Ahmet Erdemir Lab | Lerner Research Institute

Principal Investigator

Ahmet Erdemir, PhD

Associate Staff
Director at Computational Biomodeling (CoBi) Core
Email: [email protected]
Location: Cleveland Clinic Main Campus

Research

The aging process and debilitating diseases such as osteoarthritis can affect the functioning of the human body - from the way we move to how our muscles, joints, tissues, and cells perform during daily activities. Our research program develops state-of-the-art computer recreations of the human body to understand how movement patterns and loads on the joints can deform tissues and cells. Through modeling and simulation, we test strategies to treat dysfunction that may occur in the musculoskeletal system.

Biography

Dr. Erdemir trained as a mechanical engineer at the Middle East Technical University in Ankara, Turkey. He performed graduate work in Biomechanics in the Department of Mechanical Engineering, Middle East Technical University and the Department of Kinesiology, Pennsylvania State University. His doctoral work focused on the load transfer mechanisms of the foot - combining in vivo, in vitro and in silico approaches to understand the mechanical function of the foot’s complex architecture.

In 2016, Dr. Erdemir became Assistant Staff in Biomedical Engineering. His current research program responds to the challenges in theoretical, applied and cultural aspects of modeling and simulation. Dr. Erdemir’s interests include simulation-based medicine, computational biomechanics, modeling and simulation of biological phenomena in the musculoskeletal system. His activities are diverse to deliver authentic virtual biomechanical representations of organs and joints, to enable multiscale modeling and simulation in biomechanics, to promote open science for in silico biomechanics, to increase credibility in computational medicine through technical work, perspectives and community activities and to facilitate virtual prototyping of interventions.

Dr. Erdemir is the author or co-author of more than 60 articles in peer-reviewed publications. He has been invited to speak at over 60 presentations in intramural departments, and in nationwide and international academic and clinical institutes. His work has been supported by more than $10 million in federal awards.

In 2007, he founded the Computational Biomodeling Core, meeting the translational needs of clinical, industrial and research communities in biomedical modeling and simulation. He has been an active member of the Multiscale Modeling Consortium since 2007.

Dr. Erdemir serves as Cleveland Clinic’s Chief Scientist, Digital Technologies & Artificial Intelligence Lead for the Discovery Accelerator.

Education & Professional Highlights

Appointed
2002

Education & Fellowships

Medical Education - Pennsylvania State University
University Park, PA USA
2002

Graduate School - Middle East Technical University
Ankara
1998

Undergraduate - Middle East Technical University
Ankara
1995

Research

Overview

My primary scientific and clinical contributions are in simulation-based medicine, primarily in biomechanics, which explores motion and deformation of biological structures as they interact with the environment. My technical niche has been in physics-based computational modeling and simulation.

With the increasing prominence of computational medicine worldwide, we have identified three strategic impact areas to leverage computational modeling as a routine, reliable and efficient tool for healthcare delivery and biomedical science:

1) Our current activities aim for the development of anatomically and physiologically realistic databases of virtual specimens and subjects to support high-fidelity in silico experiments.

2) We have been developing simulation-integrated innovations and technologies to operate within the time constraints of clinical practice, and to extract individualized and actionable knowledge from limited data. Current applications extend beyond the musculoskeletal system and include cardiovascular and neurological systems.

3) Toward a goal of developing “good practices” to enhance credibility, reproducibility, and reusability in modeling and simulation. I have led many community initiatives to establish guidance on reporting of simulation studies, to unify perceptions about the required components of credible practice, and to promote model sharing. Most recently, I mobilized national and international modeling teams to tackle the challenge of reproducibility in modeling and simulation using knee biomechanics as an example platform.

