1
|
Renardy M, Wessler T, Blemker S, Linderman J, Peirce S, Kirschner D. Data-Driven Model Validation Across Dimensions. Bull Math Biol 2019; 81:1853-1866. [PMID: 30830675 PMCID: PMC6494696 DOI: 10.1007/s11538-019-00590-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2018] [Accepted: 02/21/2019] [Indexed: 10/27/2022]
Abstract
Data-driven model validation across dimensions in mathematical and computational biology assumptions are often made (e.g., symmetry) to reduce the problem from three spatial dimensions (3D) to two (2D). However, some experimental datasets, such as cell counts obtained via flow cytometry, represent the entire 3D biological object. For purpose of model calibration and validation, it is sometimes necessary to compare these biological datasets with model outputs. We propose a methodology for scaling 2D model outputs to compare with 3D experimental datasets, and we discuss the application of this methodology to two examples: agent-based models of granuloma formation and skeletal muscle tissue. The accuracy of the method is evaluated in artificially generated scenarios.
Collapse
Affiliation(s)
- Marissa Renardy
- Department of Microbiology and Immunology, University of Michigan, Ann Arbor, MI, USA
| | - Timothy Wessler
- Department of Microbiology and Immunology, University of Michigan, Ann Arbor, MI, USA
- Department of Chemical Engineering, University of Michigan, Ann Arbor, MI, USA
| | - Silvia Blemker
- Department of Biomedical Engineering, University of Virginia, Charlottesville, VA, USA
| | - Jennifer Linderman
- Department of Chemical Engineering, University of Michigan, Ann Arbor, MI, USA
| | - Shayn Peirce
- Department of Biomedical Engineering, University of Virginia, Charlottesville, VA, USA
| | - Denise Kirschner
- Department of Microbiology and Immunology, University of Michigan, Ann Arbor, MI, USA.
| |
Collapse
|
2
|
Affiliation(s)
- Rachel Bour
- Dept of Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
| | | | | | - George Christ
- Dept of Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
- Dept of Orthopaedic SurgeryUniversity of VirginiaCharlottesvilleVA
| | - Shayn Peirce
- Dept of Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
- Dept of Plastic SurgeryUniversity of VirginiaCharlottesvilleVA
| |
Collapse
|
3
|
Russo M, Peirce S, Perfetto R, Capasso C, Rossi M, Marzocchella A, Salatino P. Immobilization of carbonic anhydrase for enhancement of CO2 reactive absorption. N Biotechnol 2018. [DOI: 10.1016/j.nbt.2018.05.092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
|
4
|
Patolia H, Rikard SM, Peirce S, Chappell JC. Agent‐Based Model of Pericyte Response to Platelet‐Derived Growth Factor‐BB from Sprouting Endothelial Cells in the Developing Mouse Retina. FASEB J 2018. [DOI: 10.1096/fasebj.2018.32.1_supplement.708.2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
| | | | - Shayn Peirce
- Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
| | - John C. Chappell
- Biomedical Engineering and MechanicsVirginia TechBlacksburgVA
- Virginia Tech Carilion Research InstituteRoanokeVA
| |
Collapse
|
5
|
Bruce A, Sun N, Zhuang M, Fraser C, Hu S, Peirce S. Tissue Oxygenation within Diabetic Wounds can be Monitored Using Difluoroboron β– Diketonate Polylactide Nanoparticles. FASEB J 2018. [DOI: 10.1096/fasebj.2018.32.1_supplement.577.2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Anthony Bruce
- Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
| | - Naidi Sun
- Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
| | - Meng Zhuang
- ChemistryUniversity of VirginiaCharlottesvilleVA
| | | | - Song Hu
- Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
| | - Shayn Peirce
- Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
| |
Collapse
|
6
|
Bruce A, Kelly‐Goss M, Meisner J, Price R, Peirce S. Monocytes/macrophages are recruited from post‐capillary venules during microvascular arteriogenesis (670.7). FASEB J 2014. [DOI: 10.1096/fasebj.28.1_supplement.670.7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Anthony Bruce
- Biomedical Engineering University of VirginiaCharlottesvilleVAUnited States
| | - Molly Kelly‐Goss
- Biomedical Engineering University of VirginiaCharlottesvilleVAUnited States
| | - Joshua Meisner
- Biomedical Engineering University of VirginiaCharlottesvilleVAUnited States
| | - Richard Price
- Biomedical Engineering University of VirginiaCharlottesvilleVAUnited States
| | - Shayn Peirce
- Biomedical Engineering University of VirginiaCharlottesvilleVAUnited States
| |
Collapse
|
7
|
Abstract
Objective To compare 2 different training paradigms, massed vs interval training, when novice students learn a surgical procedure, myringotomy with ventilation tube insertion, on a validated surgical simulator. Study Design Medical students were randomized into 2 training groups: the interval group (n = 19) was trained to perform the procedure in 5 trials/d over 3 days, and the massed group (n = 21) was trained to perform the procedure in 15 trials all in 1 session. One week later, all students were tested in 5 additional final trials. Pre- and posttest surveys were administered. Setting Academic medical center. Subjects and Methods Forty medical students: 19 students in the interval group were compared with 21 students in the massed group. Time to complete the procedure and number and type of error made were recorded and compared between groups. Pre- and poststudy surveys examined confidence levels working under a microscope and with the procedure. Results Students in both groups had a significant decrease in time between practice and final trials. In the final 5 trials, there was no difference in average time to complete the procedure between the massed and interval training groups. No difference was observed in the number of errors committed per trial between initial and final trials (both groups) or between massed and interval training groups. The students’ confidence levels significantly increased across the trials, regardless of group. Conclusion Surgical training improves proficiency, but method of training had little impact on proficiency in performing a simulated surgical procedure in this setting.
Collapse
Affiliation(s)
- Bradley W. Kesser
- Departments of Otolaryngology–Head & Neck Surgery, University of Virginia School of Medicine, Charlottesville, Virginia, USA
| | - Matthew Hallman
- Biomedical Engineering, University of Virginia School of Medicine, Charlottesville, Virginia, USA
| | - Loren Murphy
- Biomedical Engineering, University of Virginia School of Medicine, Charlottesville, Virginia, USA
| | - Maggie Tillar
- Biomedical Engineering, University of Virginia School of Medicine, Charlottesville, Virginia, USA
| | - Meg Keeley
- Pediatrics, University of Virginia School of Medicine, Charlottesville, Virginia, USA
| | - Shayn Peirce
- Biomedical Engineering, University of Virginia School of Medicine, Charlottesville, Virginia, USA
| |
Collapse
|
8
|
|
9
|
Bruce A, Peirce S. Effects of Exogenous Thrombin on Cell Recruitment and Collateral Arteriole Development in the Mouse Spinotrapezius. FASEB J 2011. [DOI: 10.1096/fasebj.25.1_supplement.lb440] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Anthony Bruce
- Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
| | - Shayn Peirce
- Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
| |
Collapse
|
10
|
Peirce S. Combining experiments with agent‐based modeling to study microvascular growth at the multi‐cell level. FASEB J 2009. [DOI: 10.1096/fasebj.23.1_supplement.304.1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Shayn Peirce
- Biomedical EngineeringUniversity of VirginiaCharlottesvilleVA
| |
Collapse
|
11
|
|
12
|
Peirce S. Introduction to Animal Technology. Aust Vet J 2002. [DOI: 10.1111/j.1751-0813.2002.tb14789.x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
13
|
|
14
|
Peirce S. The RN's obligation as a good samaritan. Colo Nurse (Denver) 1965; 65:15-6 passim. [PMID: 5174484] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
|