Collaboration Phenotypes
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Contact authors listed below are open to engaging others in the development of their phenotypes. Unless the status of the phenotype is marked as final, these phenotypes cannot be viewed in-depth until the author has shared access with you and you have logged into PheKB. Click on an author's name to send an email to him or her expressing your interest in collaborating.
| Title | Institution | Phenotype Attributes | Description | Status | Contact Author | Type of Phenotype |
|---|---|---|---|---|---|---|
| Prostate Cancer | Northwestern University Feinberg School of Medicine | CPT Codes, ICD 10 Codes, ICD 9 Codes | In development | Luke Rasmussen | Disease or Syndrome | |
| Prostate Cancer Staging | Stanford University School of Medicine | CPT Codes, ICD 10 Codes, ICD 9 Codes, Laboratories, Natural Language Processing | In development | Tina Hernandez-Boussard | Other Trait | |
| Rheumatology Auto-Immune characteristics | Harvard Medical School | Laboratories, Medications | Dear, To identify cases with auto-immune rheumatologic phenotye (for NT198) we request information about auto-antibody (whether it was tested and what the restults were) and drug information (whether it was prescribed) for each patients that is enrolled in eMERGE. We are requesting every mention of any of the expanded generic drugs. | Final | Rachel Knevel | Other Trait |
| RxNorm RxCUI codes for Cancer Therapies | University of Iowa | Medications | This phenotype includes RxNorm RxCUI codes for cancer therapies. These codes map to drug records in the PCORnet Common Data Model and other data sources. The phenotype was developed in 2019. Please see the associated files for additional information. | Final | Ryan Carnahan | Other Trait |
| Sexual assault disclosures in clinical notes | Vanderbilt University Medical Center | Natural Language Processing | Please refer to the attached publication for the algorithm definition and performance metrics. | Validated | Allison Lake | Other Trait |
| Sexual assault disclosures in clinical notes (v2) | Vanderbilt University Medical Center | Natural Language Processing | Updates to the original algorithm listed under PheKB phenotype #1710 and published here. Additional inclusion and exclusion terms have been added. | Testing | Allison Lake | Other Trait |
| Sickle Cell Disease | Medical College of Wisconsin | ICD 9 Codes | Final | Daniel Michalik | Disease or Syndrome | |
| Statins and MACE | Vanderbilt University | CPT Codes, ICD 9 Codes, Laboratories, Natural Language Processing | Phenotype Description: Patients on statins for primary prevention who develop an AMI or 1st AMI. Below are algorithms used to identify AMI and 1st AMI cohort at BioVU. If you have questions regarding any of the information presented on this page, you may contact either: Wei-Qi Wei at wei-qi.wei@vanderbilt.edu | Final | Wei-Qi Wei | Drug Response - adverse effect or efficacy |
| STOP CRC Cohort | Group Health Cooperative | CPT Codes, ICD 9 Codes | This is a cohort identification phenotype for the STOP CRC trial, which is testing a culturally tailored, health care system–based program to improve CRC screening rates in OCHIN, a community-based collaborative network of more than 200 Federally Qualified Healthcare Centers. | Validated | Michelle Smerek | Disease or Syndrome |
| Systemic lupus erythematosus (SLE) | Vanderbilt University Medical Center | ICD 9 Codes, Laboratories, Medications, Natural Language Processing | We used Vanderbilt’s Synthetic Derivative (SD), a de-identified version of the EHR, with 2.5 million subjects. We selected all individuals with at least one SLE ICD-9 code (710.0) yielding 5959 individuals. To create a training set, 200 were randomly selected for chart review. A subject was defined as a case if diagnosed with SLE by a rheumatologist, nephrologist, or dermatologist. | Final | April Barnado | Disease or Syndrome |
| Tourette Syndrome | Vanderbilt University Medical Center | ICD 10 Codes, ICD 9 Codes, Natural Language Processing | Testing | Lea Davis | Disease or Syndrome | |
| Type1 or Type 2 Diabetes Mellitus | Mayo Clinic | ICD 9 Codes, Laboratories, Medications, Natural Language Processing | Phenotyping algorithm for the identification of patients with type 1 or type 2 diabetes mellitus (DM) preoperatively using routinely available clinical data from electronic health records. | Final | Sudhi Upadhyaya | |
| Urinary Incontinence | Stanford University | CPT Codes, ICD 10 Codes, ICD 9 Codes, Natural Language Processing | Description of a weakly supervised machine learning approach for extracting treatment-related side effects (Urinary Incontinence) following prostate cancer therapy from multiple types of free-text clinical narratives, including progress notes, discharge summaries, history and physical notes. Prostatectomy surgery and radiation therapy are our treatments of interest for prostate cancer. | Final | Tina Hernandez-Boussard | Disease or Syndrome |