Multiscale Simulations of Tissue and Cell deformations

Cells of the musculoskeletal system are known to have a biological response to deformation. Deformations, when abnormal in magnitude, duration, and/or frequency content, can lead to cell damage and possible disruption in homeostasis of the extracellular matrix. These mechanisms can be studied in an isolated fashion but connecting mechanical cellular response to organ level mechanics and human movement requires a multiscale approach. At the organ level, physicians perform surgical procedures, investigators try to understand risk of injury, and clinicians prescribe preventive and therapeutic interventions. Many of these operations are aimed at management and prevention of cell damage, and to associate joint level mechanical markers of failure to cell level failure mechanisms. Through human movement, one explores neuromuscular control mechanisms and the influence of physical activity on musculoskeletal tissue properties. At a lower level, mechanical sensation of cell deformations regulate movement control. Physical rehabilitation and exercise regimens are prescribed to promote tissue healing and/or strengthening through cellular regeneration. The knowledge of the mechanical pathway, through which the body level loads are distributed between organs, then within the tissues and further along the extracellular matrix and the cells, is critical for the success of various interventions. However, this information is not established. The goal of this research program is to portray that prediction of cell deformations from loads acting on the human body, therefore a clear depiction of the mechanical pathway, is possible, if a multiscale simulation approach is used. To realize this goal, multiresolution models of the knee joint, representative of joint, tissue and cell structure and mechanics are under development. The knee endures high rates of traumatic injury to its soft tissue structures and it is predominantly affected by osteoarthritis, chronically induced by abnormalities in mechanical loading or how it is transferred to the cartilage. Through multiscale mechanical coupling of these models, a map of cellular deformation in cartilage, ligaments and menisci under a variety of tibiofemoral joint loads can be obtained. In future, this platform has to potential to establish the relationship between the structural and loading state of the knee and chondrocyte stresses to explore potential mechanisms of cartilage degeneration. For more details, please refer to https://simtk.org/home/j2c.

Multiscale simulations to predict cell deformations from joint loads can be conducted through concurrent analysis, during which the microstructural response is coupled to macroscopic mechanical behavior on-the-fly.

Micromechanical models of the cells and extracellular matrix, incorporating the geometry and spatial distribution of cells and the mechanical properties of the microstructural components can predict cell deformations.

Multidomain Coupling of Musculoskeletal Movements and Tissue Deformations

In computational biomechanics, there are two well-developed but separate modeling domains: multibody dynamics for body movements, and finite element modeling for tissue deformations. Many clinical problems, however, span both domains. Whole body anatomy, mass distribution, and gait pattern are not typically represented in finite element models, yet these are important real-world factors that affect tissue stresses in the musculoskeletal system, which may contribute to clinical problems such as osteoarthritis and diabetic foot ulceration. Movement simulations, on the other hand, lack a representation of tissue deformations, which are indicators of mechanically induced pain and other sensory feedback (or the lack thereof) and will cause observable changes in gait. Exploration of these neuromusculoskeletal integrative mechanisms can only be accomplished by multidomain simulations. Current techniques for multidomain modeling are insufficient because forward dynamic movement simulations typically proceed along a sequence of many small steps in time. Finite element models are too slow to allow a solution at each of these steps. One may painstakingly produce a single movement simulation, but not the thousands of simulations that are required for predictive movement optimizations that are the state of the art in musculoskeletal dynamics. This has become a bottleneck for our own research, as well as for others. To resolve this issue, we have implemented a generic, self-refining, surrogate modeling scheme, which reproduces an underlying physics-based finite element model within a given error tolerance, but at a far lower computational cost. The self-refining feature is the key to reproduce the multi-dimensional input-output space of a typical finite element model of a joint or joint complex. We recently demonstrated the utility of these tools by connecting a finite element model of the foot to a complete musculoskeletal gait simulation, which tested the hypothesis that internal foot strains can be lowered by selecting a specific optimal muscle coordination pattern during gait. For more details please refer to https://simtk.org/home/multidomain.

Modeling approaches in biomechanics commonly utilize two distinctive domains: musculoskeletal movement simulations and finite element analysis. Concurrent coupling can help the exploration of biomechanical function relying on feedback mechanisms across these domains.

Multidomain simulations, coupling musculoskeletal movements with tissue deformations is possible, i.e. foot stresses can be calculated simultaneously during solving for maximal height jumping using a lower extremity musculoskeletal model.

Biomechanics of Synovial Joints

Computational models of the synovial joint, in particular of the knee, are important tools to explore joint and tissue function, to understand injury mechanisms, to study pathological joint mechanics and to evaluate surgical performance. Our aim is to develop a knee joint model to describe and predict the passive kinematics/kinetics of the knee, and to provide an initial platform to investigate more detailed mechanics of joint substructures following modifications to address specific research questions. The development and related dissemination is conducted in an open fashion to promote reusability and crowd-sourcing of model improvement. Our short term goal is to provide an accessible model to the research community, supported by joint level mechanical testing. In the long term, we are interested in expanding our modeling and experimental investigations to explore biomechanical function of the capsule and the synovial fluid for joint stabilization and cartilage loading. While our current focus is on the knee, similar procedures can be applied for other synovial joints. For more details, please refer to https://simtk.org/home/openknee.

Simulation of passive knee flexion using a finite element representation of the tibiofemoral joint; von Mises stress distribution within the menisci can be observed on the left.

