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Clinical and Translational Science Center

Clinical and Translational Science Center

BIOMEDICAL INFORMATICS

CTSC Biomedical Informatics services focus on data management, database development and maintenance, data retrieval from the EMR, and training. The group provides various research tools to make the process of research easier.

Request Services

Primary Contact:
Sam Morley, M.S.
Manager
samuel.morley@ucdmc.ucdavis.edu
916-703-9193 

Consultation

Please schedule a consultation to discuss your study data planning and implementation needs, including: data specifications, consistent terminology, text for use in the informatics sections of grant applications, cohorts of de-identified data to establish study feasibility, assistance in preparation of a data set for statistical analysis.

Request a consultation by contacting Sam Morley at samuel.morley@ucdmc.ucdavis.edu.

Services We Offer

Our aim is to provide high quality, competent, and reliable support in the development, design, and management of clinical trial data through education, consultation, and services in compliance with state, local, and federal regulations.

Login Links To Research Tools

Electronic Data Capture

Clinical Trials Management System

A limited number of user licenses are available for a clinical trials data management system (used primarily in the UC Davis Cancer Center). To request access send an email to ctms.support@ucdmc.ucdavis.edu.

REDCap and REDCap Survey

REDCap (Research Electronic Data Capture) is a modern, secure software application for building and managing online clinical research databases and survey forms. The application allows users to quickly create research databases and data entry web-based screens and to link their collected data with existing statistical software tools. It is a replacement for all Microsoft Excel spreadsheets and Access databases for study data, as it improves data security, online access, and the quality of data collected.

The CTSC Biomedical Informatics team can provide the tools and expertise to help researchers create databases for research studies. Specifically, we can help:

  • Determine data specifications
  • Supply consistent terminology
  • Provide text for use in the informatics sections of grant applications
  • Deliver cohorts of de-identified data to establish study feasibility
  • Provide assistance in preparation of a data set for statistical analysis

To register for a REDCap training session, please complete the online reservation form.

Visit the main REDCap page to learn more about REDCap, including how to

  • get started and build a REDCap project,
  • provide non-UC Davis collaborators with access to REDCap databases, and
  • create REDCap verbiage for grants, IRB documents, and other regulatory documentation.

EMR Data Retrieval

Investigators may request extraction of identified or de-identified, IRB-approved clinical data for retrospective analysis and prospective follow-up. Prior to submitting a request for EMR data retrieval, the investigator is expected to have:

  • an approved (or at least submitted) IRB protocol or an approved “Preparatory to Research” form from the UC Davis Office of Research Compliance and Integrity unit.
  • run a Cohort Discovery query and have created a list of:
    • inclusion and exclusion criteria for their study,
    • ICD-9 codes, and
    • meds and or labs.

After the above requirements are met, an investigator may apply for EMR data retrieval by submitting a request for services.

Self Serve Research Tools

Self-service research tools provide researchers with de-identified cohorts that meet specified search criteria. This information is helpful during the refinement of a research question, in the early development of a protocol, or planning recruitment for a study.

Cohort Discovery

Cohort Discovery (also known as I2B2) is a software tool that enables researchers to query a repository of de-identified patient information gathered from multiple sources, including electronic medical records, lab results, and demographic data. In response to a query, the Cohort Discovery Tool returns the approximate number of patients matching the search criteria. No patient identifiers or clinical data is revealed. Investigators may subsequently request retrieval of identified or de-identified, IRB-approved clinical data from the EMR by following the instructions found in the EMR Data Retrieval section above.

UC Davis Researchers who complete an introductory training session are provided with a Login ID and password for Cohort Discovery.

A list of upcoming classes and additional information about Cohort Discovery is maintained on a Health System intranet site. If you are unable to access this link, please visit the CTSC Event Calendar for upcoming Cohort Discovery training sessions.

To register for a Cohort Discovery Training Session, please fill out the Registration Form.

If you have questions or need assistance send an email to cohortdiscovery@ucdmc.ucdavis.edu

Visit the CTSC Cohort Discovery page for more information.

Data Explorer

The University of California Research eXchange (UC ReX) Data Explorer, is a secure, web-based system that enables UC investigators to identify potential research study cohorts from 12 million de-identified patient records at the five UC medical centers. The output of each query is a numeric count of cohorts, sorted by site, that match the criteria identified in the query. The numeric counts can be used to assess the feasibility of a study or hypotheses by identifying whether there are sufficient prospective subjects within the UC system.

UC Davis Researchers who complete an Introductory Training session are provided with a Login ID and password for Data Explorer.

A list of upcoming classes and additional information about Cohort Discovery and Data Explorer is maintained on a Health System intranet site. If you are unable to access this link, please check the CTSC Event Calendar for upcoming Cohort Discovery training sessions (includes Data Explorer training).

To register for a Cohort Discovery Training Session, please fill out the Registration Form.

If you have questions or need assistance send an email to ucrexdex@ucdmc.ucdavis.edu

For more information visit the CTSC UC ReX page.

Education and Training

One-on-one and group training is available for REDCap, Cohort Discovery, and UCReX Data Explorer.

To attend regularly scheduled group training, visit following course registration pages:

To schedule one-on-one training, send an email request to the appropriate address below.

For Cohort Discovery (including Data Explorer): cohortdiscovery@ucdmc.ucdavis.edu For REDCap: redcap.support@ucdmc.ucdavis.edu

Other Resources

Cohort Discovery Resources

Data Management Plans and Resources (Created by UC Davis Librarians)

Experts Research Profiles (formerly SciVal) -- This application scans through PubMed, Scopus and other national databases to isolate faculty researcher profile data, including research topics and publications.

Did you know...

  • Cohort Discovery has access to ~2 million patient records in EMR.
  • UCRex Data Explorer (Five UCs) is ~12 million patient records.
  • Experts (formerly SciVal) has profiles for over 1200 UC Davis Faculty including the UC Davis School of Veterinary Medicine.
  • REDCap has over 130 research projects currently in production and over 340 active users.
  • Cohort Discovery has been queried over 5800 times since its installation back in October of 2009.