|
| 1 | +# Class: Condition |
| 2 | + |
| 3 | + |
| 4 | + |
| 5 | + |
| 6 | +URI: [include:Condition](https://w3id.org/include/Condition) |
| 7 | + |
| 8 | + |
| 9 | + |
| 10 | + |
| 11 | +```mermaid |
| 12 | + classDiagram |
| 13 | + class Condition |
| 14 | + Condition : age_at_condition_observation |
| 15 | + Condition : condition_data_source |
| 16 | + Condition : condition_interpretation |
| 17 | + Condition : has_participant |
| 18 | + Condition : hpo_code |
| 19 | + Condition : hpo_label |
| 20 | + Condition : maxo_code |
| 21 | + Condition : maxo_label |
| 22 | + Condition : mondo_code |
| 23 | + Condition : mondo_label |
| 24 | + Condition : other_code |
| 25 | + Condition : other_label |
| 26 | + |
| 27 | +``` |
| 28 | + |
| 29 | + |
| 30 | + |
| 31 | + |
| 32 | +<!-- no inheritance hierarchy --> |
| 33 | + |
| 34 | + |
| 35 | +## Slots |
| 36 | + |
| 37 | +| Name | Cardinality and Range | Description | |
| 38 | +| --- | --- | --- | |
| 39 | +| [has_participant](has_participant.md) | 0..1 <br/> [Participant](Participant.md) | Link to a Participant | |
| 40 | +| [age_at_condition_observation](age_at_condition_observation.md) | 0..1 <br/> [xsd:string](xsd:string) | Age in days at which condition was observed, recorded, or diagnosed | |
| 41 | +| [mondo_label](mondo_label.md) | 0..1 <br/> [xsd:string](xsd:string) | Label for condition in the Mondo Disease Ontology (MONDO) | |
| 42 | +| [mondo_code](mondo_code.md) | 0..1 <br/> [xsd:string](xsd:string) | Code for condition in the Mondo Disease Ontology (MONDO) | |
| 43 | +| [condition_interpretation](condition_interpretation.md) | 0..1 <br/> [EnumConditionInterpretation](EnumConditionInterpretation.md) | Whether condition was observed or not | |
| 44 | +| [condition_data_source](condition_data_source.md) | 0..1 <br/> [EnumConditionDataSource](EnumConditionDataSource.md) | Whether condition information was obtained from medical records (Clinical) or... | |
| 45 | +| [hpo_label](hpo_label.md) | 0..1 <br/> [xsd:string](xsd:string) | Label for condition in the Human Phenotype Ontology (HPO) | |
| 46 | +| [hpo_code](hpo_code.md) | 0..1 <br/> [xsd:string](xsd:string) | Code for condition in the Human Phenotype Ontology (HPO) | |
| 47 | +| [maxo_label](maxo_label.md) | 0..1 <br/> [xsd:string](xsd:string) | Label for condition in the Medical Action Ontology (MAXO) | |
| 48 | +| [maxo_code](maxo_code.md) | 0..1 <br/> [xsd:string](xsd:string) | Code for condition in the Medical Action Ontology (MAXO) | |
| 49 | +| [other_label](other_label.md) | 0..1 <br/> [xsd:string](xsd:string) | Label for condition in another ontology (if no match in HPO, MONDO, or MAXO) | |
| 50 | +| [other_code](other_code.md) | 0..1 <br/> [xsd:string](xsd:string) | Code for condition in another ontology (if no match in HPO, MONDO, or MAXO) | |
| 51 | + |
| 52 | + |
| 53 | +## Usages |
| 54 | + |
| 55 | + |
| 56 | + |
| 57 | +## Identifier and Mapping Information |
| 58 | + |
| 59 | + |
| 60 | + |
| 61 | + |
| 62 | + |
| 63 | + |
| 64 | + |
| 65 | +### Schema Source |
| 66 | + |
| 67 | + |
| 68 | +* from schema: https://w3id.org/include |
| 69 | + |
| 70 | + |
| 71 | + |
| 72 | + |
| 73 | + |
| 74 | + |
| 75 | + |
| 76 | +## Mappings |
| 77 | + |
| 78 | +| Mapping Type | Mapped Value | |
| 79 | +| --- | --- | |
| 80 | +| self | ['include:Condition'] | |
| 81 | +| native | ['include:Condition'] | |
