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42 results for “Muscle reconstructions”
3D Reconstruction of Shoulder Muscles in Hominoid Primates: Correlating Scapular Attachment Areas with Muscle Volume
<h2><strong>How To Cite:</strong></h2> <p>If you use this data or code in your research, please cite the associated open-access <strong>manuscript, </strong>which you can find here: <a href="https://doi.org/10.1111/joa.14199">https://doi.org/10.1111/joa.14199</a><br>and this <strong>zenodo repository</strong>.</p> <h2><strong>Online Visualization:</strong></h2> <p>You can access an interactive, web-based view of the notebooks and analyses <a title="Shoulder Muscle Reconstruction Code" href="https://juliavanbeesel.github.io/ShoulderMuscleReconstructions/intro.html" target="_blank" rel="noopener">here</a>.</p> <h2><strong>Repository Description:</strong></h2> <p>This repository contains two zip files related to the analysis and visualization of 3D reconstructed muscle volumes and lengths from various hominoid specimens.</p> <ol> <li> <p><strong>MeshFiles.zip:</strong></p> <ul> <li><strong>Contents:</strong> This zip file includes all <code>.obj</code> files for 3D reconstructed muscle volumes and associated anatomical structures. Specifically, it contains: <ul> <li><strong>Muscles:</strong> Supraspinatus, Infraspinatus, Subscapularis, Teres Major, Teres Minor</li> <li><strong>Bones:</strong> Scapula and Humerus</li> <li><strong>Attachment Sites</strong></li> </ul> </li> <li><strong>Organization:</strong> The files are organized into folders by specimen. There are 9 hominoid specimens from the following species: <ul> <li><em>Hylobates lar</em></li> <li><em>Symphalangus syndactylus</em></li> <li><em>Pongo pygmaeus</em></li> <li><em>Pongo abelii</em></li> <li><em>Gorilla gorilla</em></li> <li><em>Pan troglodytes</em></li> <li><em>Homo sapiens</em></li> </ul> </li> <li><strong>Surface Scans of Muscle Geometry: </strong>The specimens <em>Pongo</em> (ID 3) and <em>Symphalangus </em>(ID 122) also contain surface scans that depict the muscle geometry of the listed muscles. These surface scans can be used for training with the iterative polygonal modelling approach. The scans are stored as <code>.obj</code>, <code>.mtl</code> and <code>.png</code> files. To view textures on these meshes, keep all three files together in the same folder.</li> <li><strong>Additional Details:</strong> Muscle reconstructions were performed for different arm positions. Each folder contains multiple humerus files, with each file representing a humerus in a specific position aligned with the corresponding muscles. The humerus file names indicate the muscles the humerus is aligned with.<br><br></li> </ul> </li> <li> <p><strong>DataAndCode.zip:</strong></p> <ul> <li><strong>Contents:</strong> <ul> <li><strong>Excel File:</strong> The original data used for analysis, presented in Table 2 of the manuscript.</li> <li><strong>Jupyter Notebook Files: </strong>These notebooks provide the analyses and figures as described in the manuscript: <ul> <li><em>Accuracy_Muscle_Length_Reconstruction:</em> Analysis of muscle length measurement comparisons, detailed in Supplementary Information Section 3: <em>Accuracy of estimating Muscle Length from 3D reconstructions</em>.</li> <li><em>Accuracy_Muscle_Volume_Reconstruction:</em> Analysis of muscle volume measurement comparisons, detailed in Results Section 3.2: <em>Accuracy of Muscle Volume and Length Reconstruction</em>.</li> <li><em>Correlation_Analysis_SIS:</em> Correlation analysis of muscle origin area to volume for the supraspinatus, infraspinatus, and subscapularis muscles, detailed in Results Section 3.3:<em> Correlation Analysis</em>.</li> <li><em>Correlation_Analysis_TT:</em> Correlation analysis of muscle origin area to volume for the teres major and minor muscles, detailed in Supplementary Information Section 1: <em>Correlation results of teres major and minor</em>.</li> </ul> </li> <li><strong>Requirements.txt:</strong> A file listing the necessary packages required to run the Jupyter notebooks.</li> </ul> </li> <li><strong>Purpose:</strong> The Python files include code for performing statistical analyses and generating figures as described in the manuscript.</li> </ul> </li> </ol> <h2><strong>Usage Instructions:</strong></h2> <ul> <li>For analyzing muscle volumes and lengths, refer to the Jupyter notebooks included in the <code>DataAndCode.zip</code>. Ensure all dependencies listed in the <code>requirements.txt</code> file are installed.</li> <li>The <code>MeshFiles.zip</code> contains the 3D models necessary for visualizing muscle and bone reconstructions, organized by specimen and arm position.</li> </ul>
Cranial muscle reconstructions quantify adaptation for high bite forces in Oviraptorosauria
