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<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>Dear DTIStudio,<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p> </o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>Just want to double check with you about my procedure with one
DTI sequence and one MPRAGE:<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p> </o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>In DTIStudio:<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>1) MRI view3D: register MPRAGE image (voxel size 0.83X0.83X1.1mm)
to b0 image (0.83X0.83X2.2mm) using affine transformation.<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>2) DTI Mapping: register all DWIs to b0 using affine too. <o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>3) Fiber-tracking: draw ROI on co-registered MPRAGE images for fiber
tracking.<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p> </o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>in step 2: do you recommend choosing the option of "Adjusting
the gradients of the DWI images if applicable"???<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p> </o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>thanks for your help!<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p> </o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>Sincerely,<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>Aifeng<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p> </o:p></span></p>
<div style='border:none;border-top:solid #B5C4DF 1.0pt;padding:3.0pt 0in 0in 0in'>
<p class=MsoNormal><b><span style='font-size:10.0pt;font-family:"Tahoma","sans-serif"'>From:</span></b><span
style='font-size:10.0pt;font-family:"Tahoma","sans-serif"'> smoriw@gmail.com
[mailto:smoriw@gmail.com] <b>On Behalf Of </b>susumu mori<br>
<b>Sent:</b> Thursday, July 08, 2010 8:01 PM<br>
<b>To:</b> Zhang, Aifeng<br>
<b>Subject:</b> Re: [Mristudio-users] Eddy_current_correction<o:p></o:p></span></p>
</div>
<p class=MsoNormal><o:p> </o:p></p>
<p class=MsoNormal style='margin-bottom:12.0pt'>Yes. Usually all DWIs to b0.<o:p></o:p></p>
<div>
<p class=MsoNormal>On Thu, Jul 8, 2010 at 8:37 PM, Zhang, Aifeng <<a
href="mailto:azhang@psych.uic.edu">azhang@psych.uic.edu</a>> wrote:<o:p></o:p></p>
<div>
<div>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>Dr. Mori,</span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'> </span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>thanks for quick response. So I
will register 32 gradients to b0 for all my data.</span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'> </span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>I don't have error message
problem. (maybe it's someone else?)</span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'> </span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>thanks! </span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>Aifeng</span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'> </span><o:p></o:p></p>
<div style='border:none;border-top:solid windowtext 1.0pt;padding:3.0pt 0in 0in 0in;
border-color:-moz-use-text-color -moz-use-text-color'>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><b><span
style='font-size:10.0pt'>From:</span></b><span style='font-size:10.0pt'> <a
href="mailto:smoriw@gmail.com" target="_blank">smoriw@gmail.com</a> [mailto:<a
href="mailto:smoriw@gmail.com" target="_blank">smoriw@gmail.com</a>] <b>On
Behalf Of </b>susumu mori<br>
<b>Sent:</b> Thursday, July 08, 2010 7:30 PM<br>
<b>To:</b> Zhang, Aifeng<o:p></o:p></span></p>
<div>
<div>
<p class=MsoNormal><span style='font-size:10.0pt'><br>
<b>Subject:</b> Re: [Mristudio-users] Eddy_current_correction<o:p></o:p></span></p>
</div>
</div>
</div>
<div>
<div>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;margin-bottom:12.0pt'>Do you
still have the error message problem?<br>
Because coregistration smooths the data and SNR changes, it is a good idea to
apply it to all data.<o:p></o:p></p>
<div>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>On
Thu, Jul 8, 2010 at 8:08 PM, Zhang, Aifeng <<a
href="mailto:azhang@psych.uic.edu" target="_blank">azhang@psych.uic.edu</a>>
wrote:<o:p></o:p></p>
<div>
<div>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>Dear DTIStudio,</span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'> </span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>Is coregistration always recommended as
the first step, as I saw from articles from your lab? In our case, we only
acquired 1 DTI sequence with 32 directions (~4 mins, with SENSE 2.5).
