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Published March 23, 2023 | Version v1
Journal article Restricted

Micro to macro scale analysis of the intact human renal arterial tree with Synchrotron Tomography

Creators

  • 1. Department of Mechanical Engineering, University College London, London, UK, WC1E 6BT
  • 2. Developmental Biology and Cancer Research & Teaching Department, UCL Great Ormond Street Institute of Child Health, University College London, London, UK, WC1N 1EH
  • 3. European Synchrotron Radiation Facility, Grenoble, France, 38043
  • 4. Satsuma Lab, Centre for Medical Image Computing, UCL, London, UK6Lungs for Living Research Centre, UCL, London, UK
  • 5. Department of Anatomy (LADAF), Grenoble Alpes University, Grenoble, France, 38058
  • 6. Institute of Anatomy, University Medical Center of the Johannes Gutenberg University Mainz, Mainz, Germany
  • 7. Institute of Pathology, RWTH Aachen Medical University, Aachen, Germany

Description

The information are related to the quantified morphological parameters of the arterial network of a human kidney, which was scanned using Hierarchical phase-contrast tomography (HiP-CT) at the European Synchrotron Radiation Facility (ESRF) with a voxel resolution of 25 micrometers (https://mecheng.ucl.ac.uk/hip-ct/). To obtain access to the raw image data, please refer to the Human Organ Atlas website at following link: https://human-organ-atlas.esrf.eu/

Code folder: This folder contains Python and MATLAB files for calculating morphological parameters of the renal arterial network, including topological and Strahler generations, branching angle, colored Strahler generation representation, Murray's law, and radius correction for collapsed vessels.

Data_and_Calculated_parameters folder: The folder contains Excel files, network labels, and the network spatial graph. The Excel files contain skeletonized data on the renal arterial network in the human kidney, including information such as segments, nodes, node coordinates, and points. An additional Excel file contains various calculated parameters such as branching angle, radius vs. Strahler generation, radius over length vs. Strahler generation, tortuosity, Strahler and topological generations, and branching ratio.

Notes

The authors would like to express their gratitude for the financial support provided by the Chan Zuckerberg Initiative DAF (2020-225394), an advised fund of SVCF, the MRC (MR/R025673/1), and ESRF beamtimes (md1252 & md1290). P.D.L. is supported by a Royal Academy of Engineering Chair in Emerging Technologies (CiET1819/10). D.J.J. is supported by a Foulkes Foundation Postdoctoral Fellowship. D.A.L. is supported by a Wellcome Trust Investigator Award (220895/Z/20/Z) and by the National Institute for Health Research (NIHR) Biomedical Research Centre at Great Ormond Street Hospital for Children NHS Foundation Trust and University College London. This research was funded in part by the Wellcome Trust [209553/Z/17/Z]. M.A. is supported by the National Institutes of Health (NIH) (HL94567 and HL134229). For the purpose of open access, the author has applied a CC-BY public copyright licence to any author accepted manuscript version arising from this submission. JJ, was also supported by the NIHR UCLH Biomedical Research Centre, UK.

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Additional details

Funding

Imaging dynamics in biophysical/biochemical processes across the hierarchical scales (BioPro Network) MR/R025673/1
UK Research and Innovation