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632 results for “Cartilage”
Radiofrequency ultrasound signals from bovine cartilage samples degraded with trypsin and collagenase
The folder Repository_RF_data contains the radiofrequency (RF) data acquired with an ArtUS EXT-1H system (Telemed, Italy) equipped with a 192 elements linear probe L15-7H40-A5 working in the frequency range 7.5-15 MHz, in the matlab format ".mat". Data were collected at 15 MHz, with a sampling rate of 40 MHz, adjusting the focus in the middle of the samples. The analysed samples were bovine cartilage samples, divided in three groups: - Control group: cartilage sample without any chemical treatment. - Trypsin group: cartilage samples immersed in a trypsin solution for 4h. - Collagenase group: cartilage samples immersed in a collagenase solution for 24h. The folder Repository_RF_data includes 2 matlab variables: - trypsin.mat = data acquired from 6 samples before and after the trypsin treatment - collagenase.mat = data acquired from 6 samples before and after the collagenase treatment Each variable is a TxN cell, where T is the time point of evaluation and N is the number of samples. The first row of each variable corresponds to the time zero of treatment, that is the control group; while the second row includes measurement at the final time point of treatment (4h for trypsin an 24h for collagenase). In particular, a single RF frame was acquired for all the analyses. Each recorded RF frame resulted in a matrix in which the columns (57) represented the number of RF scanning lines in a specific RF window, while the rows (727) constituted the number of samples in a single scanning line. For the details, see the articles published on Annual International Conference of the IEEE Engineering in Medicine and Biology Society: Sorriento A, Cafarelli A, Valenza G, Ricotti L. Ex-vivo quantitative ultrasound assessment of cartilage degeneration. Annu Int Conf IEEE Eng Med Biol Soc. 2021 Nov;2021:2976-2980. doi: 10.1109/EMBC46164.2021.9630198. PMID: 34891870.
Data from: Non-invasive Assessment of Cartilage Damage of the Human Knee using Acoustic Emission Monitoring: a Pilot Cadaver Study
<p>This dataset accompanies the following article: "Non-invasive Assessment of Cartilage Damage of the Human Knee using Acoustic Emission Monitoring: a Pilot Cadaver Study," in <em>IEEE Transactions on Biomedical Engineering</em>, doi: 10.1109/TBME.2023.3263388.</p> <p>Knee acoustic emissions (AE) recorded in the 100-450 kHz and 15-200kHz frequency ranges from a cadaver specimen knee in flexion/extension. Four stages of artificially inflicted cartilage damage and two sensor positions were investigated. </p> <p><em><strong>Stages of artificially inflicted cartilage damage:</strong></em> the cartilage surface damage on the medial compartment, KL III; the cartilage surface damage on the medial compartment plus patellofemoral surface, KL III; the cartilage surface damage on the medial compartment plus on the patellofemoral surface KL IV; the cartilage surface damage on the medial compartment plus on the patellofemoral surface and lateral compartment.</p> <p><strong><em>Sensor positions</em></strong>: medial and lateral knee</p>
Research data supporting "Online quantitative monitoring of live cell engineered cartilage growth using diffuse fiber-optic Raman spectroscopy"
<p>Research data supporting the publication:</p> <p>M. Bergholt, 2017, Online quantitative monitoring of live cell engineered cartilage growth using diffuse fiber-optic Raman spectroscopy, Biomaterials, Volume 140, September 2017, Pages 128–137, DOI: 10.1016/j.biomaterials.2017.06.015</p>
Effect of older age and/or ACL injury on the dose–response relationship between ambulatory load magnitude and immediate load-induced change in serum cartilage oligomeric matrix protein
<p>The data presented here was used in the models in the pulication doi <a title="Persistent link using digital object identifier" href="https://doi.org/10.1016/j.jshs.2024.100993" target="_blank" rel="noreferrer noopener"><span><span>https://doi.org/10.1016/j.jshs.2024.100993</span></span></a>.</p> <p>The purpose of this study was to assess the influence of age, anterior cruciate ligament (ACL) injury, and sex on resting sCOMP concentration, on the immediate load-induced sCOMP kinetics after a 30-minute treadmill walking stress, and on the dose-response relationship between ambulatory load magnitude and the load-induced sCOMP change.</p> <p>Overall, data of 85 participants in four groups (20–30 years healthy, HEA<sub>20–30</sub>, n=24; 20–30 years ACL-injured, ACL<sub>20–30</sub>, n=23; 40–60 years healthy, HEA<sub>40–60</sub>, n=23; 40–60 years ACL-injured, ACL<sub>40–60</sub>, n=15) were included in this dataset. ACL injured participants suffered from an ACL injury 2-10 years prior to inclusion. The dateaset includes, patient data and serum cartilage oligomeric matrix protein (sCOMP) concentration measured on three testdays (m1, m2, m3) immediately before (t0) and immediately after 30 minutes of treadmill walking (t1) where the ambulatory loads were 80% bodyweight (BW), 100% BW or 120% BW (block randomized order). This dateset represents a subset of data collected in the parent study.</p> <p>The detailed experimental protocol of the parent study has been described in Herger, S., Vach, W., Nüesch, C., Liphardt, A. M., Egloff, C., & Mündermann, A. (2022). Dose-response relationship of in vivo ambulatory load and mechanosensitive cartilage biomarkers—The role of age, tissue health and inflammation: A study protocol. <em>PLoS One, 17</em>(8), e0272694. <a href="https://doi.org/10.1371/journal.pone.0272694">https://doi.org/10.1371/journal.pone.0272694</a></p>
