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  • fjkvfhjkgjkkhfdsd
    Junior Member
    • May 2020
    • 6

    #1

    Framework for Gene Name Entity Recognition

    Does a framework for gene name entity recognition exists?
    Use case: Input a text from a publication and get all gene names from that text.
    Many thanks and best regards.
  • fjkvfhjkgjkkhfdsd
    Junior Member
    • May 2020
    • 6

    #2
    Does especially a framework exist which was made for developers with no background in biology? I tried to do Named Entity Recognition for gene names. But I think it is a major problem to create a gold standard with no knowledge in biology.

    Therefore, I asked my self if a framework exists where one can input a text and get gene names as a result.

    Many thanks and best regards.

    Comment

    • fjkvfhjkgjkkhfdsd
      Junior Member
      • May 2020
      • 6

      #3
      Hi,

      For those who have a similar problem, I found a solution.
      NCBI provides an API which does exactly that job: https://www.ncbi.nlm.nih.gov/research/pubtator/

      Best Regards

      Comment

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