swim more »
  • Indiana Civic Health Index Breakfast
    October 24 8:30am
    A launch event to announce the results of the Indiana Civic Health Index, an analysis of where Hoosiers stand on several indicators of civic engagement.  This initiative is led by the Indiana Bar Association. more »
  • Homecoming: Treat 'n' Tuesday
    October 24 10:00am
    Join Traditions Board and paint a pumpkin. In the spirit of Homecoming, we challenge you to paint a pumpkin that shows off your IUPUI pride! more »
Monday, October 23, 2017
    IU Calendar




    • Competition Pool
      October 23 11:00am
      lap swim more »
    • Homecoming: De-stress Fest
      October 23 6:00pm
      Kick back, relax, and relieve the stress of midterms at De-stress fest.  more »
    • Competition Pool
      October 24 5:30am
      lap swim more »
    • Indiana Civic Health Index Breakfast
      October 24 8:30am
      A launch event to announce the results of the Indiana Civic Health Index, an analysis of where Hoosiers stand on several indicators of civic engagement.  This initiative is led by the Indiana Bar Association. more »
    • Homecoming: Treat 'n' Tuesday
      October 24 10:00am
      Join Traditions Board and paint a pumpkin. In the spirit of Homecoming, we challenge you to paint a pumpkin that shows off your IUPUI pride! more »
    Monday, October 23, 2017
      IU Calendar




      • Competition Pool
        October 23 11:00am
        lap swim more »
      • Homecoming: De-stress Fest
        October 23 6:00pm
        Kick back, relax, and relieve the stress of midterms at De-stress fest.  more »
      • Competition Pool
        October 24 5:30am
        lap swim more »
      • Indiana Civic Health Index Breakfast
        October 24 8:30am
        A launch event to announce the results of the Indiana Civic Health Index, an analysis of where Hoosiers stand on several indicators of civic engagement.  This initiative is led by the Indiana Bar Association. more »
      • Homecoming: Treat 'n' Tuesday
        October 24 10:00am
        Join Traditions Board and paint a pumpkin. In the spirit of Homecoming, we challenge you to paint a pumpkin that shows off your IUPUI pride! more »
      Monday, October 23, 2017
        IU Calendar




        • Competition Pool
          October 23 11:00am
          lap swim more »
        • Homecoming: De-stress Fest
          October 23 6:00pm
          Kick back, relax, and relieve the stress of midterms at De-stress fest.  more »
        • Competition Pool
          October 24 5:30am
          lap swim more »
        • Indiana Civic Health Index Breakfast
          October 24 8:30am
          A launch event to announce the results of the Indiana Civic Health Index, an analysis of where Hoosiers stand on several indicators of civic engagement.  This initiative is led by the Indiana Bar Association. more »
        • Homecoming: Treat 'n' Tuesday
          October 24 10:00am
          Join Traditions Board and paint a pumpkin. In the spirit of Homecoming, we challenge you to paint a pumpkin that shows off your IUPUI pride! more »
        Monday, October 23, 2017

          About This Event

          Summary

          Yogesh Pandit, Master’s in Bioinformatics Thesis Defense

          Title: Context Specific Text Mining For Annotating Protein Interactions With Experimental Evidence

          Thesis committee:

          • Mathew Palakal, Ph.D., Chair

          • Yunlong Liu, Ph.D.

          • Xiaowen Liu, Ph.D.

          Abstract:

          Proteins are the building blocks in a biological system. They interact with other proteins to make unique biological phenomenon. Protein-protein interactions play a valuable role in understanding the molecular mechanisms occurring in any biological system. Protein interaction databases are a rich source on protein interaction related information. They gather large amounts of information from published literature to enrich their data. Expert curators put in most of these efforts manually. The amount of accessible and publicly available literature is growing very rapidly. Manual annotation is a time consuming process. And with the rate at which available information is growing, it cannot be dealt with only manual curation. There need to be tools to process this huge amounts of data to bring out valuable gist than can help curators proceed faster. In case of extracting protein-protein interaction evidences from literature, just a mere mention of a certain protein by look-up approaches cannot help validate the interaction. Supporting protein interaction information with experimental evidence can help this cause. Also to avoid redundancy in curation efforts and for ease of accessibility, efforts are being put to relate manually curated information to standardized ontologies. In this study, we are applying machine learning based classification techniques to classify any given protein interaction related document into an interaction detection method. We use biological attributes and experimental factors, different combination of which define any particular interaction detection method. Then using predicted detection methods, proteins identified using named entity recognition techniques and decomposing the parts-of-speech composition we search for sentences with experimental evidence for a protein-protein interaction. We report an accuracy of 75.1% with a F-score of 47.6% on a dataset containing 2035 training documents and 300 test documents.

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          Contact Information

          Mary O'Neill
          moneill@iupui.edu

          Event Site --- None ---
          Registration --- None ---

          Event Schedule

          There are no upcoming dates for this event.

          IU Calendar




          • Competition Pool
            October 23 11:00am
            lap swim more »
          • Homecoming: De-stress Fest
            October 23 6:00pm
            Kick back, relax, and relieve the stress of midterms at De-stress fest.  more »
          • Competition Pool
            October 24 5:30am
            lap swim more »
          • Indiana Civic Health Index Breakfast
            October 24 8:30am
            A launch event to announce the results of the Indiana Civic Health Index, an analysis of where Hoosiers stand on several indicators of civic engagement.  This initiative is led by the Indiana Bar Association. more »
          • Homecoming: Treat 'n' Tuesday
            October 24 10:00am
            Join Traditions Board and paint a pumpkin. In the spirit of Homecoming, we challenge you to paint a pumpkin that shows off your IUPUI pride! more »
          Monday, October 23, 2017