Cell-to-Macroscale Working Group - 2014 MSM

Working Group leads: Ching-Long Lin ching-long-lin@uiowa.edu and Edward Sander edward-sander@uiowa.edu

This WG aims to discuss and share numerical methods that facilitate integration of subcellular and cellular scale to macroscale in the human body, and identify associated multiscale modeling issues from the numerical standpoint.

Brief history:

This WG can be traced back to WG3 “Cardiovascular and Pulmonary – hemodynamics and fluid dynamics” (lead Rob Kunz) in 2006. In 2009 it was restructured by merging Working Group 3 Macro-To-Micro Scale Imaging and Transport in Biological Systems and Working Group 7 Multiscale Imaging (lead Yoonsuck Choe), but maintaining two WG links. At the 2010 MSM consortium meeting, the goals of WG3/7 were discussed and a white paper entitled "Cell Scale to Macroscale Integration" was presented (Media: White_Paper_MSM_Cell_Mechanics_2010_final.pdf‎‎ ). Four examples of multiscale model integration were discussed: airway defense system, cerebro-vasculature, gastrointestinal tract and tumor growth (please refer to the appendices of the white paper). One of the major goals discussed was about publication of special issues on multiscale modeling in archival journals to document numerical methods and strategies for integration of models at various scales through a peer review process. The WG was renamed as the Cell-to-Macroscale WG after the consortium meeting.


Goals and Objectives:

The previous goals of this WG are to:

  1. Publish special issues on multiscale modeling in high-quality, high-impact archival journals.
  2. Promote collaborations between WG members to build a more integrative model toward Physiome.



Last Name , First Name : Email

  1. Andasari , Vivi : vandasar@wakehealth.edu
  2. Anderson , Warren : warren.anderson@jefferson.edu
  3. Brown , David : dbrown@immunetrics.com
  4. Buehler , Markus J. : mbuehler@mit.edu
  5. Candia , Julián : candia@umd.edu
  6. Christini , David : dchristi@med.cornell.edu
  7. Conroy , Richard : richard.conroy@nih.gov
  8. Cook , Daniel : djcook@udel.edu
  9. DeCicco , Danielle : danielle.decicco@jefferson.edu
  10. Eckmann , David : eckmanndm@uphs.upenn.edu
  11. Einstein , Daniel : daniel.einstein@pnnl.gov
  12. Fourkal , Eugene : eugene.fourkal@fccc.edu
  13. Glazier , James : glazier@indiana.edu
  14. Gregurick , Susan : susan.gregurick@nih.gov
  15. Guo , Hongqiang : GuoH@HSS.EDU
  16. Gupta , Raj : rgupta@bhsai.org
  17. Hunt , C. Anthony : a.hunt@ucsf.edu
  18. Johnson , Thomas : tj92e@nih.gov
  19. Knothe Tate , Melissa : m.knothetate@unsw.edu.au
  20. Kuttippurathu , Lakshmi : Lakshmi.Kuttippurathu@jefferson.edu
  21. Kyle , Richard : simwizard@verizon.net
  22. Lazzi , Gianluca : lazzi@utah.edu
  23. Lin , Ching-Long : ching-long-lin@uiowa.edu
  24. Linderman , Jennifer : linderma@umich.edu
  25. Liu , Yuan : yl5o@nih.gov
  26. McQueen , Philip : mcqueenp@mail.nih.gov
  27. Neymotin , Sam : samn@neurosim.downstate.edu
  28. Peng , Grace : grace.peng@nih.gov
  29. Pidaparti , Ramana : rmpidaparti@vcu.edu
  30. Przekwas , Andrzej : ajp@cfdrc.com
  31. Quaranta , Vito : vito.quaranta@vanderbilt.edu
  32. Radhakrishnan , Ravi : rradhak@seas.upenn.edu
  33. Sander , Edward : edward-sander@uiowa.edu
  34. Shams , Hengameh : hengameh@berkeley.edu
  35. Stamatelos , Spyros : spyros@jhu.edu
  36. Swat , Maciek : mswat@indiana.edu
  37. Tartibi , Mehrzad : mtartibi@berkeley.edu
  38. Verma , Aalap : aalapverma@gmail.com
  39. Weis , Jared : jared.a.weis@vanderbilt.edu
  40. Wong , Joyce : jywong@bu.edu
  41. Zhang , Huiming : zhanghui@mail.nih.gov

MSM Meetings

2013 Meeting

Slides for WG breakout session

Current State of the Art:

Please refer to the special issue in the "Journal Articles" section at the bottom of this page. This special issue consists of 21 papers that cover at least one aspect of the following common themes with applications to one of the following six biological systems.


