A domain-based approach to predict protein-protein interactions

<p>Abstract</p> <p>Background</p> <p>Knowing which proteins exist in a certain organism or cell type and how these proteins interact with each other are necessary for the understanding of biological processes at the whole cell level. The determination of the protein-protein interaction (PPI) networks has been the subject of extensive research. Despite the development of reasonably successful methods, serious technical difficulties still exist. In this paper we present DomainGA, a quantitative computational approach that uses the information about the domain-domain interactions to predict the interactions between proteins.</p> <p>Results</p> <p>DomainGA is a multi-parameter optimization method in which the available PPI information is used to derive a quantitative scoring scheme for the domain-domain pairs. Obtained domain interaction scores are then used to predict whether a pair of proteins interacts. Using the yeast PPI data and a series of tests, we show the robustness and insensitivity of the DomainGA method to the selection of the parameter sets, score ranges, and detection rules. Our DomainGA method achieves very high explanation ratios for the positive and negative PPIs in yeast. Based on our cross-verification tests on human PPIs, comparison of the optimized scores with the structurally observed domain interactions obtained from the iPFAM database, and sensitivity and specificity analysis; we conclude that our DomainGA method shows great promise to be applicable across multiple organisms.</p> <p>Conclusion</p> <p>We envision the DomainGA as a first step of a multiple tier approach to constructing organism specific PPIs. As it is based on fundamental structural information, the DomainGA approach can be used to create potential PPIs and the accuracy of the constructed interaction template can be further improved using complementary methods. Explanation ratios obtained in the reported test case studies clearly show that the false prediction rates of the template networks constructed using the DomainGA scores are reasonably low, and the erroneous predictions can be filtered further using supplementary approaches such as those based on literature search or other prediction methods.</p

SECTIONAL MANDIBULAR COMPLETE DENTURE FOR A TOTAL MAXILLECTOMY PATIENT WITH TRISMUS: A CLINICAL REPORT

This report presents the case of a 60-year-old male patient with trismus induced by radiotherapy and fabrication of a sectional mandibular complete denture to allow the insertion of the denture into the mouth. A mandibular sectional denture was designed in two pieces with a locking mechanism by using mini anchor and ball abutment housing with cap. Patients who have undergone maxillectomy often have constricted mouth openings, as a result of surgical intervention and radiotherapy, and complain of an inability to insert or remove dentures. A new approach is vital for sectional dentures because existing sectional denture fabrication techniques cannot meet the ongoing needs of trismus patients. The mini anchor system with ball abutment housing has better mechanical retention in acrylic resin and can provide favorable stabilization during masticatory function; thus, additional framework is not required for assisting in stabilization and retention

Effects of Different Abutment Connection Designs on the Stress Distribution Around Five Different Implants: A 3-Dimensional Finite Element Analysis

The stability of the bone-implant interface is required for the long-term favorable clinical outcome of implant-supported prosthetic rehabilitation. The implant failures that occur after the functional loading are mainly related to biomechanical factors. Micro movements and vibrations due to occlusal forces can lead to mechanical complications such as loosening of the screw and fractures of the abutment or implants. The aim of this study was to investigate the strain distributions in the connection areas of different implant-abutment connection systems under similar loading conditions. Five different implant-abutment connection designs from 5 different manufacturers were evaluated in this study. The investigation was performed with software using the finite element method. The geometrical modeling of the implant systems was done with CATIA virtual design software. The MSC NASTRAN solver and PATRAN postprocessing program were used to perform the linear static solution. According to the analysis, the implant-abutment connection system with external hexagonal connection showed the highest strain values, and the internal hexagonal implant-abutment connection system showed the lowest strain values. Conical + internal hexagonal and screw-in implant abutment connection interface is more successful than other systems in cases with increased vertical dimension, particularly in the posterior region

Occlusal Evaluation and Effect of Occlusal Disorders on Temporomandibular Joint

The etiology of temporomandibular disorders, known as a multifactorial disease, varies from person to person and with respect to the kind of the disorder. Occlusal discrepancies are accepted as one of the probable etiological factors of the temporomandibular disorders. Various dental procedures are carried out to evaluate the occlusal condition and to rehabilitate the occlusal disorders temporarily or permanently in order to manage the symptoms of temporomandibular disorders. Multidisciplinary approach may improve the effectiveness and the success of the treatment. In this presentation, basic occlusal disorders and the treatment principles are pointed out. Turk J Phys Med Rehab 2010;56 Suppl 1:25-8

Clinical and radiographic outcomes of implants immediately placed in fresh extraction sockets

Objective. The objective of this study was to examine the clinical and radiographic results of implants placed in fresh extraction sockets for 2 years of function