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Dendritic Spine Datasets
<p>Datasets used in Argunşah, A.Ö., Erdil, E., Ghani, M.U. et al. An interactive time series image analysis software for dendritic spines. Sci Rep 12, 12405 (2022). <a href="https://doi.org/10.1038/s41598-022-16137-y">https://doi.org/10.1038/s41598-022-16137-y</a></p> <p>5 Datasets of Raw Data</p> <p>Labeled Dataset for Dendritic Feature Detector Training and Testing</p> <p>Trained Network for 9 Classes</p>
Repository of Thoracolumbar Spine Triangulated Meshes
<p><em><strong>Repository of Thoracolumbar Spine Triangulated Meshes:</strong></em></p> <ul> <li>42 stereolithography (stl) files (.stl extension) representing patient-specific thoracolumbar spine triangulated meshes ("<a href="../record/7715658/files/42%20Patient-Specific%20stl%20files.rar?download=1">42 Patient-Specific stl files.rar</a>"), including point coordinates and triangulated mesh connectivity IDs. These stl files are reconstructed using sterEOS software (IRCCS, Milan), thanks to non-operated bi-planar images. Each stl file includes triangulated meshes of vertebras, pelvis, sacrum, and the femoral head. The stl files can be opened by many image viewers, 3D modelling, and CAD programs, like: Microsoft 3D Viewer (windows), and MeshLab (multiplatform). Data can be filtered, visualized, and downloaded using the data visualisation platform (<a href="https://thc.spineview.upf.edu/">https://thc.spineview.upf.edu</a>/).</li> <li>16807 stl files representing the thoracolumbar spine triangulated models ("<a href="../api/files/a36be640-9968-46cc-a0f5-b4aa610dfcfa/stl.part01.rar?versionId=9aa98aa1-9e2d-4638-809e-2358f406de2d">stl.part01.rar</a>" to "<a href="../api/files/a36be640-9968-46cc-a0f5-b4aa610dfcfa/stl.part09.rar?versionId=f9cb0431-4db1-4dd0-9313-6c782c626280">stl.part09.rar</a>"), including point coordinates and triangulated mesh connectivity IDs. These stl files are sampled by combining the first 5 shape modes of the SSM, in which each shape mode is discretized into 7 Standard Deviations (SD): -3, -2, -1, 0, 1, 2, 3. Each stl file includes triangulated meshes of vertebras, pelvis, sacrum, and the femoral head. The stl files can be opened by many image viewers, 3D modelling, and CAD programs, like: Microsoft 3D Viewer (windows), and MeshLab (multiplatform). Data can be filtered, visualized, and downloaded using the data visualisation platform (<a href="https://thc.spineview.upf.edu/">https://thc.spineview.upf.edu</a>/).</li> <li>An excel file "<a href="../records/8108354/files/Descriptive_List.xlsx?download=1">Descriptive_List.xlsx</a>" reporting measured spinopelvic parameters for 42 patient-specific triangulated models, and virtual cohort 16807 triangulated models. Spinopelvic parameters are: Pelvic-Incidence (PI), Pelvic Tilt (PT), Sacral Slope (SS), Lumbar Lordosis (LL), LL-PI, Global Tilt (GT), Relative Pelvic Version (RPV), Relative Lumbar Lordosis (RLL), Lumbar Distribution Index (LDI), Relative Spinopelvic Alignment (RSA), T1 pelvic Angle (TPA), and scoliosis cobb angle. Global Alignment and Proportion (GAP) score is further measured as a complementary assessment. The Excel file has two sheets: sheet1 for 16807 virtual cohort, and sheet2 for 42 patient-specific models. Model ID in the excel file is correspondent to the model's name in both virtual cohort and patient-specific models. Model number in "Descriptive_List.xlsx" is correspondent to the same model number in 42 and 16807 FE input files, respectively (42 FE input files (DOI: <a href="../records/10994164">10.5281/zenodo.10994164</a>), 16807 virtual FE input files (DOI: <a href="https://doi.org/10.5281/zenodo.8107354">10.5281/zenodo.8107354</a>)).</li> </ul> <p>Developed by: Morteza Rasouligandomani (Ph.D. in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: jerome.noailly@upf.edu</p>
Subset Data 1: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 1 to 2700)
<p><em><strong>Subset Data 1: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 1 to 2700)</strong></em></p> <ul> <li>2700 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 38MB.</li> <li>An excel file: "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "<a href="../records/8107354/files/how_to_replace_point_coordinates.mp4?download=1">how_to_replace_point_coordinates.mp4</a>". It shows how you can replace point coordinates here to the mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: <a href="https://doi.org/10.5281/zenodo.8108354">10.5281/zenodo.8108354</a>; <a href="../records/8108354/files/stl.part01.rar?download=1">stl.part01.rar</a> to <a href="../records/8108354/files/stl.part09.rar?download=1">stl.part09.rar</a>).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: jerome.noailly@upf.edu</p>
