Recurring Meeting of Cleveland Clinic Core Team

Date: January 5, 2016

Time: 10:30 AM EST

Means: In person meeting


  1. Ahmet Erdemir
  2. Craig Bennetts
  3. Snehal Chokhandre
  4. Benjamin Landis
  5. Robb Colbrunn
  6. Tara Bonner
  7. Jason Halloran (Cleveland State University)
  8. Will Zaylor (Cleveland State University)


  1. Discuss immediate action items from the last meeting.
  2. Discuss tissue testing protocol evaluation progress.
  3. Decide immediate action items for the next meeting.
  4. Other

Immediate Action Items:

Ongoing Action Items:



  1. Discuss immediate action items from the last meeting.
    • Ahmet disseminated oks009 joint mechanics data before leaving for vacation. He has not worked on segmentation and geometry generation specifications.
    • Craig provided detailed instructions in the segmentation specification including sample images. He segmented all the tissues except the medial collateral ligament. He was having difficulties to identify the boundaries of this ligament. Ahmet will take a look at this and will start reviewing image segmentation specifications.
    • Craig placed sample MR images for oks009 in the wiki.
    • Craig prepared a table to describe specimens for the data manuscript on MRI. He will add information about cartilage grading for each specimen once that becomes available.
    • Craig copied all DICOM files to a harddrive for Carl Winalski to grade. He will meet with Ahmet to copy the NIfTI files that are already available on his local computer. He will also contact Carl Winalski to drop off the harddrive.
    • Snehal continued working on Python script for analysis of tissue testing data. She worked with Craig on tissue testing protocol evaluation. See relevant agenda item below for more details.
    • Ahmet reminded that first draft of data manuscripts are due January 12, 2016.
      • Robb requested background information for the patellofemoral joint testing manuscript from Jason. Jason will provide this. Robb also processed patellofemoral joint mechanics data for six specimens. He has been using Excel to import .csv files and calculate contact mechanics metrics. He mentioned that he would like to see if Diana Suciu's Python scripts match his manual technique.
      • Tara has background and methods of the tibiofemoral joint testing manuscript half done. She will complete the draft next week.
      • Craig will complete the first draft of the magnetic resonance imaging manuscript and discuss corresponding references with Tara.
      • Ahmet emphasized that the authors should provide a figure list and detailed captions. Actual figures are not necessary at this moment. Yet, the captions should have enough information to understand the contents of the figure and its message.
  2. Discuss tissue testing protocol evaluation progress.
    • Snehal described the Python script for analysis of tissue testing data. The code allows calculation of rates during ramp loading, stress-strain, and modulus. It also allows identification of peak and relaxed forces. Needed updates to the analysis script were discussed:
      • For modulus calculation the function used to fit the data needs to pass through zero. A quick workaround can be to calculate the slope for three strain levels individually and average it to get average modulus.
      • Before calculation of stress-strain and modulus, zero force displacement should be identified to subtract from displacement data.
    • Snehal and Craig dissected a trial specimen. Per Snehal, the tissue integrity was not great, i.e. after punching ou the MCL, the sample was falling apart.
    • The group discussed determination of fluid and inertia forces. Ahmet advised to use the highest resolution force transducer at highest depth and testing speed (worst case scenario).
    • Snehal provided a report on the ways to determine load cell based on tissue and test type. The document also indicated minimum “find contact” force determination based on vibration forces with and without filtering. The team discussed the possibility to change the experiment protocol by first finding zero force reference state by "find contact" using filtered force data. Then, conduct stress relaxation test without filtering with a starting point where the tissue testing device is displaced to previously determined "find contact" position. Snehal will work on this and the repeatability of determining “find contact” displacement.
    • The group also discussed determination of tissue thickness or length using optical thickness measurement system. The current state of automated thickness determination can be cumbersome and not desirable depending on lightning, etc. Snehal needs a simple tool for quick thickness measurement before running tissue tests. She can do this manually on the image by picking up points. A simple script in Python needs to be written, i.e. using matplotlib and ginput, for this purpose.
  3. Decide immediate action items for the next meeting.
    • See Immediate Action Items above.
  4. Other.
    • Ahmet mentioned that he has been planning to get Omar work on the updated model for Open Knee(s) - Generation 1, which includes in situ strain features added by Steve Maas. In following, the spring definitions will be added based on guidance from Craig’s model and analysis.
    • Will showed a software tool for displaying ligament lengths during passive knee flexion.
    • The notification problem, i.e. in case of failure, for the freezer in BioRobotics Core has not been solved. Ahmet will follow up.

RecurringMeetings/2016-01-05 (last edited 2016-05-04 22:09:49 by localhost)