Modelling and implementing adequate controllers for urban road traffic control constitute a huge challenge nowadays because of the complexity of systems, as well as possible scenarios and configurations, in each road in a city. A series of issues related to modelling these behaviours are common to arise when using formalisms, tools, and computation machines to perform complex calculations and limitations. This paper presents a formal, flexible, and adaptable approach, with no limitations, from the scientific point of view. For this purpose, modelling formalisms (cellular automata and timed automata) and analysis techniques (simulation and formal verification) are proposed to reach the main goals of modelling complex and adaptable behaviours in urban road traffic with multiple over time changeable configurations. A case study is presented, in order to illustrate the approach and demonstrate in detail the unlimited application of the presented approach.
DNA microarrays are one of the most used technologies for gene expression measurement. However, there are several distinct microarray platforms, from different manufacturers, each with its own measurement protocol, resulting in data that can hardly be compared or directly integrated. Data integration from multiple sources aims to improve the assertiveness of statistical tests, reducing the data dimensionality problem. This work intends to establish a basis for the integration of gene expression measurements from several manufacturers, a problem that can be addressed at different levels. We will focus on the reannotation process, a cornerstone of multi-platform integration. The proposed approach is based on a reannotation from probesets to transcripts, preserving valuable information for further analysis. Gene expression data from glioblastoma studies will be used as case studies, considering data from Agilent and Affymetrix platforms.
Artificial Neural Networks (ANNs) have shown to be powerful tools for solving several problems which, due to their complexity, are extremely difficult to unravel with other methods. Their capabilities of massive parallel processing and learning from the environment make these structures ideal for prediction of nonlinear events. In this work, a set of computational tools are proposed, allowing researchers in Biotechnology to use ANNs for the modelling of fed-batch fermentation processes. The main task is to predict the values of kinetics parameters from the values of a set of state variables. The tools were validated with two case studies, showing the main functionalities of the application.
The transportation infrastructure is one of the most important resources for a country's economic and social well-being. The effectiveness of a country's street network will decide whether it develops further or stagnates. With the increasing number of vehicles on the road and the effects of urbanization, traffic roads are being subjected to a variety of requests and uses for which they were not designed, sized, or predicted. Because of the critical relevance of traffic roads, research must begin to lessen the effects of traffic jams in the streets, determine the appropriate number of traffic lanes, and integrate real-time traffic information into GPS systems. The goal of modeling a traffic-road system is to either build new traffic systems or gain a better knowledge of existing traffic systems so that they can be optimized. The accuracy, performance, stochastic and dynamic behavior of the model produced will be evaluated using a simulation of a genuine traffic system. This paper provides microscopic models based on cellular automation to replicate the behavior of various automobiles on a set of urban streets in Cluj Napoca city downtown. This model includes streets with multiple traffic lanes, various types of vehicles such as automobiles, buses, and trams, intersections with multiple possible upcoming streets controlled by traffic lights, bus stops inside and outside the traffic lane, tram stops inside the traffic lane, pedestrian crosswalks, and parking areas alongside and transversely with the right traffic lane of a street. TCA (Traffic Cellular Automata) is a proposed model that produces adequate findings in urban traffic theory. The results were obtained in both free-flow and traffic-jam conditions.
SummaryDNA microarrays are one of the most used technologies for gene expression measurement. However, there are several distinct microarray platforms, from different manufacturers, each with its own measurement protocol, resulting in data that can hardly be compared or directly integrated. Data integration from multiple sources aims to improve the assertiveness of statistical tests, reducing the data dimensionality problem. The integration of heterogeneous DNA microarray platforms comprehends a set of tasks that range from the re-annotation of the features used on gene expression, to data normalization and batch effect elimination. In this work, a complete methodology for gene expression data integration and application is proposed, which comprehends a transcript-based re-annotation process and several methods for batch effect attenuation. The integrated data will be used to select the best feature set and learning algorithm for a brain tumor classification case study.
World Health Organization ranks brain tumors in four stages, being the fourth grade the most aggressive. Glioblastoma, a fourth grade tumor, is one of the most severe human diseases that almost inevitability leads to death. Physicians address the classification in grades through direct inspection. Indeed, there is a need for good automatic predictors of tumor grade, which are not affected by human misclassification errors and that can be made with less invasive diagnostic tools. This work address the stages involved in the process of selecting a good tumor grade predictor, based on microarray gene expression data. In this work, the information integration from heterogeneous platforms is highlighted, evidencing the particularities of choosing approaches working at gene, transcript or probeset levels. Distinct machine learning algorithms and integration methods are tested, analyzing their ability to produce a good set of predictors for tumor grade.
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