Dataset Open Access

Virtual cohort of 1000 synthetic heart meshes from adult human healthy population

Rodero, Cristobal; Strocchi, Marina; Marciniak, Maciej; Longobardi, Stefano; Whitaker, John; O'Neill, Mark D.; Gillette, Karli; Augustin, Christoph; Plank, Gernot; Vigmond, Edward J.; Lamata, Pablo; NIederer, Steven

Dataset Description: We present a database of four-chamber heart models derived from a statistical shape model (SSM) suitable for electro-mechanical (EM) simulations. Our database consists of 1000 four-chamber heart models generated from end-diastolic CT-derived meshes (available in the repository called ("Virtual cohort of adult healthy four-chamber heart meshes from CT images"). These meshes were used for EM simulations. The weights of the SSM are also provided.

Cardiac meshes: To build the SSM, we rigidly aligned the CT cohort and extracted the surfaces, representing them asdeRham currents. The registration between meshes and computation of the average shape was done using a Large Deformation Diffeomorphic Metric Mapping method. The deformation functions depend on a set of uniformly distributed control points in which the shapes are embedded, and on the deformation vectors attached to these points. It is in this spatial field of deformation vectors (one per each control point) where the Principal Component Analysis (PCA) is applied. Case #20 of the CT cohort was not included. More information on the details can be found in Supplement 3 of the reference paper. We created this cohort by modifying the weight of the modes explaining 90%of the variance in shape (corresponding to modes 1 to 9) within 2 standard deviations (SD) of each mode added to the average mesh. The elements of all the meshes are labelled as follows:

  1. Left ventricle myocardium
  2. Right ventricle myocardium
  3. Left atrium myocardium
  4. Right atrium myocardium
  5. Aorta wall
  6. Pulmonary artery wall
  7. Mitral valve plane
  8. Tricuspid valve plane
  9. Aortic valve plane
  10. Pulmonary valve plane
  11. Left atrium appendage "inlet"
  12. Left superior pulmonary vein inlet
  13. Left inferior pulmonary vein inlet
  14. Right inferior pulmonary vein inlet
  15. Right superior pulmonary vein inlet
  16. Superior vena cava inlet
  17. Inferior vena cava inlet
  18. Left atrial appendage border
  19. Right inferior pulmonary vein border
  20. Left inferior pulmonary vein border
  21. Left superior pulmonary vein border
  22. Right superior pulmonary vein border
  23. Superior vena cava border
  24. Inferior vena cava border

Each zipped folder contains 25 meshes and the weights of modes used to construct them for each mesh, A VTK file for each mesh  (in ASCII) contains an UNSTRUCTURED GRID with the following fields:

  • POINTS, with the coordinates of the points in mm.
  • CELL_TYPES, having all of the points the value 10 since they are tetrahedra.
  • CELLS, with the indices of the vertices of every element.
  • CELL_DATA, corresponding to the meshing tags.

In addition, three descriptive files are included:

  • Normalized_explained_variance.csv contains the percentages of variance explained by each of the 18 modes generated from PCA.
  • Mode_standard_deviation.csv contains absolute standard deviations of each of the 18 modes.
  • Eigenvectors.csv contains the directions of maximum shape variability within the shape population.
GP received support from the Austrian Science Fund (FWF) (https://fwf.ac.at/en/); grant number PI2760-B30. PL is supported by BHF [PG/16/75/32383]. SAN is supported by NIH R01-HL152256, ERC PREDICT-HF 453 (864055) and BHF (RG/20/4/34803).
Files (27.5 GB)
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Eigenvectors.csv
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Final_models_01.zip
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Final_models_02.zip
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Final_models_08.zip
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Final_models_09.zip
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Final_models_10.zip
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Final_models_18.zip
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Final_models_20.zip
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Final_models_25.zip
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Final_models_35.zip
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Final_models_36.zip
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Final_models_37.zip
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Final_models_38.zip
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Final_models_39.zip
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Final_models_40.zip
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Mode_standard_deviations.csv
md5:66b74f97add4b45159ca9e12a7a6542c
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Normalized_explained_variance.csv
md5:345ca500e4c7b9fe89fa34209961bfd5
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  • Rodero et al. (2021), "Linking statistical shape models and simulated function in the healthy adult human heart". DOI: 10.1371/journal.pcbi.1008851

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