Implement ClinVar Uploads

[holtgrewe]

Is your feature request related to a problem? Please describe.
ClinVar uploads would be a nice feature for REEV.

Describe the solution you'd like
Implement clinvar uploads of sequence and structural variants using clinvar-this.

• Based on saved ACMG ratings, allow users to trigger uploads.
• Users must be able to save ClinVar upload tokens and possibly NCBI tokens for querying.
• Add appropriate models / schemas / API endpoints to backend. We probably only want to save the messages sent/received and display accordingly.
• Integrate with frontend.

Describe alternatives you've considered
N/A

Additional context

• Allow user to store case information with their account #94
• Allow users to save ACMG criteria on the server #98

[holtgrewe]

Based on clinvar-this, the user should be able to annotate the following.

• assertion criteria: pubmed ID, 25741868 for ACMG 2015, or URL
  • condition_set: of OMIM, HP, empty list => "not provided"
  • observed_in:
    • clinical_features: HPO phenotypes with absent/present
    • clinical_features_comment: free-text
    • allele_origin: always germline
    • number_of_individuals: optional int
    • struct_var_method_type: optional enum value
  • record_status: novel OR update AND
  • clinvar_accession: SCV identifier
  • local_key: optional ID
  • variant_set:
    • variant:
      • chromosome_coordinates
      • "copy_number": null,
      • "gene": null,
      • "hgvs": null,
      • "reference_copy_number": null,
      • "variant_type": null
• only submission as public is supported at the moment

[holtgrewe]

Submission transcript with failure:

• clinvarsubthread.csv
• clinvarsubactivity.csv