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-   -   Framework for Gene Name Entity Recognition (http://seqanswers.com/forums/showthread.php?t=94566)

fjkvfhjkgjkkhfdsd 05-26-2020 03:52 PM

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 05-26-2020 04:12 PM

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.

fjkvfhjkgjkkhfdsd 05-27-2020 07:54 AM

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


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