Recurring Meeting of the Advisory Board

Date(s): May 19-30, 2014

Due to scheduling conflicts, the group meeting with the Advisory Board members were scheduled on an individual basis with each member. Please refer to Meeting Minutes for more details.

TableOfContents

Progress Report

Project Specific Aims

• To provide an open, freely available, and collaborative development, testing, simulation and dissemination platform for in silico exploration of the biomechanics of healthy and diseased knees.
• To develop in silico biomechanical models of healthy and diseased knee joints of different genders and ages, supported by specimen-specific joint and tissue level experimental mechanics.

Project Infrastructure

• https://simtk.org/home/openknee (project website)

• http://wiki.simtk.org/openknee (project wiki)

Project Contact

• Ahmet Erdemir, PhD, erdemira@ccf.org, https://simtk.org/users/aerdemir

Advisory Board

• Clinical. Jack Andrish, MD; Carl Winalski, MD; Morgan Jones, MD, MPH; Paul Saluan, MD (Cleveland Clinic)

• Engineering. Yasin Dhaher, PhD (Northwestern University); Trent Guess, PhD (University of Missouri), Rami Korhonen, PhD (University of Eastern Finland)

Progress Period

• October 28, 2013 - May 19, 2014

Development Team during Progress Period

• Cleveland Clinic Core Team. Craig Bennetts, Dylan Beckler, Tara Bonner, Snehal Chokhandre, Robb Colbrunn, Ahmet Erdemir, Jason Halloran

• Stanford University. Scott Delp, Joy Ku, Henry Kwong

• University of Utah. Ben Ellis, Jeff Weiss, Steve Maas

• Community. Elvis Danso, Shannon Donnola, Chris Flask, Cara Sullivan

See https://simtk.org/project/xml/team.xml?group_id=485 for full details on the project team.

Goals of Progress Period

• Complete a prototype of web based computation infrastructure (Stanford University)
• Complete implementation of high priority features in simulation software (University of Utah)
• Complete experimentation (specifications and data collection) for Specimen 001 (Cleveland Clinic)
• Disseminate data from Specimen 001 (Cleveland Clinic)

• Start development and review of modeling specifications (Cleveland Clinic & Community)

• Start development and review of simulation specifications (Cleveland Clinic & Community)

• Launch community projects program (reviews, internships, and collaborations) (Cleveland Clinic & Community)

• Publish previous work on Open Knee - Generation 1 (Cleveland Clinic)

Please also refer to previous meeting minutes of the Advisory Board at ["RecurringMeetings/2013-10-28"]. For more details, see the ["Roadmap"] and the proposed timeline of the proposal in attachment:GrantInformation/proposal.pdf.

Activities of Progress Period

• Cloud computing prototype

  • Cleveland Clinic and Stanford University teams continued to have monthly conference calls to to discuss web based computation interface. Please refer to meeting minutes in Cleveland Clinic - Stanford University section of ["RecurringMeetings"].

  • Detailed specifications on a prototype for web-based computing infrastructure was provided by the Cleveland Clinic team, see [http://wiki.simtk.org/openknee/Specifications/CloudComputingPrototype?action=recall&rev=19 Revision as of May 18, 2013] or [:Specifications/CloudComputingPrototype: current version].

  • A prototype of a web-based interface for submission of simulations was developed on a staging server; this was summarized in the progress report submitted to National Institutes of Health along with a snapshot of the interface, see https://simtk.org/websvn/wsvn/openknee/doc/R01_rppr-y1-activities.pdf.

  • Upcoming steps include development of a results retrieval interface, model administration interface, and launching of cloud computing infrastructure.
• Simulation software features

  • Cleveland Clinic and University of Utah teams continued to have monthly conference calls to to discuss enhancements in FEBio, the simulation software used in Open Knee(s). Please refer to meeting minutes in Cleveland Clinic - University of Utah section of ["RecurringMeetings"].

