Andy: Update from Wiki

2006-12-18T19:04:15Z

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'''GOALS'''

* To bring together local expertise and leverage BIRN-related efforts to develop a standard system of calibration procedures for use by the MGH-BWH testbed "mini-BIRN" collaborative working group (a multidisciplinary group of scientific, technical, and clinical investigators). In the initial phase of the study, we will concentrate on intra-site scanner upgrade calibration protocols such that both MGH and BWH collect data and analyze it using similar metrics. The next phase will be to further develop cross-site calibration protocols.

* '''Plans for fall 2005'''
** Acquisition of pre- and post-upgrade datasets at both MGH and BWH
*** Phantom: 2 sessions pre- & post-upgrade
*** Human: ~4 subjects w/ 2 sessions pre- & post-upgrade
*** For more details: [[MGH-BWH_Mini-BIRN_Standard_Upgrade_Protocol|MGH-BWH Mini-BIRN Standard Upgrade Protocol]]
** IRB: Goal is to obtain one IRB for all of this development work at both sites
** Next telecon Nov 2005

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== [[Minutes_from_9/12_MGH-BWH_mini-BIRN_telecon|Minutes from 9/12 MGH-BWH mini-BIRN telecon]] ==

MGH-BWH Calibration Team teleconference minutes 9/12/05

Attendees:

Nan-kuei Chen

Brad Dickerson

Randy Lyanne Gollub

Doug Greve

Jorge Jovicich

Ron Kikinis

Andrew Kiruluta

Steve Pieper

Reisa Sperling

Kelly Zho

Sandy Wells

Cindy Wible

Chris Wright

<br /> Minutes

* 1. Brad: Purpose of telecon & Introductions
** Goal: Establishment of standard intra-site calibration procedures
*** Can we use this opportunity (BWH & MGH upgrade) to standardize as much of the procedure as possible such that both sites collect comparable data and perform similar analyses?
* 2. Current daily calibration procedures
** Randy: What are the daily QA measures employed on clinical scanners at MGH?
** Andrew: standard nema daily calibration
*** Uniform phantom SNR (ROI inside phantom of interest is signal; outside is noise);

Geometric distortion (EPI, struct) (ACRadiol standard)

* ** Doug: this is similar to MGH CNY daily QA measures: cylindrical phantom 200 tps, draw roi at the center of phantom, measure peak to peak change divided by avg intensity inside of phantom (a la SNR measure)
** Doug: CNY has developed a method to analyze nyquist ghosting to see if there is a change over time: segment phantom from background & use mask (ghost roi)
** Steve: BWH research scanners use fbirn protocol
* 3. Brief overview of basic calibration plans at each site (intra-site)
** MGH (Jorge)--see notes below
*** Doug: We also want to examine baseline noise pre & post upgrade & try to separate noise components (different flip angles); field angle map & T2* & B0 map
*** Jorge: Plans are for 2 phantom sessions each pre & post upgrade
*** Jorge: Plans are for 4 subjects each 2 scans pre & post upgrade
** BWH (Nan-kuei)
*** 1.5t mainly clinical research; acr phantom standard
*** 3t haven’t used acr in past
*** Reisa: we need to consider mprage; also need to consider the fact that adni protocols will be used on 1.5t bwh, 3t bwh, 3t trio mgh
*** Ron/Brad: We would like to agree to use the same sequence for a given purpose, as long as there is not a compelling reason to do otherwise (i.e., try to avoid two different versions of MPRAGE so as not to have to compare intra-site inter-sequence)
*** Steve: We need to obtain GE mprage sequence for new platform
*** Reisa: This was created for adni on GE & it’ll be at bwh after upgrade
*** Reisa/Jorge/Brad/Chris: We should make sure to calibrate across coils (single vs 8 vs 12 channel)
*** Doug/Nan-kuei: would like to ensure that details of sequences are very similar on ge & siemens (k space trajectory; ghosting, etc)
*** Ron: Regardless of the fact that relatively heavier investments have been made in cross-site calibration, we should have a standard plan in place to characterize the systematic error within a scanner, including the effects of an upgrade.
** Human plans at bwh
*** Rescan subjects who have been scanned as part of fbirn phase 2 & mem fmri
** Jorge: How many subjects is enough for adequate calibration?
** Reisa: plan is for 20 for cross-site
** Jorge: probably depends on question of interest & inherent noise (~5 for upgrades – 20+ for cross-site)
* IRB issues
** Jorge: It would be ideal for all of us to estimate how many scans we are likely to perform per year so we can put irbs in place & allot technical resources.
** Randy/Brad: It would be ideal to have one IRB for both sites’ calibration efforts, but it would be essential to ensure detailed record-keeping, given that a number of co-investigators would likely use it.
* Randy: We need to continue to ask for Kelly & Sandy’s attention to statistical analysis approaches (e.g., from the simpler daily nema-type tests to the most detailed freesurfer-based morphometric or intensity-based comparisons (X Han’s & S Czanner’s methods @ CNY)

* Items to consider for next telecon agenda
** Discussion of other 'wish-list' items for intra-site calibration
*** Other sequences (DTI, ASL variants)
*** Resources for data analysis
** Goal: Team calibration resources
*** How can we coordinate resources to maintain an MGH-BWH calibration team?
**** Team membership: what other skills do we need?
**** Document management system
**** Resources for scanning, data archiving and analysis
***** Personnel
***** Computer

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<br />[[MGH-BWH_Mini-BIRN_Standard_Upgrade_Protocol|MGH-BWH Mini-BIRN Standard Upgrade Protocol]]

* Thanks to Jorge for detailed notes on calibration plans

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Mbirn: MGH-BWH mini-BIRN Collaboration - Revision history

Andy: Update from Wiki