| Literature DB >> 31471536 |
Jaakko K Sarin1,2, Jari Torniainen3,4, Mithilesh Prakash5,6,7, Lassi Rieppo8, Isaac O Afara5, Juha Töyräs5,6,9.
Abstract
Near infrared (NIR) spectroscopy is a well-established technique that is widely employed in agriculture, chemometrics, and pharmaceutical engineering. Recently, the technique has shown potential in clinical orthopaedic applications, for example, assisting in the diagnosis of various knee-related diseases (e.g., osteoarthritis) and their pathologies. NIR spectroscopy (NIRS) could be especially useful for determining the integrity and condition of articular cartilage, as the current arthroscopic diagnostics is subjective and unreliable. In this work, we present an extensive dataset of NIRS measurements for evaluating the condition, mechanical properties, structure, and composition of equine articular cartilage. The dataset contains NIRS measurements from 869 different locations across the articular surfaces of five equine fetlock joints. A comprehensive library of reference values for each measurement location is also provided, including results from a mechanical indentation testing, digital densitometry imaging, polarized light microscopy, and Fourier transform infrared spectroscopy. The published data can either be used as a model of human cartilage or to advance equine veterinary research.Entities:
Mesh:
Year: 2019 PMID: 31471536 PMCID: PMC6717194 DOI: 10.1038/s41597-019-0170-y
Source DB: PubMed Journal: Sci Data ISSN: 2052-4463 Impact factor: 6.444
Fig. 1The measurement workflow of the samples. (a) Anatomical location of the fetlock joint. (b) An example of areas of interest. (c) Near infrared spectroscopic measurement. (d) Determination of cartilage thickness using optical coherence tomography. (e) Material testing setup for conducting the biomechanical indentation tests. (f) An example histological section of equine cartilage and subchondral bone.
Fig. 2All areas of interest (AI) and associated measurement points with their evaluated cartilage condition (according to ICRS grade scored from optical coherence tomography images)[17]. The locations and size of the AIs are demonstrated on the proximal phalange and metacarpal surfaces of joint 1.
Summary of the measurement techniques employed, and corresponding data collected.
| Technique | Measurement locations | Data |
|---|---|---|
| Near infrared spectroscopy | 869 | Absorption spectra (λ = 700 nm–1150 nm) with 3 repetitions per measurement location |
| Optical coherence tomography | 869 | Cartilage and calcified cartilage thickness |
| Biomechanics (indentation) | 1st protocol, 869 | Raw signals (time, location, and load) and calculated parameter: instantaneous modulus |
| 2nd protocol, 202 | Raw signals (time, location, and load) and parameters: equilibrium and dynamic moduli | |
| Digital densitometry | 530 | Depth-wise optical density profile (average of three histological sections) |
| Polarized light microscopy | 530 | Depth-wise collagen orientation and retardance profiles (average of three histological sections) |
| Fourier transform infrared microspectroscopy | 530 | Depth-wise proteoglycan and amide profiles (one histological section) |
Fig. 3Visualization and technical validation of acquired data. (a) All NIR spectra. The thick red line represents the average spectrum. (b) Average stress-relaxation curves of cartilage samples. The shaded region corresponds to the standard deviation of stress-values. (c) Average stress-strain behaviour per testing frequency in dynamic mechanical testing. Shaded region illustrates the phase difference between stress and strain. (d) Averaged depth-wise profiles for collagen network orientation (PLM), retardance (PLM), and content (FTIR) as well as proteoglycan content (FTIR) and fixed charge density (DD). Shaded regions represent the standard deviation.
List of variables contained in nirs_and_references.mat.
| Variable name | Type | Unit | Description |
|---|---|---|---|
| plm_retardance_profile | vector | nm | PLM retardance profile as a function of cartilage depth. |
| plm_orientation profile | vector | deg. | PLM profile as a function of cartilage depth. |
| ftir_proteoglycan_profile | vector | A.U. | FTIR proteoglycan content profile as a function of cartilage depth. |
| ftir_collagen_profile | vector | A.U. | FTIR collagen content profile as a function of cartilage depth. |
| dd_profile | vector | O.D. | Depth-wise DD profile of the cartilage cross-section. |
| dd_average_surface | scalar | O.D. | Average DD value in superficial cartilage. |
| dd_average_deep | scalar | O.D. | Average DD value in deep cartilage. |
| plm_average_surface | scalar | deg. | Average PLM value in superficial cartilage. |
| plm_average_deep | scalar | deg. | Average PLM value in deep cartilage. |
| ftir_collagen_average_surface | scalar | A.U. | Average collagen content in superficial cartilage (computed from FTIR). |
| ftir_collagen_average_deep | scalar | A.U. | Average collagen content in deep cartilage (computed from FTIR). |
| ftir_proteoglycan_average_surface | scalar | A.U. | Average proteoglycan content in superficial cartilage (computed from FTIR). |
| ftir_proteoglycan_average_deep | scalar | A.U. | Average proteoglycan content in deep cartilage (computed from FTIR). |
| ftir_collagen_2d | matrix | A.U. | 2D cross-section FTIR matrix of collagen content (width x depth) |
| ftir_proteoglycan_2d | matrix | A.U. | 2D cross-section FTIR matrix of proteoglycan content (width x depth) |
| wavelength | vector | nm | Wavelength vector of the NIR spectra. |
| sample_id | string | - | Unique identifier string for this measurement. |
| joint_id | integer | - | Identifier of the fetlock joint. |
| area_of_interest_id | string | - | Identifier for the area of interest. |
| measurement_point_id | integer | - | Identifier for the measurement point inside area of interest. |
| bone_type | string | - | Type of bone surface (metacarpal or proximal phalanx) |
| raw_spectra | matrix | A.U. | Matrix containing three NIR spectra measured from this location. |
| cartilage_thickness | scalar | mm | Thickness of the articular cartilage layer. |
| calcified_layer_thickness | scalar | mm | Cartilage thickness including calcified layer. |
| indenter_diameter | scalar | mm | Diameter of the indenter used for mechanical testing. |
| instantaneous_modulus | scalar | MPa | Value of cartilage instantaneous modulus. |
| equilibrium_modulus | scalar | MPa | Value of cartilage equilibrium modulus. |
| dynamic_modulus_at_01 hz | scalar | MPa | Value of cartilage dynamic modulus at 0.1 Hz loading. |
| dynamic_modulus_at_025 hz | scalar | MPa | Value of cartilage dynamic modulus at 0.25 Hz loading. |
| dynamic_modulus_at_05 hz | scalar | MPa | Value of cartilage dynamic modulus at 0.5 Hz loading. |
| dynamic_modulus_at_0625hz | scalar | MPa | Value of cartilage dynamic modulus at 0.625 Hz loading. |
| dynamic_modulus_at_0833 hz | scalar | MPa | Value of cartilage dynamic modulus at 0.833 Hz loading. |
| dynamic_modulus_at_1 hz | scalar | MPa | Value of cartilage dynamic modulus at 1 Hz loading. |
| dynamic_modulus_at_2 hz | scalar | MPa | Value of cartilage dynamic modulus at 2 Hz loading. |
| Design Type(s) | biomechanics data analysis objective • methodology testing objective |
| Measurement Type(s) | cartilage • biomechanical data • histology |
| Technology Type(s) | near-infrared spectroscopy • biomechanical data analysis |
| Factor Type(s) | Region_Of_Interest • Biospecimen • metacarpophalangeal joint |
| Sample Characteristic(s) | Equus • metacarpophalangeal joint |