  • The Cleveland Clinic team detailed the prioritization of desired features and provided various test problems, see [http://wiki.simtk.org/openknee/Specifications/FebioFeatures?action=recall&rev=38 Revision as of May 18, 2013] or [:Specifications/FebioFeatures: current version].

  • Feature to accommodate in situ ligament strains was implemented; this was summarized in the relevant wiki page, see [http://wiki.simtk.org/openknee/Febio/InSituStrain?action=recall&rev=14 Revision as of May 18, 2013] or [:Febio/InSituStrain: current version]. This activity was also summarized in the progress report submitted to National Institutes of Health along with some preliminary results, see https://simtk.org/websvn/wsvn/openknee/doc/R01_rppr-y1-activities.pdf. Relevant to this work, a conference abstract was submitted to CMBBE 2014, 12th International Symposium on Computer Methods in Biomechanics and Biomedical Engineering. Additional work will be conducted for general purpose use of this feature. It is anticipated that FEBio version 2.0 will incorporate this implementation.

  • Upcoming activities for simulation software enhancements include work on set definitions and rigid body movements.
• Experimentation
  • Experimentation on Specimen 001 had to be postponed to accommodate maintenance and upgrades to the robotics testing system. The anticipated timeline for data collection, dissemination, and related modeling efforts was pushed back by approximately three months.
  • Three knee specimens were acquired and identified as the first set of Open Knee(s) - Generation 2 specimens:

    • ["oks001"], see [http://wiki.simtk.org/openknee/oks001?action=recall&rev=2 Revision as of May 18, 2013],

    • ["oks002"], see [http://wiki.simtk.org/openknee/oks002?action=recall&rev=1 Revision as of May 18, 2013], and

    • ["oks003"], see [http://wiki.simtk.org/openknee/oks003?action=recall&rev=1 Revision as of May 18, 2013].

  • The experimentaion workflow was illustrated in the specifications wiki page; see experimentation workflow section in [http://wiki.simtk.org/openknee/Specifications?action=recall&rev=36 Revision as of May 18, 2013] or [:Specifications: current version].

  • A large group of experimentation specifications, detailed description of protocols, are in a mature state (completely documented or close finalization):

    • For target specimens, see [http://wiki.simtk.org/openknee/Specifications/Specimens?action=recall&rev=40 Revision as of May 18, 2013] or [:Specifications/Specimens: current version].

    • For detailed imaging protocols to quantify tibiofemoral and patellofemoral joint anatomy, see [http://wiki.simtk.org/openknee/Specifications/ExperimentationAnatomicalImaging?action=recall&rev=113 Revision as of May 18, 2013] or [:Specifications/ExperimentationAnatomicalImaging: current version]. Three specific protocols were decided upon to highlight different tissues. A specimen transportation device was built to accommodate neutral placement of the cadaver joints and to ease their transportation to the imaging facility. The team decided to conduct testing on the fully intact joint, with the surrounding tissues. This will help increase signal to noise ratio during imaging. The relevant specifications will be completed once the team receives detailed image acquisition parameters from the imaging facility.

    • For detailed joint testing protocols to quantify tibiofemoral and patellofemoral joint response, see [http://wiki.simtk.org/openknee/Specifications/ExperimentationJointMechanics?action=recall&rev=78 Revision as of May 18, 2013] or [:Specifications/ExperimentationJointMechanics: current version]. The team decided to conduct robotics testing on the fully intact joint, without removing surrounding tissues. A related specification, for joint pressure measurements, was also documented, see [http://wiki.simtk.org/openknee/Specifications/PressureCalibration?action=recall&rev=10 Revision as of May 18, 2013] or [:Specifications/PressureCalibration: current version].

    • For alignment of coordinate systems of imaging and joint testing systems, see [http://wiki.simtk.org/openknee/Specifications/Registration?action=recall&rev=38 Revision as of May 18, 2013] or [:Specifications/Registration: current version].