<p>This dataset contains 3D models, data, and python scripts for the cranial and mandibular retrodeformations of oviraptorosaurian theropod species <em>Incisivosaurus gautheri</em>, <em>Citipati osmolskae</em>, <em>Khaan mckennai</em>, and <em>Conchoraptor gracilis (</em>along with reconstructed cranial musculature and gape analyses) supporting the paper ‘Cranial muscle reconstructions quantify adaptation for high bite forces in Oviraptorosauria' published in Scientific Reports (<a href="https://www.nature.com/articles/s41598-022-06910-4">Cranial muscle reconstructions quantify adaptation for high bite forces in Oviraptorosauria | Scientific Reports (nature.com)</a>.</p> <p>A single ZIP compressed folder contains two Blender (<a href="https://www.blender.org/">https://www.blender.org/</a>) .blend files for each species. The Blender files named '[Genus]_cranial_muscles.blend' contain the cranial and mandibular retrodeformed models and final volumetric muscle reconstructions (along with the curve muscle origin-insertion paths and shrinkwrapped curves the final muscle volumes were derived from). The Blender files named '[Genus]_gape_analysis.blend' contain the cranial and mandibular retrodeformed models and the muscle origin-insertion cylinder connections (attached to an animated armature) used to estimate optimal and maximum gape angle. The .txt files named '[Genus]_gape_script.txt' are python scripts used to run the gape analyses for each species. The .txt files names '[Genus]_strain_values.txt' are the output strain values of each muscle cylinder during the gape analyses for each species. [Unzipped total size 1.74GB].</p>
Tutorial video for: A toolbox for the retrodeformation and muscle reconstruction of fossil specimens in Blender
<p>Accurate muscle reconstructions can offer new information on the anatomy of fossil organisms and are also important for biomechanical analysis (multibody dynamics and finite element analysis). For the sake of simplicity, muscles are often modeled as point-to-point strands or frustra (cut off cones) in biomechanical models. However, there are cases in which it is useful to model the muscle morphology in 3D, to better examine the effects of muscle shape and size. This is especially important for fossil analyses, where muscle force is estimated from the reconstructed muscle morphology (rather than based on data collected in vivo). The two main aims of this paper are as follows. First, we created a new interactive tool in the free open access software Blender to enable interactive 3D modeling of muscles. This approach can be applied to both palaeontological and human biomechanics research to generate muscle force magnitudes and lines of action for finite element analysis. Second, we provide a guide on how to use existing Blender tools to reconstruct distorted or incomplete specimens. This guide is aimed at palaeontologists but can also be used by anatomists working with damaged specimens or to test functional implication of hypothetical morphologies.</p>
Tutorial video for: A toolbox for the retrodeformation and muscle reconstruction of fossil specimens in Blender
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A roadmap to reconstructing muscle architecture from CT data
<div> <span>Skeletal muscle is responsible for voluntary force generation across animals, and muscle architecture largely determines the parameters of mechanical output. The ability to analyze muscle performance through muscle architecture is thus a key step towards better understanding the ecology and evolution of movements and morphologies. In pennate skeletal muscle, volume, fiber lengths and attachment angles to force transmitting structures comprise the most relevant parameters of muscle architecture. Measuring these features through tomographic techniques offers an alternative to tedious and destructive dissections, particularly as the availability of tomographic data is rapidly increasing. However, there is a need for streamlined computational methods to access this information efficiently. Here, we establish and compare workflows using partially automated image analysis for fast and accurate estimation of animal muscle architecture. After isolating a target muscle through segmentation, we evaluate freely available and proprietary fiber tracing algorithms to reconstruct muscle fibers. We then present a script using the Blender Python API to estimate attachment angles, fiber lengths, muscle volume and Physiological Cross-Sectional Area. We apply these methods to insect and vertebrate muscle and provide guided workflows. Results from fiber tracing are consistent compared to manual measurements but much less time-consuming. Lastly, we emphasize the capabilities of the open-source 3D software Blender as both a tool for visualization and a scriptable analytic tool to process digitized anatomical data. Across organisms, it is feasible to extract, analyze, and visualize muscle architecture from tomography data by exploiting the spatial features of scans and the geometric properties of muscle fibers. As digital libraries of anatomies continue to grow, the workflows and approach presented here can be part of the open-source future of digital comparative analysis.</span> </div>
Trial Evaluating Postop Pain and Muscle Strength Among Regional Anesthesia Techniques for Ambulatory ACL Reconstruction
ClinicalTrials.gov study NCT02584452. IPD Sharing: NO. Countries: 1. Publications: 15.
