Informatics for Integrating Biology and the Bedside (i2b2)

Informatics for Integrating Biology and the Bedside (i2b2) helps clinical researchers use existing clinical data from Penn State Health for discovery research and, when combined with IRB-approved genomic data, facilitate the design of targeted therapies for individual patients with diseases having genetic origins.

It is widely used by the CTSA National Network and other academic health centers and industry, and is funded as a cooperative agreement with the National Institutes of Health. Learn more about i2b2 and the i2b2 Consortium here.

Obtaining an i2b2 Account

Penn State investigators wishing to use i2b2 must:

  • Complete an introductory training (see times below under “Training”)
  • Complete an IT Account Request Form with manager approval and sign a Data Use Agreement (email i2b2@pennstatehealth.psu.edu for these forms)

Log in to i2b2 (internal access only; login required)

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Learn More About i2b2

Open Office Hours Expand answer

Help with i2b2 is available virtually via Zoom through scheduled office hours. Appointments are not needed. Upcoming office hours are listed here; click on any event for details or to add it to your calendar.

Training Expand answer

Training is required to gain access to the i2b2 application.

Introductory Training

Introductory training sessions are 90 minutes long and are offered twice a month virtually through Zoom. The Zoom link is provided upon registration.

Topics covered include:

  • Intended use cases
  • Strengths and limitations
  • Demonstration of the application
  • How to obtain additional data

Upcoming introductory trainings are listed here. Click on any event for details, to register, or to add it to your calendar.

Other Resources

The i2b2 team maintains several other training resources, including:

  • i2b2 sample queries for tips, tools and inherent logic (available by emailing i2b2@pennstatehealth.psu.edu)
  • A guide to Standard Data Set (SDS) elements (available on this page under “Standard Data Set”)
  • A copy of the introductory training slide deck (available here)
Code Lookups Expand answer

i2b2 uses International Classification of Diseases (ICD) codes, Logical Observation Identifiers Names and Codes (LOINC), and Current Procedural Terminology (CPT) codes in its searches.

The following links provide lookup tables for these codes:

Data Refresh Schedule Expand answer

The i2b2 tentative data refresh schedule is listed here. Please note that the application will be unavailable during these dates from 3 a.m. to 5 p.m. unless otherwise noted. Please see the data dashboard and change log for the current state of the data.

Data Dashboard Expand answer

Data Dashboard

Coming Soon

  • Vitals (Height, Weight, BMI, Systolic and Diastolic BP, Temperature, Heart Rate)
  • Department Location
  • Smoking Assessments
  • ICD-o Code Set for Oncology
  • Pulmonary Function Test (PFT)
  • Problem Lists

Non-Discrete Data Not Available

  • Notes (e.g., admission H and P, discharge summaries, clinic notes)
  • Narrative Reports (e.g., radiology, surgical pathology, operative reports)
  • Images (e.g., digital X-rays, EKGs, scanned documents)
  • Microbiology Data (not yet recorded discretely in the EMR)
  • Family History and Medical History (unless coded for billing purposes)
  • Genomic Data
Standard Data Set Expand answer
Change Log Expand answer
Release Notes Expand answer
Support Expand answer

For technical help, or to report an issue with Clinical and Translational Science Institute applications including i2b2, call 717-531-6281 or email AskPSHealthIT@pennstatehealth.psu.edu.