40 Works

SE4CF Models Based on Limited Data

Jennifer Nichols, Wendy Murray & Michael Bednar
Kinematic models of scaphoid-excision four-corner fusion (SE4CF) developed in SIMM v. 6.0.2. These models are based on several assumptions and limited experimental data.

OpenSim plugin to extract the muscle lines of action

Luca Modenese & Andrew T. M. Philips
MuscleForceDirection plugin for extracting the muscle lines of action updated to OpenSim 4.1. The plugin has been compiled using the API of OpenSim v4.1 and VS Community 2019 (v16.5.4).

Source Code and Force/Motion/Ultrasound Data to Validate an Instrumented Ultrasound System to Characterize Probe Force

Tyler Schimmoeller, Robb Colbrunn, Tara Nagle, Mark Lobosky, Erica Neumann, Tammy Owings, Benjamin Landis, Eric Jelovsek & Ahmet Erdemir
The provided software and data were used to demonstrate an instrumentation strategy for an ultrasound system to fully characterize the ultrasound probe force, orientation, and optionally its movement during imaging while efficiently synchronizing all data. A known method for compensation of the ultrasound probe weight was implemented, and a novel method for temporal synchronization was developed, which utilizes the electrocardiogram feature built in to the ultrasound. The system was used to perform anatomical imaging of...

Synchronized EMG and motion capture data set for five normally developed subjects performing hand-to-nape with right upper extremity.

Robert Quinton, Elizabeth Rapp van Roden, James Richards, Kristen Nicholson & Tyler Richardson
This study is the first of its kind to utilize synchronized EMG and motion capture data to evaluate the timing and amplitude of all twenty muscle segments influencing scapulothoracic (ST) and glenohumeral (GH) motion in a group of five typically developed individuals performing five everyday shoulder motions. Certain muscles were divided into segments due to their varying lines of action (i.e. deltoid) or varying innervations (i.e. trapezius). The data set was evaluated for conserved muscle...

The UPatras Eye Model – An OpenSim Oculomotor Model and Controller for Kinematics and Dynamics Simulations

Filip Konstantinos, Stanev Dimitar & Moustakas Konstantinos
The UPatras Eye Model files include the model, source code, documentation and controller plugin for use with OpenSim v3.3 x64. This model is based on the passive pulley hypothesis, constructed based on the data reported in literature regarding physiological measurements of the human eye. It incorporates an eye globe, orbital suspension tissues and six extraocular muscles. The excitation and activation patterns for a variety of targets can be calculated using the proposed closed-loop fixation controller...

Open Knee(s): Virtual Biomechanical Representations of the Knee Joint

Ahmet Erdemir & Snehal Chokhandre
This site contains magnetic resonance imaging (MRI) and joint mechanical characterization data for 8 human cadaveric knees that included male and female, young and elderly, and healthy and osteoarthritic donors. Imaging was performed on a 3T magnet and included general purpose imaging (3D T1-weighted without fat suppression, isotropic, 0.5 mm resolution); cartilage imaging (3D T1-weighted with fat suppression, 0.35 mm sagittal plane resolution, 0.7 mm out of plane resolution); and connective tissue imaging (proton density,...

Open Knee(s): Virtual Biomechanical Representations of the Knee Joint

Ahmet Erdemir & Snehal Chokhandre
This site contains magnetic resonance imaging (MRI) data acquired to support development of fully specimen-specific finite element representations of the human knee joint. MRI data were collected for a total of 8 adult cadaver specimens that included male and female, young and elderly, and healthy and osteoarthritic donors. Imaging was performed on a 3T magnet and included general purpose imaging (3D T1-weighted without fat suppression, isotropic, 0.5 mm resolution); cartilage imaging (3D T1-weighted with fat...

CAD Models to Create an Instrumented Ultrasound System to Characterize Probe Force

Tyler Schimmoeller, Robb Colbrunn, Tara Nagle, Mark Lobosky, Erica Neumann, Tammy Owings, Benjamin Landis, Eric Jelovsek & Ahmet Erdemir
The CAD models include two probe geometries and the overall system assembly for an ultrasound system that can fully characterize the ultrasound probe force, orientation, and optionally its movement during imaging while efficiently synchronizing all data.

Synchronized EMG and motion capture data set for five normally developed subjects performing hand-to-mouth with right upper extremity.

Robert Quinton, Elizabeth Rapp van Roden, James Richards, Kristen Nicholson & Tyler Richardson
This study is the first of its kind to utilize synchronized EMG and motion capture data to evaluate the timing and amplitude of all twenty muscle segments influencing scapulothoracic (ST) and glenohumeral (GH) motion in a group of five typically developed individuals performing five everyday shoulder motions. Certain muscles were divided into segments due to their varying lines of action (i.e. deltoid) or varying innervations (i.e. trapezius). The data set was evaluated for conserved muscle...

Synchronized EMG and motion capture data set for five normally developed subjects performing hand-to-spine with right upper extremity.