Musculoskeletal Biomechanics in Aging and Osteoarthritis

Cartilage endures continuous mechanical loading during activities of daily living. Its degeneration is a major cause of loss of quality of life as seen in aging populations and in osteoarthritis. Cartilage stresses are mechanical markers of its healthy biological response and establish the failure risk for this tissue structure. Aging changes neuromuscular control strategies, musculoskeletal properties, and anatomical reconstruction of the tissues. As a result, the loads at the knee joint and their distribution to joint's tissue structures are different. The cartilage's and chondrocytes' mechanical environment therefore changes, which may initiate age related tissue degeneration. Such damage can be caused by increased mechanical stress or counter-intuitively, it may be associated with decreased loading, which may influence the signal transduction that is responsible from tissue maintenance. Unfortunately, how age related adaptations alter the actual stress levels in the cartilage and the cells within is not known. Some of these, when investigated in an isolated fashion, may provide an intuitive understanding of how cartilage loading may change by age. Nonetheless, their combined and potentially offsetting effects in real life conditions were not quantified. This information has significant value as age related markers of early cartilage degeneration can be established. Our long term goal is to provide the capacity to identify subject-specific cartilage and chondrocyte loading during daily activities. For this purpose, a multiscale computer modeling and simulation platform, driven by subject-specific data, is planned as a potential clinical tool. Predictive nature of this platform will also facilitate design of management strategies for subject populations at risk of cartilage degeneration and chondrocyte damage.

Comprehensive data collection schemes supported by subject-specific musculoskeletal model of the lower extremity and finite element representation of the knee joint are likely to quantify the influence of neuromuscular, musculoskeletal and movement related changes on cartilage stress in aging and osteoarthritic populations.

Aging effects the biomechanical function of the knee joint and cartilage over the full spatial spectrum. Multiscale simulations can identify the individual influence of age related mechanical changes on chondrocyte and extracellular deformations.

Simulation-Based Medicine

Our translational research program to support simulation based medicine is conducted through the operations of Computational Biomodeling (CoBi) Core.

Funding

Predicting Cell Deformation from Body Level Mechanical Loads

R01EB009643 (PI: Erdemir) - 08/01/2009 - 07/31/2013
National Institute of Biomedical Imaging and Bioengineering
National Institutes of Health

Efficient Methods for Multi-Domain Biomechanical Simulations

R01EB006735 (PI: van den Bogert; Co-I: Erdemir) - 09/11/2006 - 08/31/2009
National Institute of Biomedical Imaging and Bioengineering
National Institutes of Health

Faculty Start-up Funds

06/01/2010 – 05/31/2013
Department of Biomedical Engineering Lerner Research Institute

Links

For data/software/models/reprints relevant to our research program, please check project-specific websites:

For information on our activities in the multiscale modeling community, please check:

Our Team

Publications

Selected Publications

View publications for Ahmet Erdemir, PhD
(Disclaimer: This search is powered by PubMed, a service of the U.S. National Library of Medicine. PubMed is a third-party website with no affiliation with Cleveland Clinic.)

Nagle TF, Erdemir A, Colbrunn RW. A generalized framework for determination of functional musculoskeletal joint coordinate systems. J Biomech. 2021 Aug 3;127:110664. doi: 10.1016/j.jbiomech.2021.110664. Epub ahead of print. PMID: 34399244.

Nynke B Rooks, Marco T Y Schneider, Ahmet Erdemir, Jason P Halloran, Peter J Laz, Kevin B Shelburne, Donald Hume, Carl Imhauser, William Zaylor, Shady Elmasry, Ariel Schwartz, Snehal Chokhandre, Neda Abdollahi Nohouji, Thor F Besier. A Method to Compare Heterogeneous Types of Bone and Cartilage Meshes. J Biomech Eng. 2021 May 27. doi: 10.1115/1.4051281. Online ahead of print.

Mantripragada VP, Piuzzi NS, Muschler GF, Erdemir A, Midura RJ. A comprehensive dataset of histopathology images, grades and patient demographics for human Osteoarthritis Cartilage. Data Brief. 2021 May 14;37:107129. doi: 10.1016/j.dib.2021.107129. PMID: 34113698; PMCID: PMC8170068.

Noble C, Carlson KD, Neumann E, Doherty S, Dragomir-Daescu D, Lerman A, Erdemir A, Young M. Evaluation of the role of peripheral artery plaque geometry and composition on stent performance. J Mech Behav Biomed Mater. 2021 Apr;116:104346. doi: 10.1016/j.jmbbm.2021.104346. Epub 2021 Jan 25. PMID: 33529996

Chokhandre S, Neumann EE, Nagle TF, Colbrunn RW, Flask CA, Colak C, Halloran J, Erdemir A. Specimen specific imaging and joint mechanical testing data for next generation virtual knees. Data Brief. 2021 Jan 30;35:106824. doi: 10.1016/j.dib.2021.106824. eCollection 2021 Apr. PMID: 33659588 Free PMC article.