Surface data for belemnoid cephalic cartilage of the Polzbervg Konservat-Lagerstätte (late Triassic, Lower Austria, Northern Calcareous Alps). Supporting material for Lukeneder & Lukeneder 2022
<p>We provide the 3D surface data set (STL), obtained from Micro-Computertomography (Micro-CT) scans of late Triassic belemnoid cephalic cartilage (= cranial cartilage). Thirteen specimens were scanned at the Core Facility for Micro-Computed Tomography (Vienna Micro-CT Lab), University of Vienna, Austria, using a custom-built VISCOM X8060 NDT (Germany) µ-CT scanner with different scan parameters. The scans deliver a stack of images with isometric voxel sizes. The stacks were combined, which resulted in a 3D volume. The Micro-CT data was collected in February to March 2020, reconstructions were done in spring 2021. The scans were segmented by the use of the software Avizo Amira 2020 (Thermo Fisher Scientific). virtual reconstructions were done in Drishti 2.7.<br> The data was collected in the course of project Polzberg, Polzberg – eine Konservat-Lagerstätte von Weltruf im Herzen Niederösterreichs, financially supported by the Austrian Academy of Scieneces (ÖAW) and the Federal Government of Lower Austria.</p>
Research data supporting "Raman spectroscopic imaging for quantification of depth-dependent and local heterogeneities in native and engineered cartilage"
<p>Research data supporting the publication: Albro M. et al., 2018, npj Regenerative Medicine, DOI: https://doi.org/10.1038/s41536-018-0042-7.</p>
Quantitative susceptibility mapping of articular cartilage: ex vivo findings at multiple orientations and following different degradation treatments
<p>This dataset contains all the raw source data and MATLAB analysis functions that comprise the study:</p> <p><br> Quantitative susceptibility mapping of articular cartilage: Ex vivo findings at multiple orientations and following different degradation treatments</p> <p>Magnetic Resonance in Medicine | DOI: 10.1002/mrm.27216</p> <p>Nykänen Olli(1*), Rieppo Lassi(2,3), Töyräs Juha(1,4), Kolehmainen Ville(1), Saarakkala Simo(2,3,5), Shmueli Karin(6) and Nissi Mikko Johannes(1)</p> <p>(1) Department of Applied Physics, University of Eastern Finland, POB 1627, FI-70211 Kuopio, Finland<br> (2) Research Unit of Medical Imaging, Physics and Technology, University of Oulu, POB 5000, FI-90014 Oulu, Finland<br> (3) Medical Research Center Oulu, Oulu University Hospital and University of Oulu, Oulu, Finland<br> (4) Diagnostic Imaging Center, Kuopio University Hospital, Kuopio, Finland<br> (5) Department of Diagnostic Radiology, Oulu University Hospital, Oulu, Finland<br> (6) Department of Medical Physics & Biomedical Engineering, University College London(UCL), London, United Kingdom</p> <p><br> *Corresponding author:<br> Olli Nykänen<br> Department of Applied Physics,<br> University of Eastern Finland<br> POB 1627<br> FI-70211, Kuopio, Finland<br> olli.nykanen@uef.fi<br> +358-50-5556357</p> <p><br> Keywords: cartilage, collagen matrix, quantitative susceptibility mapping, MRI, osteoarthritis</p> <p><br> Included folders and files are:<br> - article_figures: all figures published in the manuscript<br> - data: all MRI, histological, and PLM data used in this article<br> - matlab_functions: matlab functions used in data analysis with subfolders:<br> - aedes_plugins: plugins for aedes (http://aedes.uef.fi) for calculation of QS- and T2* maps<br> - fitting_functions: functions for fitting relaxation times or TKD-method for QSM, used by the functions in above folder<br> - miscellaneous_functions: small helper functions for a number of small tasks utilized by the other scripts and functions<br> - ReadMe.txt: this file</p> <p><br> Notes for setting up Aedes correctly for this dataset:<br> Run Aedes -> Tools -> Edit VNMR Defaults:<br> - Return: FT + K-space<br> - DC: off<br> - Zeropadding: off<br> - Sorting & fastread: on<br> - Precision: single<br> - Read_fcn: readvnmr<br> - Orient: no</p> <p>See more info in separate readme files included in each folder.</p> <p><br> (Olli Nykänen, Apr 17, 2018)</p>
Text-fig. 10. Dorsal view of endocranium of a ca. 53 mm Tachyglossus aculeatus. Derivatives of the teniform cartilages blue. con: orbitonasal commissure; tn: tectum nasi. (Modified from Kuhn 1971.) in Cartilago Teniformis And Its Derivatives: Additional Information On The Basic Composition And Evolution Of The Skull
Text-fig. 10. Dorsal view of endocranium of a ca. 53 mm Tachyglossus aculeatus. Derivatives of the teniform cartilages blue. con: orbitonasal commissure; tn: tectum nasi. (Modified from Kuhn 1971.)
