OHDSI Network Study: Dermatomyositis Phenotype Evaluation

This is an OHDSI study being coordinated by the Johns Hopkins Myositis Center. Please see our post on the OHDSI forum for more information.

The Coordinating site is currently in the process of obtaining IRB approval through the Johns Hopkins Medicine IRB. The JHU Application is IRB00373992 and the JHU PI is Dr. Christopher Mecoli, MD. Participating data partners should ensure that ethics board or IRB approval has been obtained as appropriate.

To participate in this network study:

1. Review the study protocol found in the documents directory and ensure that your site meets the inclusion criteria.
2. Contact the study team for a submission link.
3. Follow these instructions for setting up your R environment, including RTools, devtools, renv, and Java.
4. Clone the repository git clone https://github.com/ohdsi-studies/MyositisNetworkStudy.git or using the RStudio GUI.
5. Open your study package in RStudio. Use renv::restore() to install dependencies. Tip: On windows UNC paths, Sys.setenv(R_INSTALL_STAGED = FALSE) my be useful if encountering permission denied errors while installing dependencies using renv.
6. In RStudio, select 'Build' then 'Load all' to build the package and load it into memory using devtools.
7. Modify the 'env setup' section of the extra/CodeToRun.R script to connect to your CDM and set metadata for the execution. A file zip file with the results and meta data will be created
8. Execute the modified CodeToRun.R script
9. Submit the generated zip file to the coordinating study team using the OneDrive link provided.

Element	Description
Study Title	Creation and Evaluation of Dermatomyositis Phenotypes Across Different Database Sources
Study Status
Next Steps	Generate the 8 phenotypes on multiple external OMOP CDMs (at least 1 claims and 1 EHR based CDMs) and run Phevaluator on external CDMs
Research Question	How do dermatomyositis phenotypes perform across different data sources (EHR, claims, registries) that may have differences in how the OMOP ETL was performed?
Uncertainty	We remain uncertain as to how our phenotypes will perform across other database types (claims, other EHR, etc).
Study type	Clinical Application.
Tags	OHDSI Myositis
Study lead	Dr. Christopher Mecoli, MD
Study lead forums tag	Christopher_Mecoli
Study team	See protocol
Phenotype Development	Created and tested 8 myositis phenotypes with Phevaluator using Johns Hopkins OMOP CDM
Phenotype Evaluation	Currently under development process. This is the purpose of the study
Cohort Definitions	Myositis Phenotype Cohort IDs are defined in the cohorts directory. These can also be viewed on the OHDSI Atlas demo instance; ID: 1781804,1788567,1787425,1788503,1789031,1789032,1788875,1789289
Cohort Diagnostics	Currently under development process. (A hyperlink to the R Shiny app where the cohort diagnostics results can be viewed.)
Analysis Specifications	Develop a OHDSI protocol to run a multi-centric patient level prediction study on complication comparisons among different drug use for dermatomyositis patients.
HADES Packages	DatabaseConnecter, CohortDiagnostics, Phevaluator
Study Sites	Pending, but likely to include Stanford, Columbia, and other datasources accessed through J&J
Results explorer	N/A
Study start date	Dec 11, 2023
Study end date	Not completed
Protocol	See documents directory
Publications	N/A

Study Progress

Study Attribute	Value
IRB materials sufficient for review	Yes
Cohort definition(s) available	Yes
Data partner recruitment status	Ready
Deadline for adding new data partners	N/A
Protocol building team recruitment status	ready
Deadline for adding new protocol building team members	N/A
Manuscript preparation team recruitment status	Ready
Deadline for adding new manuscript preparation team members	N/A