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Evaluation of the Impact of Dataset Characteristics for Classification Problems in Biological Applications

Year: 2009 Volume: 3 Issue: 10 268 - 272 Pages

Abstract: Availability of high dimensional biological datasets such as from gene expression, proteomic, and metabolic experiments can be leveraged for the diagnosis and prognosis of diseases. Many classification methods in this area have been studied to predict disease states and separate between predefined classes such as patients with a special disease versus healthy controls. However, most of the existing research only focuses on a specific dataset. There is a lack of generic comparison between classifiers, which might provide a guideline for biologists or bioinformaticians to select the proper algorithm for new datasets. In this study, we compare the performance of popular classifiers, which are Support Vector Machine (SVM), Logistic Regression, k-Nearest Neighbor (k-NN), Naive Bayes, Decision Tree, and Random Forest based on mock datasets. We mimic common biological scenarios simulating various proportions of real discriminating biomarkers and different effect sizes thereof. The result shows that SVM performs quite stable and reaches a higher AUC compared to other methods. This may be explained due to the ability of SVM to minimize the probability of error. Moreover, Decision Tree with its good applicability for diagnosis and prognosis shows good performance in our experimental setup. Logistic Regression and Random Forest, however, strongly depend on the ratio of discriminators and perform better when having a higher number of discriminators.

Packaging the Alkaloids of Cinchona Bark in Combination with Etoposide in Polymeric Micelles Nanoparticles

Year: 2012 Volume: 6 Issue: 12 622 - 626 Pages

Abstract: Today, cancer remains one of the major diseases that lead to death. The main obstacle in chemotherapy as a main cancer treatment is the toxicity to normal cells due to Multidrug Resistance (MDR) after the use of anticancer drugs. Proposed solution to overcome this problem is the use of MDR efflux inhibitor of cinchona alkaloids which is delivered together with anticancer drugs encapsulated in the form of polymeric nanoparticles. The particles were prepared by the hydration method. The characterization of nanoparticles was particle size, zeta potential, entrapment efficiency and in vitro drug release. Combination nanoparticle size ranged 29-45 nm with a neutral surface charge. Entrapment efficiency was above 87% for the use quinine, quinidine or cinchonidine in combination with etoposide. The release test results exhibited that the cinchona alkaloids release released faster than that of etoposide. Collectively, cinchona alkaloids can be packaged along with etoposide in nanomicelles for better cancer therapy.

Urban Floods and Importance of Them in Cities Security Planning (Case Study: Dominant Watershed on Zavvareh City)

Year: 2008 Volume: 2 Issue: 7 703 - 707 Pages

Abstract: Development of cities and villages, agricultural farms and industrial regions in abutment and/or in the course of streams and rivers or in prone flood lands has been caused more notations in hydrology problems and city planning topics. In order to protection of cities against of flood damages, embankment construction is a desired and scientific method. The cities that located in arid zones may damage by floods periodically. Zavvareh city in Ardestan township(Isfahan province) with 7704 people located in Ardestan plain that has been damaged by floods that have flowed from dominant mountainous watersheds in past years with regard to return period. In this study, according to flowed floods toward Zavvareh city, was attempt to plan suitable hydraulic structures such as canals, bridges and collectors in order to collection, conduction and depletion of city surface runoff.