Rooks NB, Schneider MTY, Erdemir A, Halloran JP, Laz PJ, Shelburne KB, Hume D, Imhauser C, Zaylor W, Elmasry S, Schwartz A, Chokhandre S, Abdollahi Nohouji N, Besier TF. Deciphering the "Art" in Modeling and Simulation of the Knee Joint: Variations in Model Development. J Biomech Eng. 2021 Feb 4. doi: 10.1115/1.4050028. Online ahead of print. PMID: 33537727

Karamık K, İslamoğlu E, Erdemir AG, Erol İ, Yıldız A, Anıl H, Savaş M, Ateş M. The associations of RENAL, PADUA and C-index nephrometry scores with perioperative outcomes and postoperative renal function in minimally invasive partial nephrectomy. Turk J Urol. 2021 Jan;47(1):14-21. doi: 10.5152/tud.2020.20247. Epub 2020 Oct 9. PMID: 33052830; PMCID: PMC7815239.

Chokhandre S, Erdemir A. A comprehensive testing protocol for macro-scale mechanical characterization of knee articular cartilage with documented experimental repeatability. J Mech Behav Biomed Mater. 2020 Dec;112:104025. doi: 10.1016/j.jmbbm.2020.104025. Epub 2020 Aug 8. PMID: 32841833 Free article.

Jun BJ, Sahoo S, Imrey PB, Baker AR, Erdemir A, Jin Y, Iannotti JP, Entezari V, Ricchetti ET, Bey MJ, Derwin KA. Variability of glenohumeral positioning and bone-to-tendon marker length measurements in repaired rotator cuffs from longitudinal computed tomographic imaging. JSES Int. 2020 Sep 12;4(4):838-847. doi: 10.1016/j.jseint.2020.08.001. eCollection 2020 Dec. PMID: 33345224 Free PMC article.

Erdemir A, Mulugeta L, Ku JP, Drach A, Horner M, Morrison TM, Peng GCY, Vadigepalli R, Lytton WW, Myers JG Jr. Credible practice of modeling and simulation in healthcare: ten rules from a multidisciplinary perspective. J Transl Med. 2020 Sep 29;18(1):369. doi: 10.1186/s12967-020-02540-4. PMID: 32993675 Free PMC article. Review.

Müller JH, Razu S, Erdemir A, Guess TM. Prediction of patellofemoral joint kinematics and contact through co-simulation of rigid body dynamics and nonlinear finite element analysis. Comput Methods Biomech Biomed Engin. 2020 Aug;23(11):718-733. doi: 10.1080/10255842.2020.1761960. Epub 2020 May 7. PMID: 32379505

Erdemir A. Journal of Biomechanical Engineering: Legacy Paper 2019. J Biomech Eng. 2020 Jan 1. doi: 10.1115/1.4045873. Online ahead of print. PMID: 31899474 No abstract available.

Schimmoeller T, Neumann EE, Owings TM, Nagle TF, Colbrunn RW, Landis B, Jelovsek JE, Hing T, Ku JP, Erdemir A. Reference data on in vitro anatomy and indentation response of tissue layers of musculoskeletal extremities. Sci Data. 2020 Jan 15;7(1):20. doi: 10.1038/s41597-020-0358-1. PMID: 31941894 Free PMC article.

Schimmoeller T, Neumann EE, Nagle TF, Erdemir A. Reference tool kinematics-kinetics and tissue surface strain data during fundamental surgical acts. Sci Data. 2020 Jan 15;7(1):21. doi: 10.1038/s41597-020-0359-0. PMID: 31941889 Free PMC article.

Tanska P, Venäläinen MS, Erdemir A, Korhonen RK. A multiscale framework for evaluating three-dimensional cell mechanics in fibril-reinforced poroelastic tissues with anatomical cell distribution - Analysis of chondrocyte deformation behavior in mechanically loaded articular cartilage. J Biomech. 2020 Mar 5;101:109648. doi: 10.1016/j.jbiomech.2020.109648. Epub 2020 Jan 17. PMID: 32019679

Erdemir A, Besier TF, Halloran JP, Imhauser CW, Laz PJ, Morrison TM, Shelburne KB. Deciphering the "Art" in Modeling and Simulation of the Knee Joint: Overall Strategy. J Biomech Eng. 2019 Jul 1;141(7):0710021-07100210. doi: 10.1115/1.4043346. PMID: 31166589 Free PMC article. Review.