    • A data management approach was needed and devised by the team, particularly to accommodate large number of tissue samples, and for curation and dissemination heterogeneous data, see [http://wiki.simtk.org/openknee/Specifications/DataManagement?action=recall&rev=27 Revision as of May 18, 2013] or [:Specifications/DataManagement: current version].

  • The team has also worked on other experimentation steps to finalize the protocols and enable their achievement:

    • Specimen preparation was found to be a logistically challenging task given the intensity of experimentation that need to be conducted on a specimen. Various stages were agreed upon by the team and documented in the relevant wiki page, see [http://wiki.simtk.org/openknee/Specifications/SpecimenPreparation?action=recall&rev=90 Revision as of May 18, 2013] or [:Specifications/SpecimenPreparation: current version]. Remaining work on this specification (about joint level preparation) is merely editorial. Additional documentation is needed about tissue level preparation.

    • The Cleveland Clinic team purchased a materials testing machine dedicated for Open Knee(s) tissue testing needs, see section on characterization of tissue mechanical properties in ["Infrastructure/ExperimentationMechanics"]. Tissue testing on this setup has been performed; as pilot tests and as part of preliminary work on tissue material properties conducted with Elvis Danso & Rami Korhonen, which is relevant to Open Knee(s). Detailed tissue testing specifications needs attention, see [http://wiki.simtk.org/openknee/Specifications/ExperimentationTissueMechanics?action=recall&rev=11 Revision as of May 18, 2013] or [:Specifications/ExperimentationTissueMechanics: current version].

• Modeling & simulation

  • TBD
• Dissemination
  • TBD
• Community projects
  • TBD
• Publications
  • TBD
• Other

  • First year progress report was submitted to National Institutes of Health, see [https://simtk.org/websvn/wsvn/openknee/doc/R01_rppr-y1-activities.pdf activities], [https://simtk.org/websvn/wsvn/openknee/doc/R01_rppr-y1-products.pdf products], [https://simtk.org/websvn/wsvn/openknee/doc/R01_rppr-y1-resources.pdf resources]

  • The entry page for the wiki was organized for easy access to various areas of the wiki, see [http://wiki.simtk.org/openknee/FrontPage?action=recall&rev=31 Revision as of May 18, 2013] or [:FrontPage: current version]

Details of activities can be found in past meeting minutes of various teams at ["RecurringMeetings"]. For a complete list of various tasks (finished or in progress), please refer to https://simtk.org/pm/?group_id=485.

Plans for Next Progress Period (May 19, 2014 - November 2014)

• Enhance prototype of web based computation infrastructure (Stanford University)
• Implement additional features in simulation software (University of Utah)
• Complete experimentation for Specimen 001 (Cleveland Clinic)
• Complete experimentation for Specimen 002 (Cleveland Clinic)
• Launch model for Specimen 001 (Cleveland Clinic)

• Complete development and review of modeling specifications (Cleveland Clinic & Community)

• Complete development and review of simulations specifications (Cleveland Clinic & Community)

• Start plans for 2015 summer internship program as part of community projects (reviews, internships, and collaborations) (Cleveland Clinic & Community)

• Publish previous work on Open Knee - Generation 1 (Cleveland Clinic)

For more details, see the ["Roadmap"] and the proposed timeline of the proposal in attachment:GrantInformation/proposal.pdf.

Meeting Minutes

Date, Time, Means:

• May 19, 2014, 2:00 PM EST, conference call (AE,TBD)
• May 30, 2014, 8:00 AM EST, in person meeting (AE,TBD)

Attendees:

1. TBD

Agenda:

1. Progress update, see progress report at

   • http://wiki.simtk.org/openknee/RecurringMeetings/2013-05-19

2. Recap of previous meeting minutes, see meeting minutes at

   • http://wiki.simtk.org/openknee/RecurringMeetings/2013-10-28

3. Action items for following meeting
4. Other

Immediate Action Items:

See notes for details.

• All Advisory Board Members

  • TBD.

• Ahmet Erdemir

  • TBD

Notes:

1. TBD.
   • TBD