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The aim of this study was to investigate the prevalence and configuration of the C-shaped canal using serial axial computed tomography images of the mandibular second molars that had not been restored severely or treated endodontically, and to compare the thickness of the remaining tooth structure from the center of the canal to the outer surface of the deepest groove area in C-shaped mandibular second molar to that of ‘danger zone of perforation’ in normal mandibular second molar. This distance was measured at the cervical, middle, and apical third level each. From 220 teeth, C-shaped canals were found in 98 teeth (44.5%). Almost all the grooves were directed lingual (99%). The continuous C-shaped canal was the most frequently found (49%) and the separated canal was the least (17.4%). The thinnest remaining tooth structure in the groove area of the C-shaped mandibular second molar was not different from that of the danger zone of normal mandibular second molar at the three levels (p > 0.05).