| 82 | + |
| 83 | + |
| 84 | +## LinkML Specification |
| 85 | + |
| 86 | +<!-- TODO: investigate https://stackoverflow.com/questions/37606292/how-to-create-tabbed-code-blocks-in-mkdocs-or-sphinx --> |
| 87 | + |
| 88 | +### Direct |
| 89 | + |
| 90 | +<details> |
| 91 | +```yaml |
| 92 | +name: Condition |
| 93 | +from_schema: https://w3id.org/include |
| 94 | +rank: 1000 |
| 95 | +slots: |
| 96 | +- has_participant |
| 97 | +- age_at_condition_observation |
| 98 | +- mondo_label |
| 99 | +- mondo_code |
| 100 | +- condition_interpretation |
| 101 | +- condition_data_source |
| 102 | +- hpo_label |
| 103 | +- hpo_code |
| 104 | +- maxo_label |
| 105 | +- maxo_code |
| 106 | +- other_label |
| 107 | +- other_code |
| 108 | + |
| 109 | +``` |
| 110 | +</details> |
| 111 | +
|
| 112 | +### Induced |
| 113 | +
|
| 114 | +<details> |
| 115 | +```yaml |
| 116 | +name: Condition |
| 117 | +from_schema: https://w3id.org/include |
| 118 | +rank: 1000 |
| 119 | +attributes: |
| 120 | + has_participant: |
| 121 | + name: has_participant |
| 122 | + definition_uri: include:has_participant |
| 123 | + description: Link to a Participant |
| 124 | + from_schema: https://w3id.org/include |
| 125 | + rank: 1000 |
| 126 | + alias: has_participant |
| 127 | + owner: Condition |
| 128 | + domain_of: |
| 129 | + - Biospecimen |
| 130 | + - DataFile |
| 131 | + - Condition |
| 132 | + - Biospecimen |
| 133 | + - DataFile |
| 134 | + - FamilyGroup |
| 135 | + - Condition |
| 136 | + range: Participant |
| 137 | + age_at_condition_observation: |
| 138 | + name: age_at_condition_observation |
| 139 | + definition_uri: include:age_at_condition_observation |
| 140 | + description: Age in days at which condition was observed, recorded, or diagnosed |
| 141 | + from_schema: https://w3id.org/include |
| 142 | + rank: 1000 |
| 143 | + alias: age_at_condition_observation |
| 144 | + owner: Condition |
| 145 | + domain_of: |
| 146 | + - Condition |
| 147 | + - Condition |
| 148 | + range: string |
| 149 | + mondo_label: |
| 150 | + name: mondo_label |
| 151 | + definition_uri: include:mondo_label |
| 152 | + description: Label for condition in the Mondo Disease Ontology (MONDO) |
| 153 | + from_schema: https://w3id.org/include |
| 154 | + rank: 1000 |
| 155 | + alias: mondo_label |
| 156 | + owner: Condition |
| 157 | + domain_of: |
| 158 | + - Condition |
| 159 | + - Condition |
| 160 | + range: string |
| 161 | + mondo_code: |
| 162 | + name: mondo_code |
| 163 | + definition_uri: include:mondo_code |
| 164 | + description: Code for condition in the Mondo Disease Ontology (MONDO) |
| 165 | + from_schema: https://w3id.org/include |
| 166 | + rank: 1000 |
| 167 | + alias: mondo_code |
| 168 | + owner: Condition |
| 169 | + domain_of: |
| 170 | + - Condition |
| 171 | + - Condition |
| 172 | + range: string |
| 173 | + condition_interpretation: |
| 174 | + name: condition_interpretation |
| 175 | + definition_uri: include:condition_interpretation |
| 176 | + description: Whether condition was observed or not. "Not Observed" indicates participant |
| 177 | + was specifically examined for that condition, or health record specifically |
| 178 | + queried for that condition, and found to be negative. Sept. 2022 release will |
| 179 | + only include positive assertions. |
| 180 | + from_schema: https://w3id.org/include |
