Perelman School of Medicine at the University of Pennsylvania

Center for Magnetic Resonance & Optical Imaging


Regulatory Agencies


All research involving human subjects require approval from the Institutional Review Board. Take the online exams as soon as possible.


All research that involves animals require approval from the Institutional Animal Care and Use Committee. Take the online exams and sign-up for any hands-on training sessions you require.


Following IRB or IACUC approval for your protocol, you’ll need Center for Advanced Magnetic resonance Imaging and Spectroscopy (CAMRIS) approval for all research on the clinical MRI scanners.  For the non-clinical smallbore scanners, all experiments need or Small Animal Imaging Facility (SAIF) approval.

CAMRIS & SAIF meet once every two weeks on a Tuesday to review all applications. At the end of that day, they will give you an account (either a PRODEV account for unfunded protocol development projects or another name if the project is funded) and time on the appropriate MRI scanner you requested on the application. TECHDEV accounts are also available but restricted to pulse sequence development and testing only.

Consenting Subjects


A “technical development” consent form is required to scan human subjects (not patients) for testing pulse sequences and developing imaging protocols.  This data cannot be used in any publication, abstract, talks etc. These are generic consent forms under Mitch Schnall’s name (for the clinical scanners) and Ravi’s name (for the 7T).


A “protocol development” consent form is required to scan human subjects (and patients) for a unfunded project.  This data can be used in any grant, publication, abstract, talks etc.  CAMRIS/SAIF approval for yet unfunded projects usually means that a prodev account has been created with 10-15hrs of free scan time. Use this wisely!


A funded project will have its own set of consent form(s) and a CAMRIS/SAIF account name with as much “magnet time” as the budget can buy!

Clinical MRI scanners

After CAMRIS approval and account creation, scheduling time on these scanners is possible via the CfN online calendar (you will need a Penn-key to access this).

Also contact the following:

  1. Norm Butler by email or phone: 215-349-5298 for user approval and safety training.
  2. Hee-Kwon Song by email or phone: 215-662-6265 for pulse sequence approval,if you created a new pulse sequence and wish to test it.
  3. Magaret Ryan by email or phone: 215-614-0630 for access to the online calendar or to be included in the HUP MRI mailing list.

This Siemens Tim Trio scanner is also located near HUP5 in the basement of Founders. Schedule for all times online.


This Siemens Tim Trio scanner is also located in the Devon MRI center, accessible from the basement of Stemmler Hall on Hamilton walk. Schedule for all times online.


This Siemens 7T scanner is also located at the CMROI, accessible from the basement of Stellar-Chance Labs on Curie Blvd. Special training is required to use this facility.  Please contact Mark Elliott by email to get approval and access to the 7T calendar.

Small-bore MRI scanners

After SAIF approval and account creation, scheduling time on these scanners is possible via the CfN online calendar. Please contact Steve Pickup by email or phone: (215) 349-5297 for training and account set-up.


This Varian horizontal-bore magnet is used for most animal imaging experiments and is located in the basement of the Founders building next to HUP5 and HUP6. You’ll need and access code to enter from Steve.


This Varian horizontal-bore animal scanner is located in the basement of John Morgan building. You’ll need a access permission from Steve.

Computing Center

There are a several PC and Mac desktop computers in the lab. If you have your own computer, please ask the appropriate personnel below for software and hardware requirements.


Some dual-boot (Linux & Windows XP) Dell PCs are for pulse sequence programming for the Siemens clinical scanners. The software for this is called IDEA and the latest version is installed . The computers may be used for non-pulse programming related work as well such as data processing. Please contact Hari Hariharan at the CMROI with any questions.


The dual-boot Dell PCs also have the Matlab software. For your own computer, licenses can be ordered via the Office of Software Licensing. To process images obtained from the Siemens scanners, two post-processing steps must be performed : (1) pre-processing and (2) image analysis.

(1) Pre-processing

Unsorted DICOM-type images obtained from the clinical MRI scanners must be sorted using IDL software prior to analysis. To obtain a copy of IDL for your PC, contact Ari Borthakur. Conversely, images may be downloaded directly to your PC laptop from the scanner itself and need not be sorted using IDL. For more information on how to obtain sorted DICOM images directly from the scanner, contact Hari Hariharan.

(2) Image Analysis

Sorted Siemens images are of type DICOM (.dcm). For mapping (T2ρ, T1ρ, T2, T1, etc.), a series of DICOM images may be processed using software in IDL. To obtain custom-written mapping programs in either language, contact Hari Hariharan.

Scheduling MRI exams on clinical scanners (Pennkey required for login):


Protocols under CAMRIS must have an RBN in effect prior to scheduling research participants. Please visit the Research Billing Initiative page.  Susan Colleluori is responsible for completing the financial account information (including expiration dates).

  1. If you are pending final approval for a RBN from CAMRIS, please double check the following:
    • You submitted a Prospective Reimbursement Analysis (PRA) to the Office of Human Research (OHR).
    • Check the Research Billing Application to ensure you clicked Radiology and the service center option. If you inadvertently forgot to check Radiology, contact the CAMRIS Manager.
  2. If RBN is already approved and you are experiencing issues with scheduling, please contact Susan to ensure the account was not closed. If the account was closed, Susan must complete a help desk ticket through the Research Billing Application in order for the account to be reactivated.
  3. If you are unsure of the issue, please contact the CAMRIS Manager for assistance.

Prior to scheduling subjects through Radiology scheduling, you must associate the patient with a research study and add a research guarantor (Principal Investigator from Radiology) to the patient. Instructions for completing these two steps can be found in the Epic APM user guide.

B. Contact Information:

CMROI MRI-related issues:
Hari Hariharan, PhD
Senior Research Investigator
CMROI, Department of Radiology
B1 Stellar-Chance Labs

CMROI administrative issues:
Susan Colleluori
Associate Director
CMROI, Department of Radiology
B1 Stellar-Chance Labs

CAMRIS administrative issues:
Shannon Long
CAMRIS Manager

SAIF administrative issues:
Marcia De Lucca
Research Application Administrative Coordinator
B100 John Morgan Building