<?xml version="1.0" encoding="utf-8"?><!DOCTYPE article  PUBLIC '-//OASIS//DTD DocBook XML V4.4//EN'  'http://www.docbook.org/xml/4.4/docbookx.dtd'><article><articleinfo><title>DesigningStudies</title><revhistory><revision><revnumber>29</revnumber><date>2013-03-07 21:24:05</date><authorinitials>localhost</authorinitials><revremark>converted to 1.6 markup</revremark></revision><revision><revnumber>28</revnumber><date>2012-04-16 16:20:48</date><authorinitials>YaaraErez</authorinitials></revision><revision><revnumber>27</revnumber><date>2010-11-04 13:02:23</date><authorinitials>YaaraErez</authorinitials></revision><revision><revnumber>26</revnumber><date>2009-12-07 11:50:22</date><authorinitials>JohanCarlin</authorinitials></revision><revision><revnumber>25</revnumber><date>2009-10-22 08:46:39</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>24</revnumber><date>2009-10-22 08:46:28</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>23</revnumber><date>2009-10-22 08:44:10</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>22</revnumber><date>2009-10-20 11:21:29</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>21</revnumber><date>2009-10-16 16:32:19</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>20</revnumber><date>2009-10-16 14:54:16</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>19</revnumber><date>2009-10-16 14:37:00</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>18</revnumber><date>2009-10-16 14:36:32</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>17</revnumber><date>2009-10-16 14:36:24</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>16</revnumber><date>2009-10-16 14:36:08</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>15</revnumber><date>2009-10-16 14:35:25</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>14</revnumber><date>2009-10-16 14:34:17</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>13</revnumber><date>2009-10-16 14:33:55</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>12</revnumber><date>2009-10-16 14:33:28</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>11</revnumber><date>2009-10-16 13:36:23</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>10</revnumber><date>2009-10-16 13:13:45</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>9</revnumber><date>2009-10-16 12:43:15</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>8</revnumber><date>2009-10-16 12:42:12</date><authorinitials>RhodriCusack</authorinitials></revision><revision><revnumber>7</revnumber><date>2008-02-28 14:20:03</date><authorinitials>devel03.mrc-cbu.cam.ac.uk</authorinitials></revision><revision><revnumber>6</revnumber><date>2007-02-22 12:45:59</date><authorinitials>devel03.mrc-cbu.cam.ac.uk</authorinitials></revision><revision><revnumber>5</revnumber><date>2006-08-17 14:00:40</date><authorinitials>devel03.mrc-cbu.cam.ac.uk</authorinitials></revision><revision><revnumber>4</revnumber><date>2006-08-16 15:55:32</date><authorinitials>cmbg-cache-2.server.ntli.net</authorinitials></revision><revision><revnumber>3</revnumber><date>2006-07-04 15:53:03</date><authorinitials>cmbg-cache-2.server.ntli.net</authorinitials></revision><revision><revnumber>2</revnumber><date>2006-07-04 15:52:42</date><authorinitials>cmbg-cache-2.server.ntli.net</authorinitials></revision><revision><revnumber>1</revnumber><date>2006-07-04 15:48:12</date><authorinitials>cmbg-cache-2.server.ntli.net</authorinitials></revision></revhistory></articleinfo><section><title>Designing studies</title><para>There are many important issues that need to be considered when designing an fMRI experiment, at many different levels. </para><section><title>General principles</title><itemizedlist><listitem><para><ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/DesignBasics#">DesignBasics</ulink> - some ideas on asking the right kinds of scientific questions with fMRI </para></listitem><listitem><para><ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/DesignEfficiency#">DesignEfficiency</ulink> - considerations on how to construct an imaging experiment that has sufficient power </para></listitem><listitem><para><ulink url="http://wiki.mrc-cbu.cam.ac.uk/methods/stimdatabases#">List of Databases</ulink> for stimulus selection, evaluation, and other tools </para></listitem></itemizedlist></section><section><title>Choosing your MRI acquisition</title><para>You'll probably use our <ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/ImagingSequences#">default MRI sequences</ulink>. However, you might want to use another protocol (for example, to change the number of slices) but you must discuss it with the Radiographers. If you're doing anything exotic, you should also contact the Physicists (Marta, Stefan or Rhodri). </para><itemizedlist><listitem><para>Take a look at the first two talks in <ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/SpmMiniCourse2007#">CBU SPM mini course</ulink> for (1) an overview of MRI physics, and (2) an overview of the biophysics of fMRI </para></listitem><listitem><para><ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/UnderstandingFmri#">Learning about the physics of fMRI</ulink> </para></listitem></itemizedlist></section><section><title>Useful tips</title><itemizedlist><listitem><para><ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/TipsForDataAcquisition#">Tips for data acquisition</ulink> </para></listitem><listitem><para><ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/TipsForSuccessfulScanning#">Tips for successful scanning</ulink> </para></listitem><listitem><para>For stimulus delivery on the CBU scanner see the MRI facility wiki pages - <ulink url="http://wiki.mrc-cbu.cam.ac.uk/mri/CbuStimulusDelivery#">CbuStimulusDelivery</ulink> </para></listitem><listitem><para><ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/ScanProtocols#">ScanProtocols</ulink> - CBU defaut imaging protocols </para></listitem><listitem><para><ulink url="http://wiki.mrc-cbu.cam.ac.uk/methods/WritingStimulusDeliveryPrograms#">Writing stimulus delivery programs</ulink> </para></listitem><listitem><para><ulink url="http://wiki.mrc-cbu.cam.ac.uk/methods/ScannerSync#">Using scanner sync</ulink> to synchronise your stimulus delivery program with the scanner </para></listitem><listitem><para><ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/TransformingVisualAngleAndPixelSize#">Transforming stimulus size in pixels to/from visual angle in degrees</ulink>. Useful for matching stimulus size between behavioural testing and the scanner. </para></listitem></itemizedlist><para>Try the <ulink url="https://imaging.mrc-cbu.cam.ac.uk/imaging/DesigningStudies/imaging/StudentForum#">student forum for helpful tips</ulink> </para></section></section></article>