1. Home
  2. Data Publication
Data from: Field-based adipose tissue quantification using bioelectrical impedance spectroscopy validated with CT scans and deep learning

Dataset used in the manuscript "Field-based adipose tissue quantification using bioelectrical impedance spectroscopy validated with CT scans and deep learning"

Software/equipment used to create/collect the data: (a) Bioelectrical impedance measurements: Bioelectrical impedance measurements were performed using a BIS device (SFB7, Impedimed, Brisbane, QLD, Australia), that measures resistance and reactance to an applied harmless, alternating electric current at 256 logarithmically-spaced frequencies in the range of 3-1000 kHz. Device calibration was verified daily. The extracted data of interest were resistance at infinite frequency (Rinf, predictor of total body water and FFM); resistance at zero frequency (R0, predictor of extracellular water); intracellular resistance (Ri, an index of intracellular water); and, for comparison with studies using single-frequency (50 kHz) impedance devices, resistance at 50 kHz (R50); reactance at 50 kHz (Xc50) and phase angle at 50 kHz (PhA50).

(b) Computed tomography scans: Volumetric data of total body scans were acquired in helical scan mode, with 1.25 mm slice thickness and spacing between slices set at 0.625 mm (Optima CT660 16 slice scanner, GE Medical Systems, Milwaukee, WI USA; and Aquilion Lightning 160, Canon, Tokyo, Japan). The typical number of CT slices per animal was around 1,600. In this study, the total number of slices was approximately 80,000, and approximately 50,000 CT slices were used in the final calculations.

Software/equipment used to manipulate/analyse the data: (a) Adipose tissue identification: Adipose tissue Hounsfield units (HU) (i.e., attenuation ranges) were identified by three-dimensional rendering using a commercially available, validated software for DICOM (Digital Imaging and Communications in Medicine) visualisation and body composition analysis (NovaPACS, NovaradTM, American Fork, USA), following the methods described in Gibby et al. (2017) and DePersio et al. (2019).

(b) Adipose tissue quantification: An open-sourced machine learning framework (PyTorch) was used for implementing the U-Net (Paszke et al., 2019), and was adapted from Yakubovskiy (2020).
- Start
    Data Record Details
    Data record related to this publication Data from: Field-based adipose tissue quantification using bioelectrical impedance spectroscopy validated with CT scans and deep learning
    Data Publication title Data from: Field-based adipose tissue quantification using bioelectrical impedance spectroscopy validated with CT scans and deep learning
  • Description

    Dataset used in the manuscript "Field-based adipose tissue quantification using bioelectrical impedance spectroscopy validated with CT scans and deep learning"

    Software/equipment used to create/collect the data: (a) Bioelectrical impedance measurements: Bioelectrical impedance measurements were performed using a BIS device (SFB7, Impedimed, Brisbane, QLD, Australia), that measures resistance and reactance to an applied harmless, alternating electric current at 256 logarithmically-spaced frequencies in the range of 3-1000 kHz. Device calibration was verified daily. The extracted data of interest were resistance at infinite frequency (Rinf, predictor of total body water and FFM); resistance at zero frequency (R0, predictor of extracellular water); intracellular resistance (Ri, an index of intracellular water); and, for comparison with studies using single-frequency (50 kHz) impedance devices, resistance at 50 kHz (R50); reactance at 50 kHz (Xc50) and phase angle at 50 kHz (PhA50).

    (b) Computed tomography scans: Volumetric data of total body scans were acquired in helical scan mode, with 1.25 mm slice thickness and spacing between slices set at 0.625 mm (Optima CT660 16 slice scanner, GE Medical Systems, Milwaukee, WI USA; and Aquilion Lightning 160, Canon, Tokyo, Japan). The typical number of CT slices per animal was around 1,600. In this study, the total number of slices was approximately 80,000, and approximately 50,000 CT slices were used in the final calculations.

    Software/equipment used to manipulate/analyse the data: (a) Adipose tissue identification: Adipose tissue Hounsfield units (HU) (i.e., attenuation ranges) were identified by three-dimensional rendering using a commercially available, validated software for DICOM (Digital Imaging and Communications in Medicine) visualisation and body composition analysis (NovaPACS, NovaradTM, American Fork, USA), following the methods described in Gibby et al. (2017) and DePersio et al. (2019).

    (b) Adipose tissue quantification: An open-sourced machine learning framework (PyTorch) was used for implementing the U-Net (Paszke et al., 2019), and was adapted from Yakubovskiy (2020).

    •
  • Other Descriptors
    • Descriptor
      This dataset is available as a datasheet saved in MS Excel (.xlsx), comma-separated values (.csv) and OpenDocument (.ods) formats. An MP4 video is also available and provides a detailed overview of the study.
      •
      Descriptor type Note
    • Data type dataset
  • Keywords
    • nutritional status
    • body composition
    • adipose tissue
    • impedance
    • sea turtle
    • computed tomography
    • deep learning
    • Bland-Altman
  • Funding source
    • Assessment of health status in sea turtle populations by bioelectrical impedance analysis method
  • Research grant(s)/Scheme name(s)
    • - SWR/6/2019
    • Research themes
    Tropical Ecosystems, Conservation and Climate Change
    FoR Codes (*)
    SEO Codes
- Specify coverage
    Specify spatial or temporal setting of the data
    Temporal (time) coverage
  • Start Date
  • End Date
    • Time Period
    Spatial (location) coverage
  • Locations
    • Great Bay
- Data
- Related resources
  • Related publications
      Name Field-based adipose tissue quantification in sea turtles using bioelectrical impedance spectroscopy validated with CT scans and deep learning
    • URL https://doi.org/10.1002/ece3.9610
    • Notes Open Access
  • Related websites
      Name
    • URL
    • Notes
  • Related metadata (including standards, codebooks, vocabularies, thesauri, ontologies)
      Name
    • URL
    • Notes
  • Related data
      Name
    • URL
    • Notes
  • Related services
      Name
    • URL
    • Notes
- License
- Citation
    Citation Kophamel, Sara; Munns, Suzanne; Ward, Leigh; Konovalov, Dimitry; Mendez, Diana; Ariel, Ellen; Cassidy, Nathan; Bell, Ian; Balastegui, Maria Teresa (2022): Data from: Field-based adipose tissue quantification using bioelectrical impedance spectroscopy validated with CT scans and deep learning. James Cook University. https://doi.org/10.25903/gzf1-8e56