Integrated Data Management System for the Biorepository

Biorepository

Part of the Mission and Goals Statement … the limited availability of carefully collected and controlled, high-quality human biospecimens annotated with essential clinical data and properly consented for broad investigational use … is repeatedly identified by the scientific community as a leading obstacle to progress in post-genomics cancer research … National Cancer Institute (NCI) Office of Biorepositories and Biospecimen Research (OBBR) Accessed April 4, 2014 From the Office of Biorepositories and Biospecimen Research

Standard Process

Goal Combine different biobanks – Hollings Cancer Center – MUSC Brain Bank – SCTR biobank Link different data sets on one screen For Researchers

Goal Add additional knowledge relating to their samples without having to go to many different systems. For Biorepository Personnel

User Interface Capabilities Filter by ICD-9 codes – diagnostic descriptions Filter by demographics – Age – Sex – Race Ability to de-identify data or eliminate entirely Maintain an audit trail of samples reviewed Add to shopping cart or wish list Simple to use Admin Slide

Background Campus wide use of TissueMetrix using Oracle Clinical Data Warehouse using Sybase IQ Cancer Registry’s IMPAC system using MS SQL Cerner CoPathPlus streaming HL7 messages PenRad for mammography informatics Lucene.Net indexing ICD-9 codes Excel spreadsheets Combines data from multiple data sources

Technology Details Portal uses DNN as foundation Authentication using LDAP ICD-9 searches are created using Lucene.net User Interface uses HTML5, JavaScript, jQuery Web Services are written in JSON MS SQL is used for middle tier 128 bit Encrypted values change every 3 minutes Geek Slide

Identify System. Can we Transform Data Internally? Does it have a Web Service? Staging Area Application Web Service START YES NO Very Basic Workflow Data Access Process Transform as needed Balancing Act

Biorepository Data Export data nightly to MS SQL database Data Warehouse Data is transformed and cleansed so it has consistent meaning. May involve restructuring, redefining, filtering, combining, recalculating and summarizing data fields TissueMetrix using Oracle

Storefront Disease SitesCases Tumor Primary Plasma Buffy Coat Plasma Anal Bladder Breast TissueMetrix data

Creating a Worksheet

Shopping Cart List

CDW Web Service to access data Pass in an MRN and Date Range get back ICD-9 Codes Working on: – Getting back Lab results – Getting back Treatments – Other areas Clinical Data Warehouse using Sybase IQ

Cancer Registry Web Service to access data Pass in an MRN and get back – Tumor Information – Histology – Grade – Treatment – Other areas Commercial Program using MS SQL

Path Reports HermeTech HL7 listener De-identifying Message and build the document based upon the role of the user. Pass the data down in JSON to be displayed as standard HTML Cerner CoPathPlus streaming HL7 messages

So what did we end up with

TBD Sources Radiology Cancer Registry CDW Path Reports TissueMetrix Web Service

End User has a: Larger set of Data

Rather than: Or stumbling around in the dark

Security 128 bit Encrypted value changes every 3 minutes and is included in the Header of every browser request MRN is passed encrypted with key that changes every 3 minutes Values are checked on the Web Server to be within accepted values before sending to the Database Server

Summary Provides researchers with a simplified view of specimens in inventory Users do not require direct access to the database Provides for electronic messaging when further interest in specimens is identified Identifies availability of specimens for grant proposals

What have we learned Think outside the box

Before the Demo Any Questions?

Contact Information Anita L. Harrison, MPA Associate Director of Administration Hollings Cancer Center Medical University of South Carolina William Morgenweck Storefront