Kleoniki Lyroudia

Genes and Related Proteins Involved in Amelogenesis Imperfecta

Dental enamel formation is a remarkable example of a biomineralization process. The exact mechanisms involved in this process remain partly obscure. Some of the genes encoding specific enamel proteins have been indicated as candidate genes for amelogenesis imperfecta. Mutational analyses within studied families have supported this hypothesis. Mutations in the amelogenin gene (AMELX) cause X-linked amelogenesis imperfecta, while mutations in the enamelin gene (ENAM) cause autosomal-inherited forms of amelogenesis imperfecta. Recent reports involve kallikrein-4 (KLK4), MMP-20, and DLX3 genes in the etiologies of some cases. This paper focuses mainly on the candidate genes involved in amelogenesis imperfecta and the proteins derived from them, and reviews current knowledge on their structure, localization within the tissue, and correlation with the various types of this disorder.

Automated evaluation of her-2/neu status in breast tissue from fluorescent in situ hybridization images

The evaluation of fluorescent in situ hybridization (FISH) images is one of the most widely used methods to determine Her-2/neu status of breast samples, a valuable prognostic indicator. Conventional evaluation is a difficult task since it involves manual counting of dots in multiple images. In this paper, we present a multistage algorithm for the automated classification of FISH images from breast carcinomas. The algorithm focuses not only on the detection of FISH dots per image, but also on combining results from multiple images taken from a slice for overall case classification. The algorithm includes mainly two stages for nuclei and dot detection respectively. The dot segmentation consists of a top-hat filtering stage followed by template matching to separate real signals from noise. Nuclei segmentation includes a nonlinearity correction step, global thresholding to identify candidate regions, and a geometric rule to distinguish between holes within a nucleus and holes between nuclei. Finally, the marked watershed transform is used to segment cell nuclei with markers detected as regional maxima of the distance transform. Combining the two stages allows the measurement of FISH signals ratio per cell nucleus and the collective classification of cases as positive or negative. The system was evaluated with receiver operating characteristic analysis and the results were encouraging for the further development of this method.

Three-Dimensional Reconstruction: A New Method for the Evaluation of Apical Microleakage

The purpose of this study was the evaluation of a new method for studying apical microleakage by using a three-dimensional (3-D) reconstruction method. Fourteen human single-rooted mandibular teeth were used for this work. The canals were prepared with hand instruments by using the step-back technique. To supply a focus to the study of the method, the teeth were divided into two groups that were obturated using two different sealers. India ink was used for passive stain. Serial cross-sections 0.75 mm thick were taken from each specimen by using a special microtome. Each section was photographed under a stereoscopic microscope. Each photograph was digitized and processed to obtain a 3-D reconstruction of the external surface of the teeth, their corresponding prepared root canals, and their apical microleakage. Sample size and experimental methods were not designed to make valid groups; however, apical microleakage was observed in both groups ranging between 2.25 to 8.25 mm height. The 3-D reconstruction method has proved to be a useful tool in the study of apical microleakage.

Automated analysis of FISH and immunohistochemistry images: A review

Fluorescent in‐situ hybridization (FISH) and immunohistochemistry (IHC) constitute a pair of complimentary techniques for detecting gene amplification and overexpression, respectively. The advantages of IHC include relatively cheap materials and high sample durability, while FISH is the more accurate and reproducible method. Evaluation of FISH and IHC images is still largely performed manually, with automated or semiautomated techniques increasing in popularity. Here, we provide a comprehensive review of a number of (semi‐) automated FISH and IHC image processing systems, focusing on the algorithmic aspects of each technique. Our review verifies the increasingly important role of such methods in FISH and IHC; however, manual intervention is still necessary in order to resolve particularly challenging or ambiguous cases. In addition, large‐scale validation is required in order for these systems to enter standard clinical practice.

3D reconstruction of two C-shape mandibular molars

Two mandibular second molars, with an indication of C-shape morphology were processed for 3-D reconstruction. After serial cross sectioning, photographs of the sections were digitized and by using surface representation, 3D reconstruction was achieved. The first molar as the 3D reconstruction showed was single rooted with one C-shaped root canal with two foramens, while the second one was double rooted with two root canals, one C-shaped and one thin, having a common foramen.