Subset Data 2: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 2701 to 5400)
<p><em><strong>Subset Data 2: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 2701 to 5400)</strong></em></p> <ul> <li>2700 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 38MB.</li> <li>An excel file: "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "<a href="../records/8107354/files/how_to_replace_point_coordinates.mp4?download=1">how_to_replace_point_coordinates.mp4</a>". It shows how you can replace point coordinates here to the mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: <a href="https://doi.org/10.5281/zenodo.8108354">10.5281/zenodo.8108354</a>; <a href="../records/8108354/files/stl.part01.rar?download=1">stl.part01.rar</a> to <a href="../records/8108354/files/stl.part09.rar?download=1">stl.part09.rar</a>).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: jerome.noailly@upf.edu</p>
Subset Data 6: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 13501 to 16200)
<p><em><strong>Subset Data 6: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 13501 to 16200)</strong></em></p> <ul> <li>2700 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 38MB.</li> <li>An excel file: "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "<a href="../records/8107354/files/how_to_replace_point_coordinates.mp4?download=1">how_to_replace_point_coordinates.mp4</a>". It shows how you can replace point coordinates here to the mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: <a href="https://doi.org/10.5281/zenodo.8108354">10.5281/zenodo.8108354</a>; <a href="../records/8108354/files/stl.part01.rar?download=1">stl.part01.rar</a> to <a href="../records/8108354/files/stl.part09.rar?download=1">stl.part09.rar</a>).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: jerome.noailly@upf.edu</p>
Subset Data 4: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 8101 to 10800)
<p><em><strong>Subset Data 4: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 8101 to 10800)</strong></em></p> <ul> <li>2700 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 38MB.</li> <li>An excel file: "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "<a href="../records/8107354/files/how_to_replace_point_coordinates.mp4?download=1">how_to_replace_point_coordinates.mp4</a>". It shows how you can replace point coordinates here to the mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: <a href="https://doi.org/10.5281/zenodo.8108354">10.5281/zenodo.8108354</a>; <a href="../records/8108354/files/stl.part01.rar?download=1">stl.part01.rar</a> to <a href="../records/8108354/files/stl.part09.rar?download=1">stl.part09.rar</a>).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: jerome.noailly@upf.edu</p>
Subset Data 5: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 10801 to 13500)
<p><em><strong>Subset Data 5: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 10801 to 13500)</strong></em></p> <ul> <li>2700 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 38MB.</li> <li>An excel file: "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "<a href="../records/8107354/files/how_to_replace_point_coordinates.mp4?download=1">how_to_replace_point_coordinates.mp4</a>". It shows how you can replace point coordinates here to the mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: <a href="https://doi.org/10.5281/zenodo.8108354">10.5281/zenodo.8108354</a>; <a href="../records/8108354/files/stl.part01.rar?download=1">stl.part01.rar</a> to <a href="../records/8108354/files/stl.part09.rar?download=1">stl.part09.rar</a>).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: jerome.noailly@upf.edu</p>
Subset Data 3: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 5401 to 8100)
<p><em><strong>Subset Data 3: 2700 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 5401 to 8100)</strong></em></p> <ul> <li>2700 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 38MB.</li> <li>An excel file: "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "<a href="../records/8107354/files/how_to_replace_point_coordinates.mp4?download=1">how_to_replace_point_coordinates.mp4</a>". It shows how you can replace point coordinates here to the mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: <a href="https://doi.org/10.5281/zenodo.8108354">10.5281/zenodo.8108354</a>; <a href="../records/8108354/files/stl.part01.rar?download=1">stl.part01.rar</a> to <a href="../records/8108354/files/stl.part09.rar?download=1">stl.part09.rar</a>).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: jerome.noailly@upf.edu</p>
Subset Data 7: 607 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 16201 to 16807)
