Normalized CT images and reference segmentations of thoracic and lumbar vertebrae from the CSI 2014 workshop

<p>This is the dataset of the vertebra segmentation challenge of the <a href="http://csi-workshop.weebly.com/challenges.html">CSI 2014 workshop</a> that was held in conjunction with MICCAI 2014.</p> <ul> <li><strong>1-10</strong>: Training set, scans of&nbsp;10 young adult (16-35 years old)</li> <li><strong>11-15</strong>: Test set, scans of 5 young adult (20-35 years old)</li> <li><strong>16-20</strong>: Test set, scans of 5 patients with vertebral compression fractures&nbsp;&nbsp;</li> </ul> <p>Scans were acquired at the Department of Radiological Sciences, University of California, Irvine, School of Medicine and were published under the&nbsp;<a href="http://opendatacommons.org/licenses/pddl/1.0/">ODC Public Domain Dedication and License</a>&nbsp;on <a href="http://spineweb.digitalimaginggroup.ca/">SpineWeb</a>&nbsp;(datasets 2 and 15). The dataset and challenge is further described in this publication:&nbsp;<a href="http://dx.doi.org/10.1016/j.compmedimag.2015.12.006">A multi-center milestone study of clinical vertebral CT segmentation</a></p> <p>The data that is published here has been normalized:</p> <ul> <li>Voxel values are Hounsfield values and&nbsp;have been clipped to [-1000, 3095]</li> <li>Image origin has been set to 0,0,0</li> <li>Image orientation has been standardized to RAI orientation</li> <li>Small islands and other obvious mistakes have been removed</li> <li>Segmentation masks have been smoothed with a 2x2x2 median filter</li> <li>Vertebrae have been anatomically labeled&nbsp;(8 = T1, 9 = T2, ..., 24 = L5)</li> <li>Because not always all visible vertebrae were segmented in the original data, only segmentations of the thoracic and lumbar vertebrae have been retained</li> </ul> <p><strong>License</strong></p> <p>This dataset is released under the&nbsp;<a href="https://opendatacommons.org/licenses/by/1-0/">Open Data Commons Attribution License</a>&nbsp;(which the original license allows me to do). When using this dataset for publication of any kind, please reference the&nbsp;following paper to meet the attribution requirement:</p> <blockquote> <p>Yao J, Burns JE, Forsberg D, Seitel A, Rasoulian A, Abolmaesumi P, Hammernik K, Urschler M, Ibragimov B, Korez R, Vrtovec T, Castro-Mateos I, Pozo JM, Frangi AF, Summers RM, Li S. A multi-center milestone study of clinical vertebral CT segmentation. Comput Med Imaging Graph. 2016; 49:16-28. doi: 10.1016/j.compmedimag.2015.12.006.</p> </blockquote> <p>There is no need to reference this upload, referencing the original authors is sufficient.</p> <p><strong>Notes</strong></p> <p>The dataset contains 2 cases with only 4 lumbar vertebrae in which L5/S1 has not been segmented (i.e., label 25 is missing).</p> <p>The resolution and segmentation quality of the diseased cases (16-20) is quite low.</p>