Sahoo S, Baker AR, Jun BJ, Erdemir A, Ricchetti ET, Iannotti JP, Derwin KA. A novel radiopaque tissue marker for soft tissue localization and in vivo length and area measurements. PLoS One. 2019 Oct 18;14(10):e0224244. doi: 10.1371/journal.pone.0224244. eCollection 2019. PMID: 31626672 Free PMC article.

Noble C, Carlson KD, Neumann E, Dragomir-Daescu D, Erdemir A, Lerman A, Young M. Patient specific characterization of artery and plaque material properties in peripheral artery disease. J Mech Behav Biomed Mater. 2020 Jan;101:103453. doi: 10.1016/j.jmbbm.2019.103453. Epub 2019 Sep 27. PMID: 31585351 Free PMC article.

Neumann EE, Owings TM, Erdemir A. J Biomech. 2019 Oct 11;95:109307. doi: 10.1016/j.jbiomech.2019.08.001. Epub 2019 Aug 8. PMID: 31431344

Neumann EE, Young M, Erdemir A. A pragmatic approach to understand peripheral artery lumen surface stiffness due to plaque heterogeneity. Comput Methods Biomech Biomed Engin. 2019 Mar;22(4):396-408. doi: 10.1080/10255842.2018.1560427. Epub 2019 Feb 4. PMID: 30712373 Free PMC article.

Schimmoeller T, Colbrunn R, Nagle T, Lobosky M, Neumann EE, Owings TM, Landis B, Jelovsek JE, Erdemir A. Instrumentation of off-the-shelf ultrasound system for measurement of probe forces during freehand imaging. J Biomech. 2019 Jan 23;83:117-124. doi: 10.1016/j.jbiomech.2018.11.032. Epub 2018 Nov 26. PMID: 30514629

Neumann EE, Owings TM, Schimmoeller T, Nagle TF, Colbrunn RW, Landis B, Jelovsek JE, Wong M, Ku JP, Erdemir A. Reference data on thickness and mechanics of tissue layers and anthropometry of musculoskeletal extremities. Sci Data. 2018 Sep 25;5:180193. doi: 10.1038/sdata.2018.193. PMID: 30251995 Free PMC article.

Schimmoeller T, Cho KH, Colbrunn R, Nagle T, Neumann E, Erdemir A. Instrumentation of Surgical Tools To Measure Load and Position During Incision, Tissue Retraction, and Suturing. Annu Int Conf IEEE Eng Med Biol Soc. 2018 Jul;2018:933-936. doi: 10.1109/EMBC.2018.8512332. PMID: 30440543

Yao Y, Erdemir A, Li ZM. Finite element analysis for transverse carpal ligament tensile strain and carpal arch area. J Biomech. 2018 May 17;73:210-216. doi: 10.1016/j.jbiomech.2018.04.005. Epub 2018 Apr 12. PMID: 29678419 Free PMC article.

Halloran JP, Sibole SC, Erdemir A. The potential for intercellular mechanical interaction: simulations of single chondrocyte versus anatomically based distribution. Biomech Model Mechanobiol. 2018 Feb;17(1):159-168. doi: 10.1007/s10237-017-0951-1. Epub 2017 Aug 24. PMID: 28836010 Free PMC article.

Walia P, Erdemir A, Li ZM. Subject-specific finite element analysis of the carpal tunnel cross-sectional to examine tunnel area changes in response to carpal arch loading. Clin Biomech (Bristol, Avon). 2017 Feb;42:25-30. doi: 10.1016/j.clinbiomech.2017.01.004. Epub 2017 Jan 4. PMID: 28073093 Free PMC article.

Erdemir A, Hunter PJ, Holzapfel GA, Loew LM, Middleton J, Jacobs CR, Nithiarasu P, Löhner R, Wei G, Winkelstein BA, Barocas VH, Guilak F, Ku JP, Hicks JL, Delp SL, Sacks M, Weiss JA, Ateshian GA, Maas SA, McCulloch AD, Peng GCY. Perspectives on Sharing Models and Related Resources in Computational Biomechanics Research. J Biomech Eng. 2018 Feb 1;140(2):0247011-02470111. doi: 10.1115/1.4038768.
PMID: 29247253 Free PMC article.

Mulugeta L, Drach A, Erdemir A, Hunt CA, Horner M, Ku JP, Myers JG Jr, Vadigepalli R, Lytton WW. Front Neuroinform. 2018 Apr 16;12:18. doi: 10.3389/fninf.2018.00018. eCollection 2018. PMID: 29713272 Free PMC article. Review.