<p><em><strong>Subset Data 7: 607 Thoracolumbar Osteo-Ligamentous Spine Virtual FE Meshes (Models 16201 to 16807)</strong></em></p> <ul> <li>607 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 38MB.</li> <li>An excel file: "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "<a href="../records/8107354/files/how_to_replace_point_coordinates.mp4?download=1">how_to_replace_point_coordinates.mp4</a>". It shows how you can replace point coordinates here to the mean FE input file "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="../api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: <a href="https://doi.org/10.5281/zenodo.8108354">10.5281/zenodo.8108354</a>; <a href="../records/8108354/files/stl.part01.rar?download=1">stl.part01.rar</a> to <a href="../records/8108354/files/stl.part09.rar?download=1">stl.part09.rar</a>).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: jerome.noailly@upf.edu</p>
Repository of Thoracolumbar Osteo-Ligamentous Spine Patient-Personalised FE Meshes
<p><em><strong>Repository of Thoracolumbar Osteo-Ligamentous Spine Patient-Personalised FE Meshes:</strong></em></p> <ul> <li>42 FE input files (.inp extension, Abaqus software, Simulia) representing patient-personalised thoracolumbar spine hexahedral meshes, including point coordinates, mesh connectivity IDs and element sets. Each input file is almost 99MB (totally 3.86GB), and it includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments.</li> <li>An excel file: "<a href="../records/10994164/files/Descriptive_List%20(42_P-S_FE_Models).xlsx?download=1">Descriptive_List (42_P-S_FE_Models).xlsx</a>" reporting measured spinopelvic parameters for 42 patient-personalised FE hexahedral meshes. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort and patient-personalised FE meshes. Model ID in the excel file is correspondent to the model’s name.</li> <li>One png file: "<a href="../records/10994164/files/42_P-S.png?download=1">42_P-S.png</a>" representing the first 10 patient-personalised thoracolumbar spine hexahedral models out of 42 FE models.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="../records/10994164/files/Descriptive_List%20(42_P-S_FE_Models).xlsx?download=1">Descriptive_List (42_P-S_FE_Models).xlsx</a>" is correspondent to the same model number in the 42 stereolithography (stl) files (.stl extension) representing the thoracolumbar spine triangulated meshes (DOI: <a href="https://doi.org/10.5281/zenodo.8108354">10.5281/zenodo.8108354</a>; <a href="../records/8108354/files/42%20Patient-Specific%20stl%20files.rar?download=1">42 Patient-Specific stl files.rar</a>).</p> <p>2-Models are reconstructed thanks to the Statistical Shape Modelling (SSM) and mesh morphing techniques, i.e., spine sagittal geometrical parameters could be measured by a clinical software like sterEOS or Surgimap, then, different shape modes of morphed-mesh SSM tool could be activated in order to obtain spine deformity. Then, pros and cons analyses between patient geometrical data and synthesized geometrical information could exploit FE patient-personalised thoracolumbar osteo-ligamentous spine models.</p> <p>3- FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: jerome.noailly@upf.edu</p>
Correlative microscopy of mice cerebellar Purkinje cells from 20x confocal tissue imaging to super-resolution 93x 3D STED of dendritic spines
<p>This Dataset concerns the paper entitled "<em>From tissues to segmentation: a modular framework for multi-scale neuron isolation</em>" by Cauzzo et al. <strong>Nature Comm (2024).</strong></p> <p>S.Cauzzo<sup>$</sup>, E. Bruno, D. Boulet, P. Nazac, M. Basile, A. L. Callara, F. Tozzi, A. Ahluwalia, C. Magliaro, L. Danglot<sup>$</sup><sup>*</sup>, N. Vanello<sup>$</sup><sup>*</sup> *shared senior authorship: Lydia.danglot@inserm.fr ; nicola.vanello@unipi.it</p> <p><sup>$</sup> corresponding authors : cauzzo.simone@gmail.com ; Lydia.danglot@inserm.fr ; nicola.vanello@unipi.it</p> <p> </p>
parametric CAD model of the lumbar spine
<p>7Tepe Parametric Lumbar Spine Model</p> <p>Tweaking parameters of associative CAD models offer interesting pathways for the application of artificial intelligence methods, such as optimization by genetic algorithms and neural networks.</p> <p>Construction of a robust lumbar verteral assembly requires a holistic design approach. The concept of using a layout-sketch as the core of a cad model is becoming more popular due to its top-down design philosophy. However, there remains local issues such as the contact properties at the transverse facet joints, which cannot be taken care of alone by the top-down approach. Inverting the perspective to a bottom-up approach and observing some of the intricate geometrical features of for example the laminae leads to a model that can simply be represented by a relatively scarce number of parameters, yet capturing the physiological aspect of the organ in quite an accurate way.</p> <p>For those who are interested in what our 7Tepe Parametric Lumbar Spine Model version 0.1 currently looks like, just download the source in Parasolid format (x_t extension) and import it to your favorite CAD system. Currently, we have not shared our source CAD file belonging to proprietary software products, but we intend to do so in the near future.</p> <p>Designed by Ogulcan in proprietary solid modeling software.</p>
