In OHDSI/PatientLevelPrediction: Developing patient level prediction using data in the OMOP Common Data Model

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## Constrained Predictors

### How to use the PhenotypeLibrary R package

Here we provide a set of phenotypes that can be used as predictors in prediction models or best practice research.

These phenotypes can be extracted from the PhenotypeLibrary R package. To install the R package run:

```r
remotes::install_github('ohdsi/PhenotypeLibrary')

To extract the cohort definition for Alcoholism with an id of 1165, just run:

PhenotypeLibrary::getPlCohortDefinitionSet(1165)

in general you can extract all the cohorts by running:

phenotypeDefinitions <- PhenotypeLibrary::getPlCohortDefinitionSet(1152:1215)

The full set of predictor phenotypes

| Phenotype Name | Disorder classification | OHDSI Phenotype library ID | |--------------------------------|--------------------|-------------------| | Alcoholism | Behavioral | 1165 | | Smoking | Behavioral | 1166 | | Anemia | Blood | 1188 | | Osteoarthritis | Bone | 1184 | | Osteoporosis | Bone | 1185 | | Cancer | Cancer | 1215 | | Atrial fibrillation | Cardiovascular | 1160 | | Congestive heart failure | Cardiovascular | 1154 | | Coronary artery disease | Cardiovascular | 1162 | | Heart valve disorder | Cardiovascular | 1172 | | Hyperlipidemia | Cardiovascular | 1170 | | Hypertension | Cardiovascular | 1198 | | Angina | Cardiovascular | 1159 | | Skin Ulcer | Debility | 1168 | | Diabetes type 1 | Endocrine | 1193 | | Diabetes type 2 | Endocrine | 1194 | | Hypothyroidism | Endocrine | 1171 | | Obesity | Endocrine | 1179 | | Gastroesophageal reflux disease (GERD) | GI | 1178 | | Gastrointestinal (GI) bleed | GI | 1197 | | Inflammatory bowel disorder (IBD) | GI/Rheumatology | 1180 | | Hormonal contraceptives | Gynecologic | 1190 | | Antibiotics Aminoglycosides | Infection | 1201 | | Antibiotics Carbapenems | Infection | 1202 | | Antibiotics Cephalosporins | Infection | 1203 | | Antibiotics Fluoroquinolones | Infection | 1204 | | Antibiotics Glycopeptides and lipoglycopeptides | Infection | 1205 | | Antibiotics Macrolides | Infection | 1206 | | Antibiotics Monobactams | Infection | 1207 | | Antibiotics Oxazolidinones | Infection | 1208 | | Antibiotics Penicillins | Infection | 1209 | | Antibiotics Polypeptides | Infection | 1210 | | Antibiotics Rifamycins | Infection | 1211 | | Antibiotics Sulfonamides | Infection | 1212 | | Antibiotics Streptogramins | Infection | 1213 | | Antibiotics Tetracyclines | Infection | 1214 | | Pneumonia | Infection/Respiratory | 1199 | | Sepsis | Infection | 1176 | | Urinary tract infection (UTI) | Infection | 1186 | | Hepatitis | Liver | 1169 | | Anxiety | Mood | 1189 | | Depression (MDD) | Mood | 1161 | | Psychotic disorder | Mood | 1175 | | Antiepileptics (pain) | Neurology/Pain | 1183 | | Seizure | Neurology | 1153 | | Hemorrhagic stroke | Neurology/Vascular | 1156 | | Non-hemorrhagic stroke | Neurology/Vascular | 1155 | | Acetaminophen prescription | Pain/Infection | 1187 | | Low back pain | Pain | 1173 | | Neuropathy | Pain/Neurology | 1174 | | Opioids | Pain | 1182 | | Acute kidney injury | Kidney | 1163 | | Chronic kidney disease | Kidney | 1191 | | Asthma | Respiratory | 1164 | | Chronic obstructive pulmonary disorder (COPD) | Respiratory | 1192 | | Dyspnea | Respiratory | 1195 | | Respiratory failure | Respiratory | 1177 | | Sleep apnea | Respiratory | 1167 | | Rheumatoid arthritis | Rheumatology | 1200 | | Steroids | Rheumatology/Pain/Pulmonary | 1181 | | Peripheral vascular disease | Vascular | 1157 | | Aspirin | Vascular | 1158 | | Deep vein thrombosis (DVT) | Vascular | 1152 | | Edema | Vascular | 1196 | | Inpatient visit | NA | NA |

OHDSI/PatientLevelPrediction documentation built on April 27, 2024, 8:11 p.m.