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  1. NIF
  2. NIF-11856

Improvements to DO for 1.0 release

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    • NIF
    • Issues closed as MONARCH has transitioned from UCSD services

    Description

      For our first major release, we need some major improvements to our uberdisease ontology (to be merged back with the standard DO).

      Examples:
      *integration of Orphanet
      *integration with MEDIC and UMLS mappings
      *integration with MESH
      *integration with Clinvar and MedGen mappings
      *add all OMIM ids/labels

      This may require some hand-curation; others may require updates to the DO itself; and updates to the automated pipeline.

      Attach specific tickets to this task.

      Relevant repositories:
      https://github.com/obophenotype/human-disease-ontology (this is the current repository, where new files sit)
      https://github.com/monarch-initiative/disease-miner (the experimental monarch version of DO)
      http://sourceforge.net/p/diseaseontology/feature-requests/ (the old one, i think it's now migrated to git)
      http://disease-ontology.org/
      https://code.google.com/p/phenotype-ontologies/issues/list (some issues are here, but should be migrated)
      https://build.berkeleybop.org/job/build-doid/ (the jenkins job for the first in this list, the doid)

      Here's some documentation for disease-miner, about the experimental pipeline:
      https://docs.google.com/document/d/1y08_R1P98lm2rRu6VMRWLK5bvSAe-FzU86jD_qaXGSE/edit#

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              cmungall Chris Mungall
              nlw Nicole Washington
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