16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-9: model 8288 to 9288)
<p><em><strong>16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-9: model 8288 to 9288)</strong></em></p> <ul> <li>16807 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files for any of the 16807 models, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 39MB.</li> <li>An excel file: "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for 16807 virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "how_to_replace_point_coordinates.mp4". It shows how you can replace point coordinates here to the mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: 10.5281/zenodo.7715658; stl.part01.rar to stl.part09.rar).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. student in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: morteza.rasouli@upf.edu</p>
16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-10: model 9289 to 10289)
<p><em><strong>16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-10: model 9289 to 10289)</strong></em></p> <ul> <li>16807 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files for any of the 16807 models, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 39MB.</li> <li>An excel file: "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for 16807 virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "how_to_replace_point_coordinates.mp4". It shows how you can replace point coordinates here to the mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: 10.5281/zenodo.7715658; stl.part01.rar to stl.part09.rar).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. student in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: morteza.rasouli@upf.edu</p>
16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-17: model 16296 to 16807)
<p><em><strong>16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-17: model 16296 to 16807)</strong></em></p> <ul> <li>16807 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files for any of the 16807 models, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 39MB.</li> <li>An excel file: "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for 16807 virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "how_to_replace_point_coordinates.mp4". It shows how you can replace point coordinates here to the mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: 10.5281/zenodo.7715658; stl.part01.rar to stl.part09.rar).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. student in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: morteza.rasouli@upf.edu</p>
16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-11: model 10290 to 11290)
<p><em><strong>16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-11: model 10290 to 11290)</strong></em></p> <ul> <li>16807 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files for any of the 16807 models, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 39MB.</li> <li>An excel file: "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for 16807 virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "how_to_replace_point_coordinates.mp4". It shows how you can replace point coordinates here to the mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: 10.5281/zenodo.7715658; stl.part01.rar to stl.part09.rar).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. student in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: morteza.rasouli@upf.edu</p>
16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-12: model 11291 to 12291)
<p><em><strong>16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-12: model 11291 to 12291)</strong></em></p> <ul> <li>16807 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files for any of the 16807 models, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 39MB.</li> <li>An excel file: "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for 16807 virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "how_to_replace_point_coordinates.mp4". It shows how you can replace point coordinates here to the mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: 10.5281/zenodo.7715658; stl.part01.rar to stl.part09.rar).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. student in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: morteza.rasouli@upf.edu</p>
