On Wed, Nov 7, 2012 at 8:20 PM, Michael Bui <
[log in to unmask]> wrote:
> Dear McLaren,
>
> I have changed the high-pass to 240 but the result is the same.
> The data I used is from Buckner et al. "Functional Brain Imaging of Young,
> Nondemented, and Demented Older Adults" and I expect the visual and motor
> areas are active. In this paper does not mention in detail the time and
> block. If you have time, please check it for me.
>
> Thank you very much,
> Best regards,
> Michael Bui
>
> On Thu, Nov 8, 2012 at 1:30 AM, MCLAREN, Donald <
[log in to unmask]>
> wrote:
>>
>> Model and contrasts look fine; however, I'd change the high-pass to 240.
>>
>> The other things that I would look at are:
>> (1) Using an uncorrected threshold to look at a single subject. You
>> don't have that many blocks;
>> (2) Make sure the timing is correct.
>> (3) Find a ROI/voxel you expect to be active and see if you can see
>> the response following a block pattern.
>>
>> In your design, do you expect the neurons to be on for 21 seconds?
>>
>> Best Regards, Donald McLaren
>> =================
>> D.G. McLaren, Ph.D.
>> Research Fellow, Department of Neurology, Massachusetts General Hospital
>> and
>> Harvard Medical School
>> Postdoctoral Research Fellow, GRECC, Bedford VA
>> Website:
http://www.martinos.org/~mclaren
>> Office: (773) 406-2464
>> =====================
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>>
>> On Wed, Nov 7, 2012 at 1:16 PM, Michael Bui <
[log in to unmask]> wrote:
>> > Dear McLaren,
>> >
>> > Here I attached the pdf file contain the design matrix and contrast,
>> > please
>> > check it for me.
>> >
>> > Thank you very much,
>> > Best regards,
>> > Michael Bui
>> >
>> >
>> > On Thu, Nov 8, 2012 at 12:51 AM, MCLAREN, Donald
>> > <
[log in to unmask]>
>> > wrote:
>> >>
>> >> Can you send me the design matrix and contrast.
>> >>
>> >> Best Regards, Donald McLaren
>> >> =================
>> >> D.G. McLaren, Ph.D.
>> >> Research Fellow, Department of Neurology, Massachusetts General
>> >> Hospital
>> >> and
>> >> Harvard Medical School
>> >> Postdoctoral Research Fellow, GRECC, Bedford VA
>> >> Website:
http://www.martinos.org/~mclaren
>> >> Office: (773) 406-2464
>> >> =====================
>> >> This e-mail contains CONFIDENTIAL INFORMATION which may contain
>> >> PROTECTED
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>> >> intended only for the use of the individual or entity named above. If
>> >> the
>> >> reader of the e-mail is not the intended recipient or the employee or
>> >> agent
>> >> responsible for delivering it to the intended recipient, you are hereby
>> >> notified that you are in possession of confidential and privileged
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>> >> action in reliance on the contents of this information is strictly
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>> >> 406-2464 or email.
>> >>
>> >>
>> >> On Wed, Nov 7, 2012 at 12:49 PM, Michael Bui <
[log in to unmask]> wrote:
>> >> > Dear McLaren,
>> >> > Thank you for your suggestion, do you mean the duration is the length
>> >> > of
>> >> > stimulus (in this case every eight-image acquisition (21.44sec) the
>> >> > stimulus
>> >> > is changed). I have tried the duration to 21.44sec but they do not
>> >> > have
>> >> > response.
>> >> >
>> >> > Please help me to solve this problem,
>> >> > Best regards,
>> >> > Michael Bui
>> >> >
>> >> > On Thu, Nov 8, 2012 at 12:36 AM, MCLAREN, Donald
>> >> > <
[log in to unmask]>
>> >> > wrote:
>> >> >>
>> >> >> You need to specify a duration unless your using FIR, in which case
>> >> >> you need to specify the length of the window to look for the
>> >> >> response.
>> >> >> The default duration is 0, so it will look for very short blips in
>> >> >> your timecourse.
>> >> >>
>> >> >> Best Regards, Donald McLaren
>> >> >> =================
>> >> >> D.G. McLaren, Ph.D.
>> >> >> Research Fellow, Department of Neurology, Massachusetts General
>> >> >> Hospital
>> >> >> and
>> >> >> Harvard Medical School
>> >> >> Postdoctoral Research Fellow, GRECC, Bedford VA
>> >> >> Website:
http://www.martinos.org/~mclaren
>> >> >> Office: (773) 406-2464
>> >> >> =====================
>> >> >> This e-mail contains CONFIDENTIAL INFORMATION which may contain
>> >> >> PROTECTED
>> >> >> HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which
>> >> >> is
>> >> >> intended only for the use of the individual or entity named above.
>> >> >> If
>> >> >> the
>> >> >> reader of the e-mail is not the intended recipient or the employee
>> >> >> or
>> >> >> agent
>> >> >> responsible for delivering it to the intended recipient, you are
>> >> >> hereby
>> >> >> notified that you are in possession of confidential and privileged
>> >> >> information. Any unauthorized use, disclosure, copying or the taking
>> >> >> of
>> >> >> any
>> >> >> action in reliance on the contents of this information is strictly
>> >> >> prohibited and may be unlawful. If you have received this e-mail
>> >> >> unintentionally, please immediately notify the sender via telephone
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>> >> >>
>> >> >>
>> >> >> On Wed, Nov 7, 2012 at 12:33 PM, Michael Bui <
[log in to unmask]>
>> >> >> wrote:
>> >> >> > Dear SPM experts,
>> >> >> >
>> >> >> > Please help me to plot the activation map. I have 128 smoothed
>> >> >> > fMRI,
>> >> >> > 16
>> >> >> > slices/volume, TR = 2.68 and stimuli is:
>> >> >> > Time Onset
>> >> >> > 10 0
>> >> >> > 30 0
>> >> >> > 50 1
>> >> >> > 70 0
>> >> >> > 90 0
>> >> >> > 110 1
>> >> >> > 130 1
>> >> >> > 150 0
>> >> >> > 170 1
>> >> >> > 190 0
>> >> >> > 210 0
>> >> >> > 230 1
>> >> >> > 250 1
>> >> >> > 270 0
>> >> >> > 290 1
>> >> >> >
>> >> >> > I used "Specify 1st-level" and choose "Onsets" values as "50 110
>> >> >> > 170
>> >> >> > 230
>> >> >> > 250
>> >> >> > 290". Then I follow the prompt of SPM8, estimate and inference,
>> >> >> > accept
>> >> >> > the
>> >> >> > default p-value (0.05), FWE but the result has no activation in
>> >> >> > the
>> >> >> > brain.
>> >> >> > Could you please give me any suggestion to produce the activation
>> >> >> > map?
>> >> >> >
>> >> >> > Thank you very much for your help,
>> >> >> > With best wishes,
>> >> >> > Michael Bui
>> >> >
>> >> >
>> >
>> >
>
>