Erdemir A, Guess TM, Halloran JP, Modenese L, Reinbolt JA, Thelen DG, Umberger BR, Erdemir A, Guess TM, Halloran JP, Modenese L, Reinbolt JA, Thelen DG, Umberger BR, Umberger BR, Erdemir A, Thelen DG, Guess TM, Reinbolt JA, Modenese L, Halloran JP. Commentary on the integration of model sharing and reproducibility analysis to scholarly publishing workflow in computational biomechanics. IEEE Trans Biomed Eng. 2016 Oct;63(10):2080-2085. doi: 10.1109/TBME.2016.2602760. PMID: 28072567 Free PMC article.

Maas SA, Erdemir A, Halloran JP, Weiss JA. A general framework for application of prestrain to computational models of biological materials. J Mech Behav Biomed Mater. 2016 Aug;61:499-510. doi: 10.1016/j.jmbbm.2016.04.012. Epub 2016 Apr 13. PMID: 27131609 Free PMC article.

Telfer S, Erdemir A, Woodburn J, Cavanagh PR. Simplified versus geometrically accurate models of forefoot anatomy to predict plantar pressures: A finite element study. J Biomech. 2016 Jan 25;49(2):289-94. doi: 10.1016/j.jbiomech.2015.12.001. Epub 2015 Dec 11. PMID: 26708965

Bennetts CJ, Sibole S, Erdemir A. Automated generation of tissue-specific three-dimensional finite element meshes containing ellipsoidal cellular inclusions. Comput Methods Biomech Biomed Engin. 2015;18(12):1293-304. doi: 10.1080/10255842.2014.900545. Epub 2014 Apr 7.PMID: 24708340

Erdemir A. Open Knee: Open Source Modeling and Simulation in Knee Biomechanics. J Knee Surg. 2016 Feb;29(2):107-16. doi: 10.1055/s-0035-1564600. Epub 2015 Oct 7. PMID: 26444849 Free PMC article.

Chokhandre S, Colbrunn R, Bennetts C, Erdemir A. A Comprehensive Specimen-Specific Multiscale Data Set for Anatomical and Mechanical Characterization of the Tibiofemoral Joint. PLoS One. 2015 Sep 18;10(9):e0138226. doi: 10.1371/journal.pone.0138226. eCollection 2015. PMID: 26381404 Free PMC article.

Erdemir A, Bennetts C, Davis S, Reddy A, Sibole S. Multiscale cartilage biomechanics: technical challenges in realizing a high-throughput modelling and simulation workflow. Interface Focus. 2015 Apr 6;5(2):20140081. doi: 10.1098/rsfs.2014.0081. PMID: 25844153 Free PMC article.

Sahoo S, DeLozier KR, Erdemir A, Derwin KA. Clinically relevant mechanical testing of hernia graft constructs. J Mech Behav Biomed Mater. 2015 Jan;41:177-88. doi: 10.1016/j.jmbbm.2014.10.011. Epub 2014 Oct 27. PMID: 25460414

Telfer S, Erdemir A, Woodburn J, Cavanagh PR. What has finite element analysis taught us about diabetic foot disease and its management? A systematic review. PLoS One. 2014 Oct 7;9(10):e109994. doi: 10.1371/journal.pone.0109994. eCollection 2014. PMID: 25290098 Free PMC article. Review.

Chien MS, Erdemir A, van den Bogert AJ, Smith WA. Development of dynamic models of the Mauch prosthetic knee for prospective gait simulation. J Biomech. 2014 Sep 22;47(12):3178-84. doi: 10.1016/j.jbiomech.2014.06.011. Epub 2014 Jun 21. PMID: 25059894

Spirka TA, Erdemir A, Ewers Spaulding S, Yamane A, Telfer S, Cavanagh PR. Simple finite element models for use in the design of therapeutic footwear. J Biomech. 2014 Sep 22;47(12):2948-55. doi: 10.1016/j.jbiomech.2014.07.020. Epub 2014 Jul 30. PMID: 25134436

de Vries SA, van Turnhout MC, Oomens CW, Erdemir A, Ito K, van Donkelaar CC. Deformation thresholds for chondrocyte death and the protective effect of the pericellular matrix. Tissue Eng Part A. 2014 Jul;20(13-14):1870-6. doi: 10.1089/ten.TEA.2013.0436. Epub 2014 May 15. PMID: 24438476 Free PMC article.

