• JAGS Invite
    December 09 12:00am
    Swim meet more »
  • Competition Pool
    December 09 5:30am
    Lap Swim more »
  • Jaguars in the Streets: Feed America with Gleaners
    December 09 8:30am
    Jaguars in the Streets are partnering with the Gleaners Food Bank of Indianapolis for this special JITS Event!    "Every year thousands of Hoosier families have food to eat because of our gracious and compassionate volunteers. Because of their generously-given time and effort, we are able to collect and distribute more tha more »
  • CyberSec First Responder: Threat Detection and Response
    December 09 9:00am
    This workshop lasts 5 days. Overview: This course covers the duties of those who are responsible for monitoring and detecting security incidents in information systems and networks, and for executing a proper response to such incidents. Depending on the size of the organization, this individual more »
  • Al-Mutanabbi Street Starts Here
    December 09 10:00am
    A car bomb exploded in 2007 in the historic intellectual center of Baghdad, al-Mutanabbi Street. More than 130 people died or were wounded, but the place escaped geographic bounds to become a global movement for the free exchange of ideas. View selections from a rare collection of artist's books and broadsides that continue to be generated a more »
Friday, December 9, 2016
    IU Calendar




    • JAGS Invite
      December 09 12:00am
      Swim meet more »
    • Competition Pool
      December 09 5:30am
      Lap Swim more »
    • Jaguars in the Streets: Feed America with Gleaners
      December 09 8:30am
      Jaguars in the Streets are partnering with the Gleaners Food Bank of Indianapolis for this special JITS Event!    "Every year thousands of Hoosier families have food to eat because of our gracious and compassionate volunteers. Because of their generously-given time and effort, we are able to collect and distribute more tha more »
    • CyberSec First Responder: Threat Detection and Response
      December 09 9:00am
      This workshop lasts 5 days. Overview: This course covers the duties of those who are responsible for monitoring and detecting security incidents in information systems and networks, and for executing a proper response to such incidents. Depending on the size of the organization, this individual more »
    • Al-Mutanabbi Street Starts Here
      December 09 10:00am
      A car bomb exploded in 2007 in the historic intellectual center of Baghdad, al-Mutanabbi Street. More than 130 people died or were wounded, but the place escaped geographic bounds to become a global movement for the free exchange of ideas. View selections from a rare collection of artist's books and broadsides that continue to be generated a more »
    Friday, December 9, 2016
      IU Calendar




      • JAGS Invite
        December 09 12:00am
        Swim meet more »
      • Competition Pool
        December 09 5:30am
        Lap Swim more »
      • Jaguars in the Streets: Feed America with Gleaners
        December 09 8:30am
        Jaguars in the Streets are partnering with the Gleaners Food Bank of Indianapolis for this special JITS Event!    "Every year thousands of Hoosier families have food to eat because of our gracious and compassionate volunteers. Because of their generously-given time and effort, we are able to collect and distribute more tha more »
      • CyberSec First Responder: Threat Detection and Response
        December 09 9:00am
        This workshop lasts 5 days. Overview: This course covers the duties of those who are responsible for monitoring and detecting security incidents in information systems and networks, and for executing a proper response to such incidents. Depending on the size of the organization, this individual more »
      • Al-Mutanabbi Street Starts Here
        December 09 10:00am
        A car bomb exploded in 2007 in the historic intellectual center of Baghdad, al-Mutanabbi Street. More than 130 people died or were wounded, but the place escaped geographic bounds to become a global movement for the free exchange of ideas. View selections from a rare collection of artist's books and broadsides that continue to be generated a more »
      Friday, December 9, 2016
        IU Calendar




        • JAGS Invite
          December 09 12:00am
          Swim meet more »
        • Competition Pool
          December 09 5:30am
          Lap Swim more »
        • Jaguars in the Streets: Feed America with Gleaners
          December 09 8:30am
          Jaguars in the Streets are partnering with the Gleaners Food Bank of Indianapolis for this special JITS Event!    "Every year thousands of Hoosier families have food to eat because of our gracious and compassionate volunteers. Because of their generously-given time and effort, we are able to collect and distribute more tha more »
        • CyberSec First Responder: Threat Detection and Response
          December 09 9:00am
          This workshop lasts 5 days. Overview: This course covers the duties of those who are responsible for monitoring and detecting security incidents in information systems and networks, and for executing a proper response to such incidents. Depending on the size of the organization, this individual more »
        • Al-Mutanabbi Street Starts Here
          December 09 10:00am
          A car bomb exploded in 2007 in the historic intellectual center of Baghdad, al-Mutanabbi Street. More than 130 people died or were wounded, but the place escaped geographic bounds to become a global movement for the free exchange of ideas. View selections from a rare collection of artist's books and broadsides that continue to be generated a more »
        Friday, December 9, 2016

          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




          • JAGS Invite
            December 09 12:00am
            Swim meet more »
          • Competition Pool
            December 09 5:30am
            Lap Swim more »
          • Jaguars in the Streets: Feed America with Gleaners
            December 09 8:30am
            Jaguars in the Streets are partnering with the Gleaners Food Bank of Indianapolis for this special JITS Event!    "Every year thousands of Hoosier families have food to eat because of our gracious and compassionate volunteers. Because of their generously-given time and effort, we are able to collect and distribute more tha more »
          • CyberSec First Responder: Threat Detection and Response
            December 09 9:00am
            This workshop lasts 5 days. Overview: This course covers the duties of those who are responsible for monitoring and detecting security incidents in information systems and networks, and for executing a proper response to such incidents. Depending on the size of the organization, this individual more »
          • Al-Mutanabbi Street Starts Here
            December 09 10:00am
            A car bomb exploded in 2007 in the historic intellectual center of Baghdad, al-Mutanabbi Street. More than 130 people died or were wounded, but the place escaped geographic bounds to become a global movement for the free exchange of ideas. View selections from a rare collection of artist's books and broadsides that continue to be generated a more »
          Friday, December 9, 2016