from pheno_utils import PhenoLoader018-medications
Medications
The collection of medication information in the Human Phenotype Project study relies on self-reporting of medication usage via online and smartphone applications, as well as collection by staff members through telephone or face-to-face interviews during follow-up.
Self-reporting occurs when participants disclose their medication use to researchers. Having accurate and complete data on medication usage is essential for understanding the true impact of these medications on individuals’ health.
Data availability:
- During registration (sign-up) for the study, participants are asked to report their regular medications online, with an autofill feature, selecting from a predefined drop-down list.
- During follow-up calls or visits, participants update their medication intake.
- App medication logging.
All three sources of data are stored in 1 parquet file: medications.parquet
pl = PhenoLoader('medications')
plPhenoLoader for medications with
16 fields
2 tables: ['medications', 'age_sex']Data dictionary
pl.dict| folder_id | feature_set | field_string | relative_location | description_string | bulk_dictionary | data_coding | stability | field_type | units | sampling_rate | strata | sexed | array | list_of_tags | debut | transformation | pandas_dtype | completed | bulk_file_extension | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| tabular_field_name | ||||||||||||||||||||
| collection_timestamp | 18 | medications | Collection time | medications/medications.parquet | Collection time | NaN | NaN | NaN | Datetime | NaN | NaN | Collection time | Both sexes | Single | NaN | NaN | NaN | datetime64[ns, Asia/Jerusalem] | NaN | NaN |
| collection_date | 18 | medications | Collection date | medications/medications.parquet | Collection date | NaN | NaN | NaN | Date | NaN | NaN | Primary | Both sexes | Single | NaN | NaN | NaN | datetime64[ns] | NaN | NaN |
| timezone | 18 | medications | Timezone | medications/medications.parquet | Timezone | NaN | NaN | NaN | Categorical (single) | NaN | NaN | Collection time | Both sexes | Single | NaN | NaN | NaN | category | NaN | NaN |
| medication | 18 | medications | Medication name | medications/medications.parquet | Medication name | NaN | NaN | NaN | Categorical (single) | NaN | NaN | Primary | Both sexes | Single | NaN | NaN | NaN | category | NaN | NaN |
| api | 18 | medications | Active Pharmaceutical Ingredient | medications/medications.parquet | Active Pharmaceutical Ingredient | NaN | NaN | NaN | Categorical (multiple) | NaN | NaN | Primary | Both sexes | Multiple | NaN | NaN | NaN | object | NaN | NaN |
| atc3 | 18 | medications | List of atc codes level 3 | medications/medications.parquet | List of atc codes level 3 | NaN | NaN | NaN | Categorical (multiple) | NaN | NaN | Primary | Both sexes | Multiple | NaN | NaN | NaN | object | NaN | NaN |
| atc4 | 18 | medications | List of atc codes level 4 | medications/medications.parquet | List of atc codes level 4 | NaN | NaN | NaN | Categorical (multiple) | NaN | NaN | Primary | Both sexes | Multiple | NaN | NaN | NaN | object | NaN | NaN |
| atc5 | 18 | medications | List of atc codes level 5 | medications/medications.parquet | List of atc codes level 5 | NaN | NaN | NaN | Categorical (multiple) | NaN | NaN | Primary | Both sexes | Multiple | NaN | NaN | NaN | object | NaN | NaN |
| start_month | 18 | medications | Start month | medications/medications.parquet | Start month of medication taking | NaN | 042_03 | NaN | Categorical (single) | NaN | NaN | Primary | Both sexes | Single | NaN | NaN | NaN | Int64 | NaN | NaN |
| start_year | 18 | medications | Start year | medications/medications.parquet | Start year of medication taking | NaN | NaN | NaN | Integer | NaN | NaN | Primary | Both sexes | Single | NaN | NaN | NaN | Int64 | NaN | NaN |
| start_date | 18 | medications | Start date combined month + year | medications/medications.parquet | Start date combined month + year | NaN | NaN | NaN | Date | NaN | NaN | Primary | Both sexes | Single | NaN | NaN | NaN | datetime64[ns] | NaN | NaN |
| supplements | 18 | medications | Is supplements | medications/medications.parquet | Is it supplements | NaN | NaN | NaN | Categorical (single) | NaN | NaN | Primary | Both sexes | Single | NaN | NaN | NaN | bool | NaN | NaN |
| source | 18 | medications | Data Source | medications/medications.parquet | data source | NaN | NaN | NaN | Categorical (single) | NaN | NaN | Primary | Both sexes | Single | NaN | NaN | NaN | category | NaN | NaN |
| medication_mapping | 18 | medications_auxiliary | Medication mapping | medications/medications.parquet | Mapping to ATC codes | NaN | NaN | NaN | Mapping table (group) | NaN | NaN | Auxiliary | Both sexes | Single | NaN | NaN | NaN | category | NaN | csv |