Text-fig. 4. Dorsal view of endocranium of a Devonian osteolepiform (Eusthenopteron foordi). Derivatives of the teniform cartilages blue (cf. fig. 7 in Bjerring 2015). ab: anterolateral bar of otico-occipital (Jarvik 1954) which corresponds to the orbitoparietal commissure of the armadillo; rfsa: endoskeleton above the supra-auditive fossa which corresponds to the parietal lamina of the armadillo; tn: tectum nasi; to: tectum orbitae which corresponds to the orbital cartilage and the orbitonasal commissure of the armadillo. in Cartilago Teniformis And Its Derivatives: Additional Information On The Basic Composition And Evolution Of The Skull
Text-fig. 4. Dorsal view of endocranium of a Devonian osteolepiform (Eusthenopteron foordi). Derivatives of the teniform cartilages blue (cf. fig. 7 in Bjerring 2015). ab: anterolateral bar of otico-occipital (Jarvik 1954) which corresponds to the orbitoparietal commissure of the armadillo; rfsa: endoskeleton above the supra-auditive fossa which corresponds to the parietal lamina of the armadillo; tn: tectum nasi; to: tectum orbitae which corresponds to the orbital cartilage and the orbitonasal commissure of the armadillo.
Text-fig. 5. Dorsal view of endocranium of 93 mm human fetus. Derivatives of the teniform cartilages blue. con: orbitonasal commissure; lp: parietal lamina; oc: orbital cartilage; rco: remnants of orbitoparietal commissure. (Modified from Reinbach 1963; cf. Bersch and Reinbach 1970.) in Cartilago Teniformis And Its Derivatives: Additional Information On The Basic Composition And Evolution Of The Skull
Text-fig. 5. Dorsal view of endocranium of 93 mm human fetus. Derivatives of the teniform cartilages blue. con: orbitonasal commissure; lp: parietal lamina; oc: orbital cartilage; rco: remnants of orbitoparietal commissure. (Modified from Reinbach 1963; cf. Bersch and Reinbach 1970.)
Text-fig. 3. Dorsal view of endocranium of armadillo (Dasypus novemcinctus); some dermal allostoses from the right side are included. Derivatives of the teniform cartilage blue. co: orbitoparietal commissure; con: sphenethmoidal (orbitonasal) commissure; ctn: cartilago tecti nasi; lp: parietal lamina; oc: orbital cartilage (ala orbitalis); po: parieto-occipital commissure. (Modified from Reinbach 1952.) in Cartilago Teniformis And Its Derivatives: Additional Information On The Basic Composition And Evolution Of The Skull
Text-fig. 3. Dorsal view of endocranium of armadillo (Dasypus novemcinctus); some dermal allostoses from the right side are included. Derivatives of the teniform cartilage blue. co: orbitoparietal commissure; con: sphenethmoidal (orbitonasal) commissure; ctn: cartilago tecti nasi; lp: parietal lamina; oc: orbital cartilage (ala orbitalis); po: parieto-occipital commissure. (Modified from Reinbach 1952.)
