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Declaration of Conflict of Interest or Relationship. Bryon Mueller I have no conflicts of interest to disclose with regard to the subject matter of this presentation. Research funded by NCRR, NIMH and NIDA. How To Do A Functional Multi-Center Neuroimaging Study.

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Declaration of conflict of interest or relationship

Declaration of Conflict of Interest or Relationship

Bryon Mueller

I have no conflicts of interest to disclose with regard to the subject matter of this presentation

Research funded by NCRR, NIMH and NIDA


How to do a functional multi center neuroimaging study

How To Do A Functional Multi-Center Neuroimaging Study

Bryon Mueller, Ph.D.Department of PsychiatryUniversity of Minnesota


Multi center fmri

Multi-Center fMRI


Why multi center fmri

Why Multi-Center fMRI?

  • Participants

    • More subjects

    • Collect the data more quickly

    • More varied demographics

    • Rare population subgroups


Multi center fmri challenges

Multi-Center fMRI Challenges

  • Lots of subjects (That’s good?)

  • Complex experiments

  • Lots of sites

  • Inter-site variability (not so good)


Outline

Outline

  • Study preparation phase

  • Study execution

  • Resources are available


Decide what data to collect

Decide What Data To Collect

  • fMRI task(s)

    • Stimulus presentation?

    • Response recording?

    • Physiological?

  • Field map?

  • Structural?

  • DTI/ASL/…

  • Response

  • Physiological

  • Clinical

  • Cognitive

Can the sites do the protocol?


Implement protocol at sites

Implement Protocol At Sites

Reduce sources of inter-site variability:

  • Scanner related factors

  • Non-scanner factors


Sources of inter site variability

Sources of Inter-Site Variability:

Potential scanner related factors

  • Hardware differences

  • Pulse sequence

  • Sequence parameters

  • Scanner malfunction

    Similar to other multi-center studies


Sources of inter site variability1

Sources of Inter-Site Variability:

Potential non-scanner factors:

  • Protocol prescription

  • Head positioning and restraint

  • Site protocol errors

  • Stimulus

  • Response devices

  • Subject training, attention, and habituation

  • Other “brain state” factors


Study standardization

Study Standardization

  • Establish scanner QA program


Establish a scanner qa program

Establish a Scanner QA Program


Study standardization1

Study Standardization

  • Establish scanner QA program

  • Create standardized protocol


Standardize mri acquisition

Standardize MRI Acquisition

  • Functional

  • Anatomical

  • B0

  • Coil type

Functional - TR, TE, Echo Spacing, Flip Angle, Voxel Size, Bandwidth, Number of Discards, Slice Select, Phase Encode Direction, Slice Prescription, …


Assume nothing

Assume Nothing

Vendors “defaults” can be different

  • Scanner/stimulus computer triggering

  • Image smoothing

  • Phase encode direction

  • T1 stabilization volumes

  • Slice select method


Slice select method

Spectral-Spatial

Slice Select

Fat Sat

Slice Select

Slice Select Method

Figure courtesy of Kun Lu and Tom Liu, UCSD


Reduce inter site variability

Reduce Inter-Site Variability

  • Establish scanner QA program

  • Create standardized protocol

    • Make sure study can run at all sites


Reduce inter site variability1

Reduce Inter-Site Variability

  • Establish scanner QA program

  • Create standardized protocol

    • Make sure study can run at all sites

    • Don’t forget the non-MR stuff


Reduce inter site variability2

Reduce Inter-Site Variability

  • Establish scanner QA program

  • Create standardized protocol

  • Provide clear instructions

    • Subject training standardization

    • Task instruction scripts

    • Check list

    • How to execute the study

    • Trouble shooting guidance


Reduce inter site variability3

Reduce Inter-Site Variability

  • Establish scanner QA program

  • Create standardized protocol

  • Provide clear instructions

  • Run test subjects at each site

    • Repeat as necessary

    • Formal site qualification process


Reduce inter site variability4

Reduce Inter-Site Variability

  • Establish scanner QA program

  • Create standardized protocol

  • Provide clear instructions

  • Run test subjects at each site

  • Scientist visit each site

    • Site certification


Reduce inter site variability5

Reduce Inter-Site Variability

  • Establish scanner QA program

  • Create standardized protocol

  • Provide clear instructions

  • Run test subjects at each site

  • Scientist visit each site

  • Traveling subject reproducibility study


Outline1

Outline

  • Study preparation phase

  • Study execution

    • Look at your data

  • Resources are available


Declaration of conflict of interest or relationship

What Can Go Wrong (Will)

  • Continue to collect scanner QA

    • Sometimes scanners are upgraded

    • Sometimes scanners break


Sometimes scanners break

Problem and repair

Upgrade

Sometimes Scanners Break


Declaration of conflict of interest or relationship

What Can Go Wrong (Will)

