-
Notifications
You must be signed in to change notification settings - Fork 2
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
Merge pull request #6 from uc-cdis/updates
Adding draft clinical nodes
- Loading branch information
Showing
22 changed files
with
6,841 additions
and
15 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
6 changes: 3 additions & 3 deletions
6
gdcdictionary/unused/cardiac_mri.yaml → gdcdictionary/schemas/cardiac_mri.yaml
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,156 @@ | ||
| schema: "http://json-schema.org/draft-04/schema#" | ||
|
|
||
| id: "comorbidity" | ||
| title: Comorbidity | ||
| type: object | ||
| namespace: https://imaging-hub.data-commons.org | ||
| category: clinical | ||
| program: '*' | ||
| project: '*' | ||
| description: > | ||
| Diagnosed medical conditions that are not directly related to or pre-date a patient's oncologic history. | ||
| additionalProperties: false | ||
| submittable: true | ||
| validators: null | ||
|
|
||
| systemProperties: | ||
| - id | ||
| - project_id | ||
| - state | ||
| - created_datetime | ||
| - updated_datetime | ||
|
|
||
| links: | ||
| - name: subjects | ||
| backref: comorbidities | ||
| label: describes | ||
| target_type: subject | ||
| multiplicity: many_to_one | ||
| required: true | ||
| - name: followups | ||
| backref: comorbidities | ||
| label: describes | ||
| target_type: followup | ||
| multiplicity: many_to_one | ||
| required: false | ||
|
|
||
| required: | ||
| - submitter_id | ||
| - type | ||
| - subjects | ||
|
|
||
| uniqueKeys: | ||
| - [id] | ||
| - [project_id, submitter_id] | ||
|
|
||
| properties: | ||
| $ref: "_definitions.yaml#/ubiquitous_properties" | ||
|
|
||
| comorbidity: | ||
| description: > | ||
| Text term to identify a coexistent disease or condition in a person. | ||
| enum: | ||
| - Acute renal failure | ||
| - Adrenocortical Insufficiency | ||
| - Allergies | ||
| - Anemia | ||
| - Anxiety | ||
| - Arrhythmia | ||
| - Arthritis | ||
| - Asthma | ||
| - Atrial Fibrillation | ||
| - Avascular Necrosis | ||
| - Basal Cell Carcinoma | ||
| - Blood Clots | ||
| - Bone Fracture(s) | ||
| - Bronchitis | ||
| - Calcium Channel Blockers | ||
| - Cancer | ||
| - Cataracts | ||
| - Cerebrovascular Disease | ||
| - Chronic renal failure | ||
| - Congestive Heart Failure (CHF) | ||
| - Connective Tissue Disorder | ||
| - COPD | ||
| - Coronary Artery Disease | ||
| - Cryptogenic Organizing Pneumonia | ||
| - Deep vein thrombosis / Thromboembolism | ||
| - Depression | ||
| - Diabetes | ||
| - Diabetic Neuropathy | ||
| - Diet controlled Diabetes | ||
| - DVT/PE | ||
| - Dyslipidemia | ||
| - Epilepsy | ||
| - Gastroesophageal reflux disease | ||
| - GERD | ||
| - Glaucoma | ||
| - Gout | ||
| - Gonadal dysfunction | ||
| - Headache | ||
| - Heart disease | ||
| - Hemorrhagic Cystitis | ||
| - Hepatitis | ||
| - Hepatitis B Infection | ||
| - Hepatitis C Infection | ||
| - HIV / AIDS | ||
| - HUS/TTP | ||
| - Hypercholesterolemia | ||
| - Hypercalcemia | ||
| - Hyperglycemia | ||
| - Hyperlipidemia | ||
| - Hypertension | ||
| - Hypothyroidism | ||
| - Inflammatory Bowel Disease | ||
| - Insulin controlled Diabetes | ||
| - Interstitial Pneumontis or ARDS | ||
| - Iron Overload | ||
| - Ischemic heart disease | ||
| - ITP | ||
| - Joint replacement | ||
| - Kidney Disease | ||
| - Liver Cirrhosis (Liver Disease) | ||
| - Liver toxicity (non-infectious) | ||