Text-fig. 2. Dorsal view of endocranium of a 31 mm sand lizard (Lacerta agilis). Derivatives of the teniform cartilages blue. cp: cartilago parietectalis (cartilago tecti nasi); cs: sphenethmoidal commissure; tm: taenia marginalis. (Modified from Gaupp 1900.) in Cartilago Teniformis And Its Derivatives: Additional Information On The Basic Composition And Evolution Of The Skull
Text-fig. 2. Dorsal view of endocranium of a 31 mm sand lizard (Lacerta agilis). Derivatives of the teniform cartilages blue. cp: cartilago parietectalis (cartilago tecti nasi); cs: sphenethmoidal commissure; tm: taenia marginalis. (Modified from Gaupp 1900.)
Figure 5 in The ossified Meckel's cartilage and internal groove in Mesozoic mammaliaforms: implications to origin of the definitive mammalian middle ear
Figure 5. (A) The skull of Zhangheotherium (IVPP V7466). 1, Meckelian groove; 2, ossified Meckel's cartilage; 3, a hyoid element. (B) Medial view of the left mandible with partial ossified Meckel's cartilage of Gobiconodon (IVPP V12585).
Figure 1 in The ossified Meckel's cartilage and internal groove in Mesozoic mammaliaforms: implications to origin of the definitive mammalian middle ear
Figure 1. The right mandible and ossified Meckel's cartilage (OMC) of Repenomamus (holotype, IVPP V12549). (A & B) Medial views of the mandible with the OMC being removed in (A); (C) dorsomedial view; (D) ventral view; (E) radiographic image of the mandible; (F) a hyoid element from IVPP V12728. Modified from Wang et al. (2001).
Figure 4 in The ossified Meckel's cartilage and internal groove in Mesozoic mammaliaforms: implications to origin of the definitive mammalian middle ear
Figure 4. Ossified Meckel's cartilages (OMC) of Repenomamus. (A–D) Ventral, lateral, dorsal, and medial views of the OMC in IVPP V12549; (E–H) the same views of the OMC in IVPP V12728.
Biomarker Signatures of Quality for Engineering Nasal Chondrocyte-Derived Cartilage
<p>Data underlying the figures in the publication “Biomarker Signatures of Quality for Engineering Nasal Chondrocyte-Derived Cartilage”, published in <em>Front Bioeng Biotechnol., </em><strong>2020</strong>, 8: 283. (DOI: 10.3389/fbioe.2020.00283).</p> <p>Table of contents:</p> <p><strong>1. biochem_summary</strong>; Biochemistry data and MBS of pellets made from NC and PC mixtures in the titration experiment.</p> <p><strong>2. dirty-clean-biochem</strong>; Biochemistry data and MBS of pellets made from passage 2 cells from dirty/clean biopsies.</p> <p><strong>3. identity_all</strong>; All passage 1 and passage 2 cells of type pure NC and pure PC from the titration and dirty/clean datasets. All PCR data included.</p> <p><strong>4. identity_titration</strong>; Passage 1 and 2 and pellets made from pure NC and PC populations in the titration experiment. All PCR data included. Average (avg) refers to the average of the biologicsl replicates (which are already the average of the experimental replicates of Data 5).</p> <p><strong>5. identity_titration_avg</strong>; Passage 1 and 2 and pellets made from pure NC and PC populations in the titration experiment. All PCR data included. All experimental replicate information is included (which are the average of the technical replicates).</p> <p><strong>6. PCR_cells_summary</strong>; For the purity and potency assays, mixtures of increasing NC to PC cell ratios were created. The PCR data from those mixtures are here for passage 2 and for the pure populations as passage 1.</p> <p><strong>7. PCR_pellet_summary</strong>; For the purity and potency assays, mixtures of increasing NC to PC cell ratios were created. PCR data from engineered pellets are here included.</p> <p><strong>8. PCRdirty-clean</strong>; PCR data of cells obtained from dirty/clean biopsies at passage 0,1, and 2.</p> <p><strong>9. PCRsummary_all</strong>; Combined Data 5, 7, and 8.</p> <p><strong>10. Proliferation_TOT</strong>; Proliferation rates of cells from clean and dirty biopsies. </p>
Research data supporting "Raman spectroscopy reveals new insights into the zonal organization of native and tissue-engineered articular cartilage"
<p>This file contains the raw research data supporting the publication above.</p>
Epiphyseal Cartilage Vascular Architecture at the Distal Humeral Osteochondritis Dissecans Predilection Site in Juvenile Pigs