Digital Radiograph Registration and Subtraction: A Useful Tool for the Evaluation of the Progress of Chronic Apical Periodontitis

The purpose of this study was to evaluate the suitability of a digital radiograph registration and subtraction software for a sensitive and reliable assessment of the progress of chronic apical periodontitis. Ninety cases of teeth with chronic apical periodontitis have been studied. In each case, a preoperative radiograph was taken, root canals were prepared, and a Ca(OH)2 paste was placed in the root canals. Radiographic control and replacement of Ca(OH)2 paste took place at 15-day intervals. The root canals were obturated 1.5 months after the first appointment. Recall radiographs were taken 0.5, 1.5, 3, 6, and 12 months after the obturation. All radiographs were taken for each case under constant conditions by using a direct digital radiography system. In each case, the preoperative, postoperative, and control and recall radiographs were digitally registered and pairwise subtracted. The resulting images were further processed by using contrast enhancement and pseudocoloring methods. Changes to the periapical tissue structure were easily detectable by using the above-mentioned methodology, even during short time intervals.

Conservation of metal-coordinating residues

As a result of rapid advances in genome sequencing, the pace of discovery of new protein sequences has surpassed that of structure and function determination by orders of magnitude. This is also true for metal‐binding proteins, that is, proteins that bind one or more metal atoms necessary for their biological function. While metal binding site geometry and composition have been extensively studied, no large scale investigation of metal‐coordinating residue conservation has been pursued so far. In pursuing this analysis, we were able to corroborate anecdotal evidence that certain residues are preferred to others for binding to certain metals. The conservation of most metal‐coordinating residues is correlated with residue preference in a statistically significant manner. Additionally, we also established a statistically significant difference in conservation between metal‐coordinating and noncoordinating residues. These results could be useful for providing better insight to functional importance of metal‐coordinating residues, possibly aiding metal binding site prediction and design, metal‐protein complex structure prediction, drug discovery, as well as model fitting to electron‐density maps produced by X‐ray crystallography. Proteins 2007.

Assessment of simulated internal resorption cavities using digital and digital subtraction radiography: a comparative study

AIM To compare the diagnostic accuracy of digital radiography with that of digital subtraction radiography in the detection of simulated internal resorption cavities. MATERIALS AND METHODS Simulated internal resorption cavities of varying sizes were created using round burs in 18 single-rooted teeth with visible pulp chamber, which had been extracted from dentate dry mandibles and split into two halves in a mesio-distal direction. Resorption cavities were created in the buccal half of the root in the cervical, middle, and apical third. Digital radiographs were taken from three different horizontal view angles before and after the creation of the cavities. This process was followed by digital subtraction radiography to evaluate their detection. Seven experienced observers and all specialists in endodontics were asked to examine the digital and digital subtraction images for the presence of the cavities. The data were analyzed using SPSS 14. RESULTS The overall sensitivity of digital subtraction radiography was superior to digital radiography and with statistically better results for all cavities regardless of their location (cervical, middle, apical third) (P < 0.05). The detection of the cavities was affected by the root third in which they were located. Cavities in the apical third were more easily detected compared with those in the middle or cervical third of the root. Small-sized lesions (0.5 mm, 0.6 mm) in the middle and apical third were more frequent and more easily detected using subtraction imaging. CONCLUSION Digital subtraction radiography is superior to digital radiography for the detection and monitoring of the progress of internal root resorption.

Virtual Dental Patient: a System for Virtual Teeth Drilling

This paper introduces, a virtual teeth drilling system named virtual dental patient designed to aid dentists in getting acquainted with the teeth anatomy, the handling of drilling instruments and the challenges associated with the drilling procedure. The basic aim of the system is to be used for the training of dental students. The application features a 3D model of the face and the oral cavity that can be adapted to the characteristics of a specific person and animated. Drilling using a haptic device is performed on realistic teeth models (constructed from real data), within the oral cavity. Results and intermediate steps of the drilling procedure can be saved for future use

FISH Image Analysis Using a Modified Radial Basis Function Network

Fluorescent in situ hybridization (FISH) is a valuable method for determining Her-2/neu status in breast carcinoma samples, an important prognostic indicator. Visual evaluation of FISH images is a difficult task which involves manual counting of dots in multiple images, a procedure which is both time consuming and prone to human error. A number of algorithms have recently been developed dealing with (semi)-automated analysis of FISH images. These algorithms are quite promising but further improvement is required in improving their accuracy. Here, we present a novel method for analyzing FISH images based on the statistical properties of Radial Basis Functions. Our method was evaluated on a data set of 100 breast carcinoma cases provided by the Aristotle University of Thessaloniki and the University of Pisa, with promising results.