Preoperative Levator Ani Muscle Injection and Pudendal Nerve Block for Pain Control After Vaginal Reconstructive Surgery
ClinicalTrials.gov study NCT03040011. IPD Sharing: NO. Countries: 1. Publications: 1.
A roadmap to reconstructing muscle architecture from CT data
Open the record for dataset details and reuse information.
Figure 5. Muscle mass reconstruction method for M in A Computational Analysis of Limb and Body Dimensions in Tyrannosaurus rex with Implications for Locomotion, Ontogeny, and Growth
Figure 5. Muscle mass reconstruction method for M. caudofemoralis longus (see Methods); Carnegie specimen depicted. Dorsal and right lateral views are shown on topı and in the bottom row are caudal views of the right femur and then caudal vertebrae (8th and 17th). Red shaded volumes are the M. caudofemoralis longus reconstruction. Note a small space for M. caudofemoralis brevis (not reconstructed) is left around the ilium/sacrum and lateral to the CFL insertion. doi:10.1371/journal.pone.0026037.g005
Non-invasive Brain Stimulation to Improve Quadriceps Muscle Function After Anterior Cruciate Ligament Reconstruction
ClinicalTrials.gov study NCT04504344. IPD Sharing: NO. Countries: 1. Publications: 2.
Calf Muscle Perfusion in Patients With Intermittent Claudication by 3D-reconstruction of MSOT (MSOT_IC_3D)
ClinicalTrials.gov study NCT05773534. IPD Sharing: Not stated. Countries: 1. Publications: 5.
Muscle Strengthening and Return-to-exercise Criteria After Anterior Cruciate Ligament Reconstruction (ACLR)
ClinicalTrials.gov study NCT05814445. IPD Sharing: NO. Countries: 1. Publications: 20.
Patient Specific PEEK Implants for Immediate Restoration of Temporal Fossa After Maxillary Reconstruction With Temporalis Muscle Flap
ClinicalTrials.gov study NCT05240963. IPD Sharing: NO. Countries: 1. Publications: 1.
Clinical Study on Mesenchymal Stem Cells Used in the Reconstruction Surgery of the Supraspinatus Muscle Lesions
ClinicalTrials.gov study NCT03068988. IPD Sharing: NO. Countries: 1. Publications: 5.
Evaluation of the Effectiveness and Safety of Laparoscopic Assisted Mastectomy With Preservation of Nipple and Areola, Immediate One-step Breast Reconstruction With Pectoral Muscle Prosthesis and Patc
ClinicalTrials.gov study NCT07037537. IPD Sharing: Not stated. Countries: 1. Publications: 13.
Effect of Different Focused Techniques on Thigh Muscle Activation After Anterior Cruciate Ligament Reconstruction
ClinicalTrials.gov study NCT05342415. IPD Sharing: NO. Countries: 1. Publications: 12.
Determining the Effects of Non-invasive Brain Stimulation to Improve Quadriceps Muscle Function After ACL Reconstruction
ClinicalTrials.gov study NCT07128602. IPD Sharing: YES. Countries: 1. Publications: 2.
Pilot Study of Topographic Imaging of the Calf Muscle in Patients With PAD Using 3D Reconstruction of MSOT Images
ClinicalTrials.gov study NCT05110677. IPD Sharing: NO. Countries: 1. Publications: 3.
Text-fig. 2. Pauxillites thaddei sp. nov., a – reconstruction of ventral side of conch with visible growth-lines and rounded lateral edges; b – reconstruction of inner surface of triclaviculate operculum with muscle scar in the area between clavicles. The dotted line represents the predicted shape of cardinal area. in Pauxillites Thaddei A New Lower Ordovician Hyolith From Morocco
Text-fig. 2. Pauxillites thaddei sp. nov., a – reconstruction of ventral side of conch with visible growth-lines and rounded lateral edges; b – reconstruction of inner surface of triclaviculate operculum with muscle scar in the area between clavicles. The dotted line represents the predicted shape of cardinal area.
The Role of Levator Ani Muscle Reconstruction Technology in Urinary Incontinence Recovery
ClinicalTrials.gov study NCT06543420. IPD Sharing: Not stated. Countries: 1. Publications: 0.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.