Robert Quinton, Elizabeth Rapp van Roden, James Richards, Kristen Nicholson & Tyler Richardson
This study is the first of its kind to utilize synchronized EMG and motion capture data to evaluate the timing and amplitude of all twenty muscle segments influencing scapulothoracic (ST) and glenohumeral (GH) motion in a group of five typically developed individuals performing five everyday shoulder motions. Certain muscles were divided into segments due to their varying lines of action (i.e. deltoid) or varying innervations (i.e. trapezius). The data set was evaluated for conserved muscle...

MRI Data And Geometry of Left Ventricle for Mapping onto a Finite Element Model

Thien-Khoi Phung & Jeffrey Holmes
This is a public data repository for the imaging data used to develop the open source code LV Data Map (https://github.com/cardiacbiomechanicsgroup/lvdatamap). This repository includes segmented canine LGE MRI processed using the freely available, MATLAB-based software Segment (http://segment.heiberg.se), mechanical activation times from DENSE MRI, and a fitted endocardial and epicardial surface mesh from CINE MRI.

Positron emission tomography images acquired with tracers 11C-DTBZ and 11C-RAC, and corresponding clinical data from healthy controls and patients with Parkinson’s disease

Ivan Klyuzhin, Jessie Fu, Andy Hong, Matthew Sacheli, Nikolay Shenkov, Michele Matarazzo, Arman Rahmim, Jon Stoessl & Vesna Sossi
This is a public data repository for the PLOS ONE (https://journals.plos.org/plosone/) publication entitled "Data-driven, voxel-based analysis of brain PET images: application of PCA and LASSO methods to visualize and quantify patterns of neurodegeneration". The repository contains imaging and clinical data from healthy controls and Parkinson's disease patients that is necessary to replicate the findings of the study. Specifically, the package contains: 1) 11C-DTBZ and 11C-RAC striatal PET images for each study subject, separated into better...

Reference tool kinematics-kinetics and tissue surface strain data during fundamental surgical acts on multi-layer tissue

Tyler Schimmoeller & Ahmet Erdemir
This site contains data to capture tissue-tool interactions of basic surgical acts performed on upper leg extremities. Tool positions and loads were measured while performing 16 different operations, which included 8 different techniques: indenting, pinching, cutting, widening, closing, everting, suturing, and retracting. In addition, 3D surface strain measurement was captured during initial indentation, pinching, and cutting trials at the skin surface. Further details of the analysis can be found in the publication "Reference tool kinematics-kinetics...

Ten Simple Rules of Credible Practice of Modeling & Simulation in Healthcare: TSR Public Survey Raw Data

Lealem Mulugeta, Ahmet Erdemir, Joy P. Ku, Andrew Drach, Jerry G. Myers Jr, Marc Horner, Tina Morrison, Rajanikanth Vadigepalli, William W. Lytton, Lu Tian, Gary An, Jeffrey Bischoff, David M. Eckmann, C. Anthony Hunt, Donna R. Lochner, Vasilis Marmarelis, Alison Marsden, Pras Pathmanathan, Grace C.Y. Peng, Gaurav N. Pradhan, Martin J. Steele, Marlei Walton, Marc Garbey, Ronald Germain, Wing K. Liu … & James Thomas
To develop the Ten Simple Rules of Credible Practice of Modeling and Simulation in Healthcare, we reached out to the global modeling and simulation (M&S) stakeholders through a survey. The public survey consisted of 32 simple rule statements which we identified through a series of discussions and an internal survey among the Committee members. This download package contains the raw data of the Ten Simple Rules of Credible Practice of Modeling and Simulation in Healthcare...

OKS models

Snehal Chokhandre & Ahmet Erdemir
There is a growing interest in the use of virtual representations of the knee for musculoskeletal research and clinical decision making, and to generate digital evidence for design and regulation of implants. Accessibility to previously developed models and related digital assets can dramatically reduce barriers to entry to conduct simulation-based studies of the knee joint and therefore help accelerate scientific discovery and clinical innovations. Development of models for finite element analysis is a demanding process...

Reproducibility Paper Data: Data and analysis package for the draft manuscript that assesses reporting and reproducibility across a cohort of literature-based knee modeling studies. The package contains the raw data, which are the reviews performed by the KneeHub team members, and the corresponding statistical analysis.

Jason Halloran, Neda Abdollahi Nohouji, Mhd Ammar Hafez, Thor Besier, Snehal Chokhandre, Shady Elmasry, Donald Hume, Carl Imhauser, Nynke Rooks, Marco Schneider, Ariel Schwartz, Kevin Shelburne, William Zaylor & Ahmet Erdemir
Reproducible research serves as a pillar of the scientific method and is a foundation for scientific advancement. However, estimates for irreproducibility of preclinical science range from 75% to 90%. The importance of reproducible science has not been assessed in the context of mechanics-based modeling of human joints such as the knee, despite this being an area that has seen dramatic growth. Framed in the context of five experienced teams currently documenting knee modeling procedures, the...

