Searching of Clinical Trials Made Easier in cBioPortal Using Patients' Genetic and Clinical Profiles

Author:

Unberath Philipp1,Mahlmeister Lukas1,Reimer Niklas2,Busch Hauke2,Boerries Melanie34,Christoph Jan15

Affiliation:

1. Friedrich-Alexander University Erlangen-Nuremberg, Chair of Medical Informatics, Erlangen, Bayern, Germany

2. Universität zu Lübeck, Group for Medical Systems Biology, Lübeck Institute of Experimental Dermatology, Lübeck, Schleswig-Holstein, Germany

3. University of Freiburg Faculty of Medicine, Institute of Medical Bioinformatics and Systems Medicine, University Medical Center Freiburg, Freiburg, Baden-Württemberg, Germany

4. German Cancer Consortium (DKTK), partner site Freiburg, German Cancer Research Center (DKFZ), Heidelberg, Baden-Württemberg, Germany

5. Martin-Luther-University Halle-Wittenberg, Faculty of Medicine, Junior Research Group (Bio-)Medical Data Science, Halle, Sachsen-Anhalt, Germany

Abstract

Abstract Background Molecular tumor boards (MTBs) cope with the complexity of an increased usage of genome sequencing data in cancer treatment. As for most of these patients, guideline-based therapy options are exhausted, finding matching clinical trials is crucial. This search process is often performed manually and therefore time consuming and complex due to the heterogeneous and challenging dataset. Objectives In this study, a prototype for a search tool was developed to demonstrate how cBioPortal as a clinical and genomic patient data source can be integrated with ClinicalTrials.gov, a database of clinical studies to simplify the search for trials based on genetic and clinical data of a patient. The design of this tool should rest on the specific needs of MTB participants and the architecture of the integration should be as lightweight as possible and should not require manual curation of trial data in advance with the goal of quickly and easily finding a matching study. Methods Based on a requirements analysis, interviewing MTB experts, a prototype was developed. It was further refined using a user-centered development process with multiple feedback loops. Finally, the usability of the application was evaluated with user interviews including the thinking-aloud protocol and the system usability scale (SUS) questionnaire. Results The integration of ClinicalTrials.gov in cBioPortal is achieved by a new tab in the patient view where the genomic profile for the search is prefilled and additional parameters can be adjusted. These parameters are then used to query the application programming interface (API) of ClinicalTrials.gov. The returned search results subsequently are ranked and presented to the user. The evaluation of the application resulted in an SUS score of 83.5. Conclusion This work demonstrates the integration of cBioPortal with ClinicalTrials.gov to use clinical and genomic patient data to search for appropriate trials within an MTB.

Publisher

Georg Thieme Verlag KG

Subject

Health Information Management,Computer Science Applications,Health Informatics

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