  • Scanner QA

    • Sometimes scanners are upgraded

    • Sometimes scanners break

  • Subject data

    • Imaging parameters


Declaration of conflict of interest or relationship

What Can Go Wrong (Will)

  • Scanner QA

    • Sometimes scanners are upgraded

    • Sometimes scanners break

  • Subject data

    • Imaging parameters

    • Subject data


Look at subject data

Site 1

Site 2

Look At Subject Data


Look at subject data1

Look At Subject Data


Declaration of conflict of interest or relationship

What Can Go Wrong (Will)

  • Scanner QA

    • Sometimes scanners break

    • Sometimes scanners are upgraded

  • Subject data

    • Imaging parameters

    • Subject data

    • Task triggering


Declaration of conflict of interest or relationship

What Can Go Wrong (Will)

  • Scanner QA

    • Sometimes scanners break

    • Sometimes scanners are upgraded

  • Subject data

    • Imaging parameters

    • Subject data

    • Task triggering

    • Response devices


Declaration of conflict of interest or relationship

What Can Go Wrong (Will)

  • Scanner QA

    • Sometimes scanners break

    • Sometimes scanners are upgraded

  • Subject data

    • Imaging parameters

    • Subject data

    • Task triggering

    • Response devices

    • Missing data


Outline2

Outline

  • Study preparation phase

  • Study execution

  • Resources are available

    • Make your life easier


Multi center fmri resources

Multi-Center fMRI Resources

Casey BJ et al. Neuroimage 1998

Ojemann et al. Hum Brain Mapp 1998

Vlieger EJ et al. AJNR 2003

Kim S et al. Comp Assist Interv. 2005

Cramer SC et al. Stroke 2005

Stocker T et al. Hum Brain Mapp 2005

Zou KH et al. Radiology 2005

Friedman L et al. JMRI 2006

Friedman L et al. Neuroimage 2006

Friedman L et al. Neuroimage 2006

Schneider F et al. Schizophr Res. 2007

Costafreda SG et al. JMRI 2007

Olsrud J et al. MRI 2008

Sutton BP et al. JMRI 2008

Bosnell R et al. Neuroimage 2008

Gedamu EL et al. JMRI 2008

Friedman et al. Hum Brain Mapp 2008

Suckling J et al. Hum Brain Mapp 2008

Wegner C et al. E J of Neurology 2008

Rocca MA et al. Hum Brain Mapp 2008

Potkin SG et al. Schizophr Bull. 2009

Brown GG et al. Schizophr Bull. 2009

Wible CG et al. Schizophr Bull. 2009

Ford JM et al. Schizophr Bull. 2009

Kim DI et al. Schizophr Bull. 2009

Potkin SG et al. Schizophr Bull. 2009

Rocca MA et al. Hum Brain Mapp. 2009

Mancini L et al. Neuroimage. 2009

Kim DI et al. Hum Brain Mapp. 2009

Costafreda SG Front Neuroinformatics 2009

Van Horn JD, Toga Aw CurrOpin Neurol. 2009

Arolt V, et al. Psychother Psych Med 2009

Gountouna VE et al. Neuroimage. 2010

Biswal BB, et al. Proc NatlAcadSci USA 2010

Kim S et sl. IEEE Trans Med Imaging 2010

Mattson SN, et al. Alcohol 2010

Yendiki A et al. Neuroimage 2010


Declaration of conflict of interest or relationship

XNAT

http://www.xnat.org/


Declaration of conflict of interest or relationship

LONI

http://www.loni.ucla.edu/Software/


Fbirn

FBIRN

Function Biomedical Informatics Research Network

  • NCRR funded

  • Began in 2002

  • 13 institutions

  • 60+ collaborators

  • Develop and share recommendations and tools for multi-center fMRI

www.birncommunity.org


Fbirn best practices and tools

FBIRN Best Practices and Tools

  • Multi-center fMRI how to FAQ:

    https://xwiki.nbirn.org:8443/xwiki/bin/view/

    Function-BIRN/FBIRN_Best_Practices

  • Calibration

  • Cognitive issues

  • Data management

  • Data analysis and interpretation


Best practice recommendations

Best Practice Recommendations

Preparation phase:

  • Establish scanner QA program

  • Standardize fMRI study

  • Provide clear instructions to sites

  • Run test subjects

  • Have scientist visit the sites

  • Traveling subject study


Best practice recommendations1

Best Practice Recommendations

While site is collecting data:

  • Continue to perform scanner QA

  • Analyze data as it comes in

  • Check for missing data

  • Beware problems with behavioral data

  • Use a balanced design


Acknowledgements

Acknowledgements

U24RR021992-02

P30NS057091-01, P41RR008079

2R01MH060662-05A1,1P20DA024196-01


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