| 181 | + rank: 1000 |
| 182 | + alias: condition_interpretation |
| 183 | + owner: Condition |
| 184 | + domain_of: |
| 185 | + - Condition |
| 186 | + - Condition |
| 187 | + range: enum_condition_interpretation |
| 188 | + condition_data_source: |
| 189 | + name: condition_data_source |
| 190 | + definition_uri: include:condition_data_source |
| 191 | + description: Whether condition information was obtained from medical records (Clinical) |
| 192 | + or patient survey (Self-Reported) |
| 193 | + from_schema: https://w3id.org/include |
| 194 | + rank: 1000 |
| 195 | + alias: condition_data_source |
| 196 | + owner: Condition |
| 197 | + domain_of: |
| 198 | + - Condition |
| 199 | + - Condition |
| 200 | + range: enum_condition_data_source |
| 201 | + hpo_label: |
| 202 | + name: hpo_label |
| 203 | + definition_uri: include:hpo_label |
| 204 | + description: Label for condition in the Human Phenotype Ontology (HPO) |
| 205 | + from_schema: https://w3id.org/include |
| 206 | + rank: 1000 |
| 207 | + alias: hpo_label |
| 208 | + owner: Condition |
| 209 | + domain_of: |
| 210 | + - Condition |
| 211 | + - Condition |
| 212 | + range: string |
| 213 | + hpo_code: |
| 214 | + name: hpo_code |
| 215 | + definition_uri: include:hpo_code |
| 216 | + description: Code for condition in the Human Phenotype Ontology (HPO) |
| 217 | + from_schema: https://w3id.org/include |
| 218 | + rank: 1000 |
| 219 | + alias: hpo_code |
| 220 | + owner: Condition |
| 221 | + domain_of: |
| 222 | + - Condition |
| 223 | + - Condition |
| 224 | + range: string |
| 225 | + maxo_label: |
| 226 | + name: maxo_label |
| 227 | + definition_uri: include:maxo_label |
| 228 | + description: Label for condition in the Medical Action Ontology (MAXO) |
| 229 | + from_schema: https://w3id.org/include |
| 230 | + rank: 1000 |
| 231 | + alias: maxo_label |
| 232 | + owner: Condition |
| 233 | + domain_of: |
| 234 | + - Condition |
| 235 | + - Condition |
| 236 | + range: string |
| 237 | + maxo_code: |
| 238 | + name: maxo_code |
| 239 | + definition_uri: include:maxo_code |
| 240 | + description: Code for condition in the Medical Action Ontology (MAXO) |
| 241 | + from_schema: https://w3id.org/include |
| 242 | + rank: 1000 |
| 243 | + alias: maxo_code |
| 244 | + owner: Condition |
| 245 | + domain_of: |
| 246 | + - Condition |
| 247 | + - Condition |
| 248 | + range: string |
| 249 | + other_label: |
| 250 | + name: other_label |
| 251 | + definition_uri: include:other_label |
| 252 | + description: Label for condition in another ontology (if no match in HPO, MONDO, |
| 253 | + or MAXO) |
| 254 | + from_schema: https://w3id.org/include |
| 255 | + rank: 1000 |
| 256 | + alias: other_label |
| 257 | + owner: Condition |
| 258 | + domain_of: |
| 259 | + - Condition |
| 260 | + - Condition |
| 261 | + range: string |
| 262 | + other_code: |
| 263 | + name: other_code |
| 264 | + definition_uri: include:other_code |
| 265 | + description: Code for condition in another ontology (if no match in HPO, MONDO, |
| 266 | + or MAXO) |
| 267 | + from_schema: https://w3id.org/include |
| 268 | + rank: 1000 |
| 269 | + alias: other_code |
| 270 | + owner: Condition |
| 271 | + domain_of: |
| 272 | + - Condition |
| 273 | + - Condition |
| 274 | + range: string |
| 275 | + |
| 276 | +``` |
| 277 | +</details> |
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