Esub8: A novel tool to predict protein subcellular localizations in eukaryotic organisms

BACKGROUND: Subcellular localization of a new protein sequence is very important and fruitful for understanding its function. As the number of new genomes has dramatically increased over recent years, a reliable and efficient system to predict protein subcellular location is urgently needed. RESULTS: Esub8 was developed to predict protein subcellular localizations for eukaryotic proteins based on amino acid composition. In this research, the proteins are classified into the following eight groups: chloroplast, cytoplasm, extracellular, Golgi apparatus, lysosome, mitochondria, nucleus and peroxisome. We know subcellular localization is a typical classification problem; consequently, a one-against-one (1-v-1) multi-class support vector machine was introduced to construct the classifier. Unlike previous methods, ours considers the order information of protein sequences by a different method. Our method is tested in three subcellular localization predictions for prokaryotic proteins and four subcellular localization predictions for eukaryotic proteins on Reinhardt's dataset. The results are then compared to several other methods. The total prediction accuracies of two tests are both 100% by a self-consistency test, and are 92.9% and 84.14% by the jackknife test, respectively. Esub8 also provides excellent results: the total prediction accuracies are 100% by a self-consistency test and 87% by the jackknife test. CONCLUSIONS: Our method represents a different approach for predicting protein subcellular localization and achieved a satisfactory result; furthermore, we believe Esub8 will be a useful tool for predicting protein subcellular localizations in eukaryotic organisms

Interactive Blood-Coil Simulation in Real-time during Aneurysm Embolization

International audienceOver the last decade, remarkable progress has been made in the field of endovascular treatment of aneurysms. Technological advances continue to make it possible for a growing number of patients with cerebral aneurysms to be treated with a variety of endovascular strategies, essentially using detachable platinum coils. Yet, coil embolization remains a very complex medical procedure for which careful planning must be combined with advanced technical skills in order to be successful. In this paper, we describe a complete process for patient-specific simulations of coil embolization, from mesh generation with medical datasets to computation of coil-flow bilateral influence. We propose a new method for simulating the complex blood flow patterns that take place within the aneurysm, and for simulating the interaction of coils with this flow. This interaction is twofold, first involving the impact of the flow on the coil during the initial stages of its deployment, and second concerning the decrease of blood velocity within the aneurysm, as a consequence of coil packing. We also propose an approach to achieve real-time computation of coil-flow bilateral influence, necessary for interactive simulation. This in turns allows to dynamically plan coil embolization for two key steps of the procedure: choice and placement of the first coils, and assessment of the number of coils necessary to reduce aneurysmal blood velocity and wall pressure. Finally, we provide the blood flow simulation results on several aneurysms with interesting clinical characteristics both in 2D and 3D, as well as comparisons with a commercial package for validation. The coil embolization procesure is simulated within an aneurysm, and pre- and post-operative status is reported

On a new kind of 2-periodic trigonometric interpolation

summary:It is well-known that the interpolation theory plays an important role in many fields of computer vision, especially in surface reconstruction. In this paper, we introduce a new kind of 2-period interpolation of functions with period $2\pi$. We find out the necessary and sufficient conditions for regularity of this new interpolation problem. Moreover, a closed form expression for the interpolation polynomial is given. Our interpolation is of practical significance. Our results provide the theoretical basis for using our interpolation in practical problems