Sibole SC, Maas S, Halloran JP, Weiss JA, Erdemir A. Evaluation of a post-processing approach for multiscale analysis of biphasic mechanics of chondrocytes. Comput Methods Biomech Biomed Engin. 2013 Oct;16(10):1112-26. doi: 10.1080/10255842.2013.809711. Epub 2013 Jun 28. PMID: 23809004 Free PMC article.

Erdemir A. Open Knee: A Pathway to Community Driven Modeling and Simulation in Joint Biomechanics. J Med Device. 2013 Dec;7(4):0409101-409101. doi: 10.1115/1.4025767. Epub 2013 Dec 5. PMID: 24895518 Free PMC article. No abstract available.

Petre M, Erdemir A, Panoskaltsis VP, Spirka TA, Cavanagh PR. Optimization of nonlinear hyperelastic coefficients for foot tissues using a magnetic resonance imaging deformation experiment. J Biomech Eng. 2013 Jun;135(6):61001-12. doi: 10.1115/1.4023695. PMID: 23699713 Free PMC article.

Bennetts CJ, Owings TM, Erdemir A, Botek G, Cavanagh PR. Clustering and classification of regional peak plantar pressures of diabetic feet. J Biomech. 2013 Jan 4;46(1):19-25. doi: 10.1016/j.jbiomech.2012.09.007. Epub 2012 Oct 22. PMID: 23089457 Free PMC article.

Young M, Erdemir A, Stucke S, Klatte R, Davis B, Navia JL. Simulation Based Design and Evaluation of a Transcatheter Mitral Heart Valve Frame. J Med Device. 2012 Sep;6(3):31005-31012. doi: 10.1115/1.4007182. PMID: 23372624 Free PMC article.

Chokhandre S, Halloran JP, van den Bogert AJ, Erdemir A. A three-dimensional inverse finite element analysis of the heel pad. J Biomech Eng. 2012 Mar;134(3):031002. doi: 10.1115/1.4005692.
PMID: 22482682 Free PMC article.

Erdemir A, Guess TM, Halloran J, Tadepalli SC, Morrison TM. Considerations for reporting finite element analysis studies in biomechanics. J Biomech. 2012 Feb 23;45(4):625-33. doi: 10.1016/j.jbiomech.2011.11.038. Epub 2012 Jan 10. PMID: 22236526 Free PMC article. Review.

Tawhai M, Bischoff J, Einstein D, Erdemir A, Guess T, Reinbolt J. Multiscale modeling in computational biomechanics. IEEE Eng Med Biol Mag. 2009 May-Jun;28(3):41-9. doi: 10.1109/MEMB.2009.932489. PMID: 19457733 Free PMC article. No abstract available.

Erdemir A, McLean S, Herzog W, van den Bogert AJ. Model-based estimation of muscle forces exerted during movements. Clin Biomech (Bristol, Avon). 2007 Feb;22(2):131-54. doi: 10.1016/j.clinbiomech.2006.09.005. Epub 2006 Oct 27. PMID: 17070969 Review.

Mesiha MM, Derwin KA, Sibole SC, Erdemir A, McCarron JA. The biomechanical relevance of anterior rotator cuff cable tears in a cadaveric shoulder model. J Bone Joint Surg Am. 2013 Oct 16;95(20):1817-24. doi: 10.2106/JBJS.L.00784. PMID: 24132354

Sibole SC, Erdemir A. Chondrocyte deformations as a function of tibiofemoral joint loading predicted by a generalized high-throughput pipeline of multi-scale simulations. PLoS One. 2012;7(5):e37538. doi: 10.1371/journal.pone.0037538. Epub 2012 May 23. PMID: 22649535 Free PMC article.

Mouradi R, Desai N, Erdemir A, Agarwal A. The use of FDTD in establishing in vitro experimentation conditions representative of lifelike cell phone radiation on the spermatozoa. Health Phys. 2012 Jan;102(1):54-62. doi: 10.1097/HP.0b013e3182289bfb. PMID: 22134078

Halloran JP, Erdemir A. Adaptive surrogate modeling for expedited estimation of nonlinear tissue properties through inverse finite element analysis. Ann Biomed Eng. 2011 Sep;39(9):2388-97. doi: 10.1007/s10439-011-0317-2. Epub 2011 May 5. PMID: 21544674 Free PMC article.

Tadepalli SC, Erdemir A, Cavanagh PR. Comparison of hexahedral and tetrahedral elements in finite element analysis of the foot and footwear. J Biomech. 2011 Aug 11;44(12):2337-43. doi: 10.1016/j.jbiomech.2011.05.006. Epub 2011 Jul 13. PMID: 21742332 Free PMC article.