thanks.</span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'> </span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>Sincerely,</span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>Aifeng</span><o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'> </span><o:p></o:p></p>
<div style='border:none;border-top:solid windowtext 1.0pt;padding:3.0pt 0in 0in 0in;
border-color:-moz-use-text-color'>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><b><span
style='font-size:10.0pt'>From:</span></b><span style='font-size:10.0pt'> <a
href="mailto:mristudio-users-bounces@mristudio.org" target="_blank">mristudio-users-bounces@mristudio.org</a>
[mailto:<a href="mailto:mristudio-users-bounces@mristudio.org" target="_blank">mristudio-users-bounces@mristudio.org</a>]
<b>On Behalf Of </b>susumu mori<br>
<b>Sent:</b> Wednesday, June 30, 2010 9:32 PM</span><o:p></o:p></p>
<div>
<div>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:10.0pt'><br>
<b>To:</b> DTI Studio, ROI Editor, DiffeoMap Questions/Support<br>
<b>Subject:</b> Re: [Mristudio-users] Eddy_current_correction</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<div>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;margin-bottom:12.0pt'>When
you load the REC file using "Mri3DView", make sure how many images
are in the file. For example, if you used Philips "High" table, you
have 1 b0 + 32 DWI + 1 extra image, total 34 images. The last one is an
isotropically-weighted image generated from the DWIs. Then make sure your
gradient table. Most likely, the number of images in your REC and the gradient
table are not matching.<br>
<br>
For example, you may have only 33 lines in the table. For the final image,
which you don't use, you can add an extra line with 33: 100, 100, 100. The
first "33" is the line number (34th table row), and "100, 100,
100" sends a message to DtiStudio "don't use this image".<o:p></o:p></p>
<div>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>On
Tue, Jun 29, 2010 at 6:19 AM, Seyede Ghazal Mohades <<a
href="mailto:Seyede.Ghazal.Mohades@vub.ac.be" target="_blank">Seyede.Ghazal.Mohades@vub.ac.be</a>>
wrote:<o:p></o:p></p>
<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>>Dear
all<br>
I have a completely basic question<br>
when I try to load Philips Rec images in DTI studio I can do it, however the
same set file (which is a DTI ss-EPI sequence )gives the following error
when I try to do DTI mapping :<br>
the file is Bigger (and sometimes it says smaller)than a DWI sequence!<br>
where is the problem?<br>
regards<br>
Ghazal<br>
>Thanks<br>
><br>
>-----Original Message-----<br>
>From: <a href="mailto:mristudio-users-bounces@mristudio.org" target="_blank">mristudio-users-bounces@mristudio.org</a>
on behalf of <a href="mailto:support@mristudio.org" target="_blank">support@mristudio.org</a><br>
>Sent: Mon 6/28/2010 12:24 PM<br>
>To: DTI Studio, ROI Editor, DiffeoMap Questions/Support<br>
>Subject: Re: [Mristudio-users] Eddy_current_correction<br>
><br>
>the 1st method would be fine: use the 1st B0 as a reference and register
all<br>
>others with it.<br>
><br>
>support<br>
><br>
><br>
><br>
>><br>
>> Hi All,<br>
>><br>
>> We have diffusion data set acquired with 5 trails/repetitions(in
single time<br>
>> point/cross sectional) for each and every subject. This means i have 5
b0(same<br>
>> value) and DW (12 directions) data while doing eddy current correction
can i<br>
>> choose for instance b0 from first trail and register all the DW and
other b0<br>
>> images to this or do eddy current correction separately for each and
every trail<br>
>> and finally register all of them together say for instance to the
first trail.<br>
>><br>
>> Thanks<br>
>><br>
>> venkat<br>
>><br>
>> ===================================<br>
>><br>
>> P Please consider the environment before printing this e-mail<br>
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>P Please consider the environment before printing this e-mail<br>
><br>
>Cleveland Clinic is ranked one of the top hospitals<br>
>in America by U.S.News & World Report (2009).<br>
>Visit us online at <a href="http://www.clevelandclinic.org" target="_blank">http://www.clevelandclinic.org</a>
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