CTSC:ARRA supplement

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Harvard Catalyst Medical Imaging Informatics ARRA Administrative Supplement

Medical Imaging Informatics Bench to Bedside (mi2b2)


This Medical Imaging Informatics project was funded by an Administrative Supplement to Harvard Catalyst through the federal stimulus package aka ARRA. The project will enable clinical imaging data to be used, with appropriate human subject and institutional protections, for secondary research purposes. Please go to our main wiki page (http://www.mi2b2.org) for the most up-to-date information and to download the software.

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Mission Statement

To facilitate access to and use of the extensive collection of valuable medical images obtained during clinical care in a manner that does not negatively impact clinical care, enhances oversight of access and is in compliance with all local and national regulatory requirements. The target audiences for this project are clinical translational scientists (Radiologists and other physicians), basic scientists, and medical image analysis algorithm developers.

Key Personnel and Resources

Our hospitals are international leaders in the development and deployment of new and advanced biomedical imaging technologies (MRI, high speed CT, ultrasound, PET and others) for clinical practice. Furthermore, the current practice of excellent medical care includes extensive use of diagnostic and prognostic medical imaging using standardized image acquisition methods. The Picture Archive and Communication Systems (PACS) within each of the Departments of Radiology in our participating hospitals (Massachusetts General Hospital, Brigham and Women’s Hospital, Beth Israel Deaconess Medical Center, and Children’s Hospital Boston) contain a wealth of medical images that equal or exceed the quality of clinical research imaging data, and greatly exceed its volume in terms of the number of patients and disease types.

This project uses software that is free and open source from currently funded government projects. This software includes the i2b2 (Informatics for Integrating Biology & the Bedside), a National Center for Biomedical Computing suite of open source software tools that extract and integrate data from of the electronic medical records, laboratory data, billing information systems and genomic data. It also includes XNAT (http://xnat.org/) software that is supported by NIH through the National Center for Research Resources (NCRR) sponsored Biomedical Informatics Research Network (BIRN) initiative and NA-MIC.

Human Subject's Protection Training

All project personnel who access the medical imaging data for this effort must secure appropriate IRB approval. If you haven't already done it, take the CITI human subject's protection training course (https://www.citiprogram.org/) and then have your site i2b2 PI add you to their i2b2 IRB development protocol.

Mockup used for initial development

The mi2b2 installation at HMS hospitals requires careful attention to patient privacy and operational integrity of critical hospital information systems (e.g. clinical PACS). Therefore the software related to this project was developed and tested extensively before deployment in the clinical setting.

In order to develop the software in isolation, a virtualized mockup was set up that included a PACS system with phantom and anonymized DICOM data, an instance of i2b2 software, and a test installation of XNAT. The guidelines for this are being left intact on this web site for historical purposes and for the use by the community as they do their own development. But please see the main download site for mi2b2 for primary instructions for how to proceed.

mi2b2 software download site and installation instructions

The Medical Imaging Informatics Bench to Bedside web site (http://www.mi2b2.org) that hosts the download of the software, developer guidelines for installation and user tutorials are hosted on the i2b2 Community Wiki.

Upcoming Events

Weekly Meetings

Wednesdays on weeks without monthly meetings OCC 299, Shawn's Office (9:00- 10:00 AM)

Monthly Meetings

Tuesdays (10:30- 11:30 AM), call: number in email reminder

Past Events

2012 meetings

2011 meetings

January 2011 through May 2011 meeting minutes
June 2011 through December 2011 meeting minutes

2010 meetings

January 2010 through May 2010 t-con meeting minutes
June 2010 through December 2010 t-con and face to face meeting minutes

2009 meetings

2009 t-con meeting minutes

Meeting presentations

Using DCM4CHEE

Installation instructions for DCM4CHEE

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