  1. Fluid–structure interaction
  2. Image-registration driven simulation
  3. Three-dimensional to one-dimensional model coupling and interface conditions
  4. Combined continuum-mesoscale-atomistic-level simulation
  5. Interface and boundary conditions: accuracy and dynamical importance
  6. Multiscale geometry representation and boundary conditions
  7. Integration of imaging data with modeling and computer simulation
  8. Direct versus indirect interactions between processes that operate at disparate scales
  9. Uncertainty in materials properties, boundary conditions, and geometry
  10. Sensitivity and uncertainty in multiscale and multi-physics integration
  11. Cell models

Biological systems:

  1. Cardiovascular systems
  2. Respiratory systems
  3. Cells/proteins
  4. Biochemical processes
  5. Bone mechanics
  6. Predicting surgery outcomes

Challenges and Opportunities:

Discussion topics:

  1. A) New themes and biological systems for model integration that you would like to discuss.
    1. A1) Bridging individual and population scales.
    2. A2)...(please enter new themes and biological systems here)
  2. B) Some goals and objectives of the WG seem to overlap with those of other WGs. We need to discuss the new WG title, goals and objectives, and the new (co-)leadership and WG plans for 2013-2014 if we decide to keep this WG.
    1. B1) Plan 1: Need two volunteers to give scientific presentations pertaining to this WG to IMAG. Please enter your name here if you are interested in giving a presentation.
    2. B2)...(please enter your suggestions here)
    3. B3)...
  3. C) The first step to promote collaborations between WG members (which is one of the WG goals) is to introduce yourself. Please describe briefly your research interests and/or MSM funded projects.
    1. C1) Ching-Long Lin: My research is to build a lung model for study of the interaction between pulmonary flow, lung tissue, and cell signaling, and for assessment and prediction of lung function through integration of statistical analysis of population data for improved patient phenotyping and hence patient-specific therapy. Please refer to the "Digital Lung" model index at New Index of Predictive Models.
    2. C2) Name: ...(brief description)...
    3. C3)...
  4. D)... (Please add new topics here.)





  • Tuesday, November 12, 2013 at 1:00pm EDT
Controlling the Mechanobiology of Cutaneous Wounds to Reduce Hypertrophic Scar
Dr. Edward Sander
Hypertrophic scarring is a major clinical problem characterized by excessive fibrosis that can result in disfigurement, distress, discomfort/pain, and permanent loss of function. In several treatment strategies reduced fibrosis and scarring appears connected to a reduction in force at the wound site. However, the underlying mechanisms that link mechanical environment to fibrosis remain unclear. In addition to the levels of tension at the wound site, multiscale mechanical interactions could also be important and ultimately deterministic of the fibrogenesis that controls scar phenotype in a healed surgical wound. These interactions develop from the interplay between the geometry, structure, and organization of the clot, the internal forces generated by the constituent cells (fibroblasts and macrophages), and external boundary constraints of the wound. In this webinar, Dr. Sander will discuss the development of a new model system for studying the mechanobiological basis of scar formation by combining experiments with multiscale mechanical computational models.
Archived Recording: https://www.youtube.com/watch?v=qljD_FGZdMg


  • Friday, July 13, 2012 at 1:00pm EDT
Multi-scale Image-based models for CFD simulations of pulmonary air flow
Dr. Youbing Yin
Computational fluid dynamics (CFD) has become an attractive tool in understanding the characteristic of air flow in the human lungs. Due to inter-subject variations, subject specific simulations are essential for understanding structure-function relationship, assessing lung function and improving drug delivery. However, currently the subject specific CFD analysis remains challenging due, in large part to, two issues: construction of realistic deforming airway geometry and imposition of physiological boundary conditions. This presentation will first describe a mass-preserving nonrigid registration algorithm for matching three-dimensional (3D) MDCT lung images. We further demonstrate the ability to develop realistic, subject-specific dynamic lung models by utilizing the proposed registration method in order to address these two issues above. The proposed lung model combines both the 3D and 1D airway trees, considers the regional ventilation from a local voxel to global sub-lung regions, and accounts for turbulent-transitional-laminar flows, thus accounting for the nature of the multiscale in pulmonary air flow. Additionally, we developed image processing pipelines to evaluate CT repeatability, link MDCT-MRI lung images, build micro-CT-based acinar models, and study lobar sliding and FEM-based lung mechanics.
Archived Recording: https://webmeeting.nih.gov/p69936260/


Journal Articles:

Volume 244, Pages 1-336 (1 July 2013)
Guest Editors: Ching-Long Lin, Grace C.Y. Peng, and George Karniadakis
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