Informatics Resources

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UCSF Resources & Services

Academic Research Systems (ARS)

  • Provide leadership in enterprise-wide state-of-the-art information technology through innovative solutions, cost-effective services, and quality support.
  • To contact ARS please email OAAIS-ARS@ucsf.edu

MyResearch@UCSF

  • Provide UCSF research teams with a professionally managed, secure, web based, collaborative environment in which to store files containing sensitive data. Read more about secure data hosting.
  • Provide application and data base services that allow investigators to view, manipulate, and save their data entirely in this protected environment without requiring files to be stored on their own computers.
  • Learn more! View a MyResearch Demonstration.
  • For more information about MyResearch please contact Mary Hughes, 415-476-8077 or CTSIDMUSupport@ucsf.edu
  • MyResarch Request Form

The Health Records Data Service (THREDS)

  • THREDS is a service provided by CTSI that extracts longitudinal data from clinical databases on Community Health Network (CHN) patients for research purposes. Various data sources are used, primarily the LCR (Lifetime Clinical Record) and Invision. Data are available going back to 1996 to answer specific research questions.
  • Typical uses of THREDS data include:
    • Summary statistics
    • Generation of condition-specific patient populations for study recruitment/chart review
    • Outcomes research using historical data in CHN databases
  • For more information about THREDS please contact Mary Hughes, 415-476-8077 or CTSIDMUSupport@ucsf.edu
  • To request service, submit a consultation request

Integrated Data Repository (IDR)

  • A secure, convenient and compliant data warehouse of clinical and life sciences data for use by researchers. The objective of the IDR is to improve the quality of clinical and translational research at UCSF and CTSI affiliated institutions.
  • For more information about IDR please contact Mary Hughes, 415-476-8077 or CTSIDMUSupport@ucsf.edu
  • To request an IDR search, or for help with any IDR issues, do one of the following:

Data Management

  • For questions about how to design databases and workflow to support studies, and for assistance with actual programming of a variety of database.
  • Help with large national databases
  • Support and enhancement of Common Data Infrastructure (CDI) applications
  • Service provided via CTSI Consultation Request

OnCore - The Online Collaborative Research Environment

  • OnCore is the clinical research informatics system in use at UCSF. It contains proprietary information pertaining to clinical trials, biospecimen studies, and patient registries. All patient information contained in OnCore is strictly confidential.

RIO (Research Information Online)

  • RIO is a comprehensive database management system that will link and store your research protocols, authorized users, online training programs and pertinent data. The goal of RIO is to facilitate quick turnaround times on complex processes and provide data integrity.

Bioinformatics Data Analysis

  • Provides consultation and assistance with analysis for data deriving from genomics, proteomics, microarrays, sequence and other high throughput biotechnologies.
  • Service provided via CTSI Consultation Request

Research Electronic Data Capture (REDCap)

Qualtrics Survey Tool

  • Qualtrics allows faculty, researchers, staff and trainees to build, distribute, analyze and collaborate on complex surveys.

Research Software Licensing (RSL)

  • Research Software Licensing (formerly Data Management Services) offers annual licenses for research software to UCSF faculty and staff.
  • Contact: RSL Help, 415-476-4389

San Francisco Coordinating Center

  • The SF Coordinating Center specializes in coordinating multi-center studies in women's health, aging, cognitive function, cardiovascular disease, breast cancer prevention, osteoporosis, arthritis, and dementia. It uniquely combines scientific expertise in these areas with broad experience in managing multi-center studies, and offers access to our network of high quality, experienced clinical centers.
  • Contact: Chantelle Thomas

Comparative Effectiveness Large Dataset Analysis Core (CELDAC)

  • Data repository infrastructure for accelerated access to and use of local and national health datasets — View Dataset Inventory
  • Provides information on how to Work with Large Datasets
  • Provides guidance on Online Browsable Datasets
  • Supports studies assessing comparative effectiveness of clinical interventions
  • Consultation services provide expertise in statistics and use of large data sets to conduct comparative effectiveness and other T2 translational research
  • Contact: celdac@ucsf.edu

UCSF Policy on Income Distribution for Unpatented Software

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External Resources & Services

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UCSF Training Opportunities

The UCSF Graduate Program in Biomedical and Medical Informatics offers two pathways for PhD training:

  • The Bioinformatics pathway provides multidisciplinary graduate study in biological composition, structure, function and evolution at the molecular and systems levels. Bioinformatics relies on techniques from applied mathematics, informatics, statistics, computer science, physics, chemistry, and biology to study biological composition, structure, function, and evolution at the molecular, cellular, and systems levels. It comprises all aspects of the gathering, storing, analyzing, predicting, and disseminating the corresponding information.

    Director: Tom Ferrin, PhD
    Contact: Julia Molla, Bioinformatics Program Coordinator, 415-514 0249

  • The Clinical and Translational Informatics (CTI) Pathway provides graduate training in informatics for clinical research and care which emphasizes foundational training in core informatics theories and methods complemented by coursework and experiences in two major application domains:
    • Clinical and translational research
    • Quality and safety of evidence-based care

    Director: Russ Cucina, MD
    Associate Director: Yao Sun, MD, PhD
    Contact: Cheryl Fong, 415-476-1036

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External Training Opportunities

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Funding Opportunities

NIH Funding Opportunities

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Center for Clinical & Translational Informatics (CCTI)

The mission of the UCSF CCTI is to promote the understanding and use of informatics to accelerate clinical discovery and advance clinical care.

Center for Clinical and Translational Informatics
University of California, San Francisco
Laurel Heights Campus
3333 California, Suite 435Q
San Francisco, CA 94143-1211
Director: Ida Sim, MD, PhD

Sign up to receive CCTI's email newsletter. (Leave the subject line of the email blank.)

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Professional Informatics Organizations

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Accelerate is managed by the UCSF Clinical and Translational Science Institute (CTSI), part of the Clinical and Translational Science Award program funded by the National Center for Advancing Translational Sciences (Grant Number UL1 TR000004) at the National Institutes of Health (NIH).

Cite CTSI NIH Funding Acknowledgment: Important — All publications resulting from the utilization of CTSI resources are required to credit the CTSI grant by including the NIH Funding Acknowledgment and must comply with NIH Public Access Policy.