<p>This dataset contains all the raw source data and MATLAB analysis functions that comprise the study:</p><p> </p><h2><strong>Epiphyseal Cartilage Vascular Architecture at the Distal Humeral Osteochondritis Dissecans Predilection Site in Juvenile Pigs</strong></h2><p> </p><h4>Journal of Orthopaedic Research | DOI: https://doi.org/10.1002/jor.25732</h4><p> </p><p> </p><p><strong>Ferenc Tóth</strong>, Department of Veterinary Clinical Sciences, College of Veterinary Medicine, University of Minnesota</p><p><strong>Mikko J. Nissi</strong>, Department of Technical Physics, University of Eastern Finland </p><p><strong>Alexandra R. Armstrong</strong>, Department of Veterinary Clinical Sciences, College of Veterinary Medicine, University of Minnesota</p><p><strong>Erick O. Buko</strong>, Department of Veterinary Clinical Sciences, College of Veterinary Medicine, University of Minnesota; Center for Magnetic Resonance Research, University of Minnesota </p><p><strong>Casey P. Johnson</strong>, Department of Veterinary Clinical Sciences, College of Veterinary Medicine, University of Minnesota; Center for Magnetic Resonance Research, University of Minnesota</p><p> </p><p> </p><p>Corresponding author (whole study):</p><p>Ferenc Tóth</p><p>The University of Minnesota</p><p>1365 Gortner Ave., St. Paul, MN 55108</p><p>Tel.: 612-624-7727</p><p>Fax.: 612-624-8753</p><p>email: ftoth@umn.edu</p><p> </p><p> </p><p> </p><p>Corresponding author (data set):</p><p>Mikko J. Nissi</p><p>Department of Technical Physics</p><p>University of Eastern Finland</p><p>POB 1627, FI-70211, Kuopio, Finland</p><p>+358-50-5955517</p><p>mikko.nissi@uef.fi</p><p> </p><p> </p><p>Keywords: OCD, MRI, humerus, vasculature, pathogenesis, quantitative susceptibility mapping</p><p> </p><p> </p><p> </p><p>Included folders and files are:</p><p>3-D_visualizations</p><p> - 3D_models: 3-D models of the specimens (Rhinoceros .3dm files)</p><p> - Raw_Animation_files: .png format animation image exports</p><p> - Ready_Animation_videos: .mp4 / .mov supplementary animation movie clips and Blender video edition files</p><p> - Visualizations_w_different_lambda: visualizations of the resulting 3-D models with different MEDI L1 lambda values</p><p> </p><p>Figure_parts</p><p> - Sub-parts of various manuscript figures</p><p> </p><p>Histo_images</p><p> - Collections of histological images of the specimens in a powerpoint file</p><p> </p><p>raw_MRI_data</p><p> - RAW Varian/Agilent MRI data for all specimens</p><p> - Pre-processed data for each specimen:</p><p> - Segmentation masks (epiphyseal cartilage, SOC) and ROI files (for Aedes)</p><p> - QSM data processed as described in the manuscript, using the mask provided (VSHARP + MEDI), using MEDI-toolbox</p><p> - Binary image created from the QSM data via highest-correlating binary threshold</p><p> - 3-D .stl files for</p><p> - AECC (articular-epiphyseal cartilage-complex)</p><p> - SOC (secondary ossification center)</p><p> - vasculature (from the binary-threshold-QSM data)</p><p> </p><p>matlab_functions</p><p> - Collection of matlab functions the analysis script requires</p><p> </p><p>data_processing_script.m: Matlab script for producing data visualizations for most of the manuscript figures </p><p>scan_protocol_by_sample.xls: Excel file listing the primary scan parameters for each specimen</p><p>README.txt: this file</p><p> </p><p> </p><p>(Mikko Nissi, Nov 17, 2023)</p><p> </p><p> </p>
Dynamic deformation calculation of articular cartilage and cells using resonance-driven laser scanning microscopy - Deformable Registration Validation Dataset
<p>This dataset includes the supporting input files, scripts, and output files for validation tests of lsmgridtrack v0.3 applied to resonance scanned images. </p>
An in vivo stable isotope labeling method to investigate individual matrix protein synthesis, ribosomal biogenesis, and chondrocyte proliferation in murine articular cartilage
<p>These experiments have used a stable-isotope method using <em>in vivo</em> deuterium oxide labeling and mass spectrometry to measure protein concentration, protein half-life, cell proliferation, and ribosomal biogenesis in a single sample of murine articular cartilage. We hypothesized that a 60-day labeling period would capture age-related declines in cartilage matrix protein content, protein synthesis rates, and chondrocyte proliferation. Knee cartilage was isolated from 25- and 90-week-old female C57BL/6J mice treated with deuterium oxide for 15, 30, 45 and 60 days. We measured protein abundance and half-lives using high resolution accurate mass spectrometry (HRAM) and d2ome data processing software. </p>
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