The Philips Console and Software

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Procedure for rebooting the scanner

1.From the main screen, select 'System' and 'Exit'.


2.Click the 'Proceed' button to confirm exit of the application.

Exit confirm.jpg

3.The Philips application software will close and end up at the 'Ctrl+Alt+Delete' screen. Hold 'Ctrl+Alt' and press 'Delete' on the keyboard.
4.The system logon screen appears, click the 'Shutdown' button.
5.Select 'Shutdown and Restart' and click 'OK'.
6.The system will shut down, reboot, and end up back at the 'Ctrl+Alt+Delete' screen. Hold 'Ctrl+Alt' and press 'Delete' on the keyboard.
7.The system logon screen appears, type in the password: 'philips', all lower case, and hit 'Enter'.
8.The system will start the Philips application software and end up back at the main screen.

Main screen.jpg

Procedure for checking and freeing up disk space

Prior to starting a scan, it is helpful to check the amount of free disk space for optimal scanner performance. Above 90% full may affect scanner performance, optimal disk space should be kept below 80%.
1.From the main screen, select 'Patient' and 'Administration'.


2.The upper right hand corner will show the amount of free disk space. Optimal performance will occur if the disk space is kept below 80%.


3.If the disk is above 80%, select the oldest data by Exam Date and the click 'Delete'. A dialog box will appear, click 'Proceed'.

Database delete.jpg

4.The database screen will reapper, click 'Hide', to get back to the main screen.

Procedure for scanning a subject

Entering Subject Data
Selecting a Protocol in Scan Mode
Programming and Scanning a Protocol

Advanced viewing of acquired images

IViewBold for real-time fMRI

When scanning a fMRI pulse sequence, it is important to scrutinize the integrity of the data in real-time mode. This will ensure, or close to it, that your data is acceptable for post processing.

Initiate this procedure after starting an examination, but prior to the start of the first fMRI pulse sequence.

1.Begin by pressing the advanced viewer button.

Iviewbold sd1.gif

2. Open IViewBold by selecting IViewBold under the analysis menu.

IViewBold starting.jpg

Note: If this message appears, select the active IviewBold package and click 'Stop Selected'. Then repeat step 2.

Iviewbold active.jpg

3.Upon opening the IViewBold application, the application indicates that it is waiting for a new scan to start. (See message at the bottom of the screen.)

IViewBold waiting.jpg

4.Baseline images will appear as the application starts running. These images should be scrutinized for artifacts which may obscure BOLD signal, or otherwise affect image quality. i.e. Thumbprint artifact.

Note If image quality is questionable, the scan should be stopped and restarted. Stop scan by clicking 'Stop Scan' button in the lower left corner of the screen, or by typing the F12 key on the keyboard. Copy and paste the fMRI pulse sequence and restart the task. The IViewBold application is ready to go and does not need to be restarted.
An example of thumbprint artifact. If possible, stop the scan immediately, copy and paste the pulse sequence, and restart the task.
5.Open the time intensity curve by clicking the 'Time Intensity Curve' icon.

6.In the time intensity curve frame open the ROI (region of interest) drop down menu by clicking the arrow next to the 'ROI' icon.

Note select the elipse and draw an elipse on an image to initiate the time intenstiy curve.

7.The time intensity curve will show the mean signal and the peaks and the valleys represent the standard deviation of the mean. The size and location of the ROI is arbitrary.


8.If you see a large spike in the time intensity curve, especially near the beginning of a task, you may choose to restart the task.

Note Upon questioning, this subject stated that she sneezed.

Another example of motion artifact.


IViewBold for signal plotting and calculating standard deviation images

While IViewBold's primary purpose is for realtime fMRI and data analysis at the console, the software can also be "tricked" into displaying a map of voxelwise standard deviation values. In addition, it is possible with IViewBold to plot up to three ROIs in order to examine the signal timecourse in problematic areas.

To generate a standard deviation map and plot the timeseries:
1.Begin by pressing the advanced viewer button.

Iviewbold sd1.gif

2. Open IViewBold by selecting IViewBold under the analysis menu.

Iviewbold sd2.gif

3. Drag an epi series from the left hand list to the image viewer window.
4. In order to aid visualization, right click anywhere in the image viewer and change the layout to 1x1.

Iviewbold sd3.gif

5. Select a slice with good coverage.
6. Under the IViewBold menu click on Select Paradigm. I created an empty design matrix called SD select this and click ok.
7. Click the Show Time Intensity icon on the bottom right. A menu will show up, from here select ellipse from ROI type.

Iviewbold sd4.gif

8. Draw 3 circular ROIs (IViewBold only allows for 3 simultaneous ROIs) in any area of interest.
9. Click compute and wait for IViewBold to calculate Standard Deviation and timecourse values.

Iviewbold sd5.gif

10. Adjust the threshold and cluster size to your liking. Threshold is in units of S.D. From my experience with these images, values of 5-10 are standard across the brain. Anything above 10 is potentially due to motion artifact or scanner artifact. I generally choose between 15 and 25 when looking for artifacts.

Timecourse plots and standard deviation image generated in IViewBold. This image is demonstrating unstable signal in the lower right quadrant (image is neurological orientation). This SD map generated in IViewBold agrees with the SD map generated offline using the SnR scripts