Add smoking related fields in medical_history module

[arschat]

For which schema is a change/update being suggested?

I would like to request an update to the medical_history.json schema.

What should the change/update be?

I would like to add three new fields - smoking_status/ smoking_pack_years/ years_since_smoking_cessation - to this schema to allow data contributors to collect precise and measurable information about donor's smoking history.
Existing field smoking_history should be removed since there is overlap with smoking_pack_years.

This update constitutes a major change to the schema(s) it affects.

What new field(s) need to be changed/added?

1. smoking_status

   • Field name: smoking_status
   • Field description: Whether the individual is actively, was formerly or never consumed smoking tobacco products like cigarettes, cigars, pipe, betel nut chewing etc.
   • Field type: string
   • Required: no
   • enum: active; former; never
   • Examples: active; former; never

2. smoking_pack_years

   • Field name: smoking_pack_years
   • Field description: Estimated number of packs (20 cigarettes) smoked per day multiplied by the number of years the individual was smoking.
   • Field type: number
   • Required: no
   • Examples: 4.55; 12; 49.5
   • CV or enum: no

3. years_since_smoking_cessation

   • Field name: years_since_smoking_cessation
   • Field description: If smoking status is "former", specify the number of years since smoking cessation.
   • Field type: integer
   • Required: no
   • Examples: 1; 4; 12
   • CV or enum: no

Why is the change requested?

Many bionetworks (currently 5) are interested in recording the smoking history of the donor in a standardised way as part of their Tier 2 metadata.

Although schema already has the medical_history.smoking_history field that records "Estimated number of cigarettes smoked per day.", this is a free text field that we can't standardize and use as a measurable way, and the way of measurement suggested does not take into account the number of years the individual smoked.

Lung bionetwork has proposed this 3 field way of recording this, and we expect these (or at least the status) to be requested for Tier 2 by most of the bionetworks. Since smoking_pack_years is very similar to the existing smoking_history we also suggest this field to be removed.

[arschat]

PR #1567