Halloran JP, Ackermann M, Erdemir A, van den Bogert AJ. Concurrent musculoskeletal dynamics and finite element analysis predicts altered gait patterns to reduce foot tissue loading. J Biomech. 2010 Oct 19;43(14):2810-5. doi: 10.1016/j.jbiomech.2010.05.036. Epub 2010 Jun 22. PMID: 20573349 Free PMC article.

Halloran JP, Erdemir A, van den Bogert AJ. Adaptive surrogate modeling for efficient coupling of musculoskeletal control and tissue deformation models. J Biomech Eng. 2009 Jan;131(1):011014. doi: 10.1115/1.3005333. PMID: 19045930 Free PMC article.

Erdemir A, Sirimamilla PA, Halloran JP, van den Bogert AJ. An elaborate data set characterizing the mechanical response of the foot. J Biomech Eng. 2009 Sep;131(9):094502. doi: 10.1115/1.3148474. PMID: 19725699 Free PMC article.

Petre M, Erdemir A, Cavanagh PR. An MRI-compatible foot-loading device for assessment of internal tissue deformation. J Biomech. 2008;41(2):470-4. doi: 10.1016/j.jbiomech.2007.09.018. Epub 2007 Oct 23. PMID: 17959184

Budhabhatti SP, Erdemir A, Petre M, Sferra J, Donley B, Cavanagh PR. Finite element modeling of the first ray of the foot: a tool for the design of interventions. J Biomech Eng. 2007 Oct;129(5):750-6. doi: 10.1115/1.2768108. PMID: 17887901

Yavuz M, Erdemir A, Botek G, Hirschman GB, Bardsley L, Davis BL. Peak plantar pressure and shear locations: relevance to diabetic patients. Diabetes Care. 2007 Oct;30(10):2643-5. doi: 10.2337/dc07-0862. Epub 2007 Jul 9. PMID: 17620447 No abstract available.

Erdemir A, Viveiros ML, Ulbrecht JS, Cavanagh PR. An inverse finite-element model of heel-pad indentation. J Biomech. 2006;39(7):1279-86. doi: 10.1016/j.jbiomech.2005.03.007. PMID: 15907330 Clinical Trial.

Goske S, Erdemir A, Petre M, Budhabhatti S, Cavanagh PR. Reduction of plantar heel pressures: Insole design using finite element analysis. J Biomech. 2006;39(13):2363-70. doi: 10.1016/j.jbiomech.2005.08.006. Epub 2005 Sep 28. PMID: 16197952

Erdemir A, Hamel AJ, Fauth AR, Piazza SJ, Sharkey NA. Dynamic loading of the plantar aponeurosis in walking. J Bone Joint Surg Am. 2004 Mar;86(3):546-52. doi: 10.2106/00004623-200403000-00013.
PMID: 14996881

Erdemir A, Saucerman JJ, Lemmon D, Loppnow B, Turso B, Ulbrecht JS, Cavanagh PR. Local plantar pressure relief in therapeutic footwear: design guidelines from finite element models. J Biomech. 2005 Sep;38(9):1798-806. doi: 10.1016/j.jbiomech.2004.09.009. PMID: 16023466 Clinical Trial.

Erdemir A, Piazza SJ. Changes in foot loading following plantar fasciotomy: a computer modeling study. J Biomech Eng. 2004 Apr;126(2):237-43. doi: 10.1115/1.1691447. PMID: 15179854 Clinical Trial.

Piazza SJ, Erdemir A, Okita N, Cavanagh PR. Assessment of the functional method of hip joint center location subject to reduced range of hip motion. J Biomech. 2004 Mar;37(3):349-56. doi: 10.1016/s0021-9290(03)00288-4. PMID: 14757454

Erdemir A, Hamel AJ, Piazza SJ, Sharkey NA. Fiberoptic measurement of tendon forces is influenced by skin movement artifact. J Biomech. 2003 Mar;36(3):449-55. doi: 10.1016/s0021-9290(02)00414-1. PMID: 12594993

Erdemir A, Piazza SJ. Rotational foot placement specifies the lever arm of the ground reaction force during the push-off phase of walking initiation. Gait Posture. 2002 Jun;15(3):212-9. doi: 10.1016/s0966-6362(01)00192-8. PMID: 11983495

Erdemir A, Piazza SJ, Sharkey NA. Influence of loading rate and cable migration on fiberoptic measurement of tendon force. J Biomech. 2002 Jun;35(6):857-62. doi: 10.1016/s0021-9290(02)00010-6. PMID: 12021008

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