Abstract 3290: The Side-Out Foundation Metastatic Breast Cancer Database, an open-access portal for multi-omic molecular data and more
Authors: Elisa Baldelli, Shiva Ghaemi, Sanja Avramovic, Janusz Wojtusiak, Lance A. Liotta, Farrokh Alemi, Emanuel F. Petricoin, Bryant Dunetz, Mariaelena Pierobon
Journal: Cancer Research (2018)

Abstract Introduction: With the high volume of molecular data being generated daily from human malignancies, there is an increasing need to create novel internet-based portals where this information is readily and easily accessible to physicians, scientists, and the general public. Although numerous databases have been created to capture the molecular characteristics of primary tumors, limited resources are available when it comes to the metastatic lesions. We have developed a novel open-access database to capture demographic, clinical, and pathological information, outcome data, and multi-omic based molecular profiles from metastatic breast cancer (MBC) patients. Materials and Methods: The portal was created using the open-source relational database management system MySQL and the custom-codes were written using the PHP server-side scripting language. User interface, management, and authentication were created in WordPress. The database is primarily used to record information collected through the Side-Out clinical trials, a series of prospective Phase II trials targeting refractory MBC (NCT01074814, NCT01919749, NCT03195192). De-identified patients' information includes patients' demographics, treatment history, pathological characteristics of the primary tumor, outcome data, and multi-omic molecular profiles. Molecular information collected from each lesion include genomic (NGS-based whole/targeted exome sequencing), transcriptomic (RNA microarray/RNA Seq), proteomic (protein expression by IHC), and phosphoproteomic (protein pathway activation mapping by Reverse Phase Protein Microarray) data. Over 700 data fields are collected for each patient. A higher level of security for the recorded information is achieved by using a secondary database along with custom-codes during the data entry process. Investigators are exploring how Block-chain database design can be used to make portion of the data public while encrypting patient identifiers and key variables. Results: We present an overview of the portal, its usability, how access can be requested by interested third party, the user-friendly interface for downloading clinical, pathological and molecular data, and a few examples of how these data can be used to explore different aspects of metastatic breast cancers. Conclusions: To our knowledge, this is the first web-based publicly accessible database portal where broad multi-omic profiles are captured from the MBC patients along with demographic, clinical and pathological data. This open-access portal represents a unique and highly valuable tool as it integrates different aspects of the disease and can be used for correlative analyses and hypothesis-generating studies. Finally, this web-based portal allows free-of-charge dissemination of data from existing or upcoming clinical and translational studies targeting breast cancer patients. Citation Format: Elisa Baldelli, Shiva Ghaemi, Sanja Avramovic, Janusz Wojtusiak, Lance A. Liotta, Farrokh Alemi, Emanuel F. Petricoin, Bryant Dunetz, Mariaelena Pierobon. The Side-Out Foundation Metastatic Breast Cancer Database, an open-access portal for multi-omic molecular data and more [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 3290.