Data and code repository for the manuscript: JC Selinger, JL Hicks, RW Jackson, CM Wall-Scheffler, D Chang, and SL Delp. Running in the Wild: Using large-scale wearable data to understand ecological running speed preferences. Current Biology (2022).

Jessica Selinger, Jennifer Hicks, Rachel Jackson, Cara Wall-Scheffler, Derek Chang & Scott Delp
Human runners have long been thought to have the ability to consume a near constant amount of energy per distance traveled regardless of speed, allowing speed to be adapted to particular task demands with minimal energetic consequence. However, recent and more precise laboratory measures indicate that humans may in fact have an energy-optimal running speed. Here we characterize runners’ speeds in a free-living environment and determine if preferred speed is consistent with task or energy...

Lower Extremity EMG-Driven Model Calibration Software and Data

Andrew Meyer & BJ Fregly
A package containing 1) Matlab code for performing EMG-driven neuromusculoskeletal model calibration, 2) Scaled generic OpenSim full-body walking model with calibrated lower body joint locations and orientations for a single male subject with right hemiparesis. 3) Multiple cycles of experimental walking data (marker motion, ground reaction, and EMG data) collected on a tied-belt instrumented treadmill from the same subject walking at speeds ranging from 0.4 to 0.8 m/s.

Moment Arms of Primary Wrist and Extrinsic Thumb Muscles

Jennifer Nichols, Wendy Murray & Michael Bednar
Average moment arm versus joint angle curves are summarized for the nonimpaired, PRC, and SE4CF conditions. Moment arms of the primary wrist (ECRL, ECRB, ECU, FCU, FCR) and extrinsic thumb (EPL, EPB, APL, FPL) muscles were experimentally measured in cadaveric specimens using the tendon-excursion method.

Trajectories of body landmarks in videos of cerebral palsy patients and corresponding clinical labels

Łukasz Kidziński, Bryan Yang, Jennifer Hicks, Apoorva Rajagopal, Scott Delp & Michael Schwartz
Cerebral Palsy (CP) is a neurological disorder that is usually caused by mechanical damage to the brain at or around birth. One of the main symptoms of CP is impaired motor control and development of walking skills. In clinical practice in the US child’s gait is often recorded with a camera and the recording can be used by a doctor for assessment. In this dataset we provide body landmarks (such as positions of knees, elbow,...

Brown University Carpal Dataset

Bardiya Akhbari, Joseph J Crisco, Doublas C Moore, David H Laidlaw, Edward Akelman, Arnold-Peter C Weiss & Scott W Wolfe
This packaged folder contains the carpal bone anatomy for 120 wrists along with the calculated motion of the carpal bones in various postures. This version also contains the predictive quadratic surface model and the graphic user interface (GUI) that enables the user to observe the dataset. CT images of wrists from 90 healthy volunteers (43 males and 47 females) were acquired in various wrist positions. The outer cortical surfaces of the carpal bones, radius, and...

MSc Thesis Dataset and Workflow

Hans Kainz, Ilse Jonkers, Bryce Killen, Sien Vingerhoets & Elien Vlaeyen
The Impact of Subject-Specific Bone Geometry on Femoral Bone Growth Simulations in Children with Cerebral Palsy: Sensitivity Analysis of an Adaptive, Multi-Scale, Image-Based Workflow. The download package includes the thesis, short paper, Matlab code and results from the MSc thesis project from Elien Vlaeyen and Sien Vingerhoets, who were supervised by Hans Kainz and Ilse Jonkers.

Simulations of Ideal Assistive Devices for Four Subjects

Christopher Dembia
OpenSim simulations of male subjects walking while carrying heavy load and wearing hypothetical ideal assistive devices. The simulations examined 7 massless devices that each provided unrestricted torque at one degree of freedom and in one direction: hip abduction, hip flexion, hip extension, knee flexion, knee extension, ankle plantarflexion, and ankle dorsiflexion. The simulations were used to estimate the optimal device torques, and the devices' effect on metabolic cost and muscle activity.

Experimental Data and Simulations of Walking While Carrying Heavy Load

Christopher Dembia
Experimental data and muscle-actuated tracking simulations of male subjects walking while carrying heavy load. We collected motion capture data of 7 subjects walking in 4 different conditions: walking (a) without load at a freely selected speed, (b) without load at 80% of the freely selected speed, (c) while carrying 38 kg on the torso at a new freely selected speed, and (d) while carrying 38 kg at the same speed as in (a).

Synchronized EMG and motion capture data set for five normally developed subjects performing external rotation with right upper extremity.

Robert Quinton, Elizabeth Rapp van Roden, James Richards, Kristen Nicholson & Tyler Richardson
This study is the first of its kind to utilize synchronized EMG and motion capture data to evaluate the timing and amplitude of all twenty muscle segments influencing scapulothoracic (ST) and glenohumeral (GH) motion in a group of five typically developed individuals performing five everyday shoulder motions. Certain muscles were divided into segments due to their varying lines of action (i.e. deltoid) or varying innervations (i.e. trapezius). The data set was evaluated for conserved muscle...

Registration Year

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