16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-8: model 7287 to 8287)
<p><em><strong>16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-8: model 7287 to 8287)</strong></em></p> <ul> <li>16807 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files for any of the 16807 models, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 39MB.</li> <li>An excel file: "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for 16807 virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "how_to_replace_point_coordinates.mp4". It shows how you can replace point coordinates here to the mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: 10.5281/zenodo.7715658; stl.part01.rar to stl.part09.rar).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. student in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: morteza.rasouli@upf.edu</p>
16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-15: model 14294 to 15294)
<p><em><strong>16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-15: model 14294 to 15294)</strong></em></p> <ul> <li>16807 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files for any of the 16807 models, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 39MB.</li> <li>An excel file: "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for 16807 virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "how_to_replace_point_coordinates.mp4". It shows how you can replace point coordinates here to the mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: 10.5281/zenodo.7715658; stl.part01.rar to stl.part09.rar).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. student in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: morteza.rasouli@upf.edu</p>
16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-13: model 12292 to 13292)
<p><em><strong>16807 thoracolumbar osteo-ligamentous spine virtual FE input files (part-13: model 12292 to 13292)</strong></em></p> <ul> <li>16807 FE input files representing thoracolumbar spine hexahedral models, including point coordinates. To reduce the size of shared virtual finite element (FE) models, only point coordinates are shared here. The mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" is also shared, which includes point coordinates, mesh connectivity IDs, and element sets. To generate virtual FE input files for any of the 16807 models, the corresponding shared point coordinates can be replaced into the mean FE input file (<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>). Mesh connectivity IDs, and element sets are the same in all of FE input files. Mean FE input file includes vertebras and IVDs hexahedral meshes; pelvis, sacrum, and the femoral head triangulated meshes; and ligaments. Each point coordinate file is almost 39MB.</li> <li>An excel file: "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" reporting measured spinopelvic parameters for 16807 virtual FE hexahedral models. The Excel file includes measured spinopelvic parameters (PI, PT, SS, LL, LL-PI, GT, RPV, RLL, LDI, RSA, TPA, and scoliosis cobb angle), GAP and IVD centric thickness for FE virtual cohort. Model ID in the excel file is correspondent to the model’s name.</li> <li>One video file: "how_to_replace_point_coordinates.mp4". It shows how you can replace point coordinates here to the mean FE input file "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Mean_Model%20%28Template%29.inp">Mean_Model (Template).inp</a>" in order to generate specific FE input file.</li> </ul> <p><em><strong>Notes:</strong></em></p> <p>1- Model number in "<a href="https://zenodo.org/api/files/bdc067d7-cb7d-40b7-9974-5ada43e1a0c5/Descriptive_List%20%2816807_FE_virtual_models%29.xlsx">Descriptive_List (16807_FE_virtual_models).xlsx</a>" is correspondent to the same model number in the 16807 stereolithography (stl) files (.stl extension) representing the virtual thoracolumbar spine triangulated meshes (DOI: 10.5281/zenodo.7715658; stl.part01.rar to stl.part09.rar).</p> <p>2-These point coordinates are sampled by combining the first 5 shape modes of the morphed-mesh statistical shape model in which each shape mode is discretized into 7 standard deviations: -3, -2, -1, 0, 1, 2, 3.</p> <p>3- Generated FE inp files can be opened by Abaqus 2019 and later. Any other FE software which supports .inp extension also can open the files.</p> <p><em><strong>Developed by: </strong></em>Morteza Rasouligandomani (Ph.D. student in biomedical engineering, Pompeu Fabra university, BCN Med-Tech group, DTIC department, Barcelona, Spain).</p> <p>Email contact: morteza.rasouli@upf.edu</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.