| - Lupus | ||
| - MAI | ||
| - Myocardial Infarction | ||
| - None | ||
| - Obesity | ||
| - Organ transplant (site) | ||
| - Osteoarthritis | ||
| - Osteoporosis or Osteopenia | ||
| - Other | ||
| - Other cancer within 5 years | ||
| - Other nonmalignant systemic disease | ||
| - Other pulmonary complications | ||
| - Pancreatitis | ||
| - Pain (various) | ||
| - Peptic Ulcer (Ulcer) | ||
| - Peripheral neuropathy | ||
| - Peripheral Vascular Disease | ||
| - Pregnancy in patient or partner | ||
| - Psoriasis | ||
| - Pulmonary Fibrosis | ||
| - Pulmonary Hemorrhage | ||
| - Renal failure (requiring dialysis) | ||
| - Renal dialysis | ||
| - Renal Insufficiency | ||
| - Rheumatologic Disease | ||
| - Sarcoidosis | ||
| - Seizure | ||
| - Sleep apnea | ||
| - Smoking | ||
| - Stroke | ||
| - Transient ischemic attack | ||
| - Tuberculosis | ||
| - Ulcerative Colitis | ||
|
|
||
| days_to_comorbidity: | ||
| description: > | ||
| Number of days between the date used for index and the date the patient was diagnosed with a comorbidity. | ||
| type: integer | ||
|
|
||
| subjects: | ||
| $ref: "_definitions.yaml#/to_one" | ||
| followups: | ||
| $ref: "_definitions.yaml#/to_one" |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,66 @@ | ||
| $schema: "http://json-schema.org/draft-04/schema#" | ||
|
|
||
| id: "condition" | ||
| title: Condition | ||
| type: object | ||
| nodeTerms: null | ||
| namespace: https://imaging-hub.data-commons.org | ||
| category: medical_history | ||
| program: '*' | ||
| project: '*' | ||
| description: Information pertaining to relevant medical condition(s) of a case's subject (e.g., medical diagnoses, diseases, disorders, symptoms, injuries, illnesses, comorbidities) recorded in the process of clinical care (e.g., data extracted from the electronic medical record). | ||
| additionalProperties: false | ||
| submittable: true | ||
| validators: null | ||
|
|
||
| systemProperties: | ||
| - id | ||
| - project_id | ||
| - state | ||
| - created_datetime | ||
| - updated_datetime | ||
|
|
||
| links: | ||
| - name: subjects | ||
| backref: conditions | ||
| label: related_to | ||
| target_type: subject | ||
| multiplicity: many_to_one | ||
| required: true | ||
|
|
||
| required: | ||
| - submitter_id | ||
| - type | ||
| - subjects | ||
|
|
||
| uniqueKeys: | ||
| - [id] | ||
| - [project_id, submitter_id] | ||
|
|
||
| properties: | ||
|
|
||
| $ref: "_definitions.yaml#/ubiquitous_properties" | ||
|
|
||
| condition_code: | ||
| description: The code for a specific codition, assigned by the code system. | ||
| type: string | ||
|
|
||
| condition_code_system: | ||
| description: The system that assigned the code for a specific condition. | ||
| type: string | ||
|
|
||
| condition_name: | ||
| description: The name of the condition the patient has experienced. | ||
| type: string | ||
|
|
||
| days_to_condition_end: | ||
| description: The number of days from the index date to the date the subject no longer experienced the condition. | ||
| type: integer | ||
|
|
||
| days_to_condition_start: | ||
| description: The number of days from the index date to the date the subject was diagnosed with or began experiencing the condition. | ||
| type: integer | ||
|
|
||
| subjects: | ||
| description: The submitter_id or id of the case this condition describes, i.e., a link to a record in the parent node. | ||
| $ref: "_definitions.yaml#/to_one" |
Oops, something went wrong.