Learning Causal Biological Networks with Parallel Ant Colony Optimization Algorithm

A wealth of causal relationships exists in biological systems, both causal brain networks and causal protein signaling networks are very classical causal biological networks (CBNs). Learning CBNs from biological signal data reliably is a critical problem today. However, most of the existing methods are not excellent enough in terms of accuracy and time performance, and tend to fall into local optima because they do not take full advantage of global information. In this paper, we propose a parallel ant colony optimization algorithm to learn causal biological networks from biological signal data, called PACO. Specifically, PACO first maps the construction of CBNs to ants, then searches for CBNs in parallel by simulating multiple groups of ants foraging, and finally obtains the optimal CBN through pheromone fusion and CBNs fusion between different ant colonies. Extensive experimental results on simulation data sets as well as two real-world data sets, the fMRI signal data set and the Single-cell data set, show that PACO can accurately and efficiently learn CBNs from biological signal data

An Entropy-Based Multiobjective Evolutionary Algorithm with an Enhanced Elite Mechanism

Multiobjective optimization problem (MOP) is an important and challenging topic in the fields of industrial design and scientific research. Multi-objective evolutionary algorithm (MOEA) has proved to be one of the most efficient algorithms solving the multi-objective optimization. In this paper, we propose an entropy-based multi-objective evolutionary algorithm with an enhanced elite mechanism (E-MOEA), which improves the convergence and diversity of solution set in MOPs effectively. In this algorithm, an enhanced elite mechanism is applied to guide the direction of the evolution of the population. Specifically, it accelerates the population to approach the true Pareto front at the early stage of the evolution process. A strategy based on entropy is used to maintain the diversity of population when the population is near to the Pareto front. The proposed algorithm is executed on widely used test problems, and the simulated results show that the algorithm has better or comparative performances in convergence and diversity of solutions compared with two state-of-the-art evolutionary algorithms: NSGA-II, SPEA2 and the MOSADE

Artificial Bee Colony Algorithm Merged with Pheromone Communication Mechanism for the 0-1 Multidimensional Knapsack Problem

Given a set of n objects, the objective of the 0-1 multidimensional knapsack problem (MKP_01) is to find a subset of the object set that maximizes the total profit of the objects in the subset while satisfying m knapsack constraints. In this paper, we have proposed a new artificial bee colony (ABC) algorithm for the MKP_01. The new ABC algorithm introduces a novel communication mechanism among bees, which bases on the updating and diffusion of inductive pheromone produced by bees. In a number of experiments and comparisons, our approach obtains better quality solutions in shorter time than the ABC algorithm without the mechanism. We have also compared the solution performance of our approach against some stochastic approaches recently reported in the literature. Computational results demonstrate the superiority of the new ABC approach over all the other approaches

Biomedical semantic indexing by deep neural network with multi-task learning

Abstract Background Biomedical semantic indexing is important for information retrieval and many other research fields in bioinformatics. It annotates biomedical citations with Medical Subject Headings. In face of unbalanced category distribution in the training data, sampling methods are difficult to apply for semantic indexing task. Results In this paper, we present a novel deep serial multi-task learning model. The primary task treats the biomedical semantic indexing as a multi-label text classification issue that considers the relations of the labels. The auxiliary task is a regression task that predicts the MeSH number of the citation and provides hints for the network to make it converge faster. The experimental results on the BioASQ-Task5A open dataset show that our model outperforms the state-of-the-art solution “MTI”, proposed by the US National Library of Medicine. Further, it not only achieves the highest precision among all the solutions in BioASQ-Task5A but also has faster convergence speed compared with some naive deep learning methods. Conclusions Rather than parallel in an ordinary multi-task structure, the tasks in our model are serial and tightly coupled. It can achieve satisfied performance without any handcrafted feature

Learning Effective Connectivity Network Structure from fMRI Data Based on Artificial Immune Algorithm.

Many approaches have been designed to extract brain effective connectivity from functional magnetic resonance imaging (fMRI) data. However, few of them can effectively identify the connectivity network structure due to different defects. In this paper, a new algorithm is developed to infer the effective connectivity between different brain regions by combining artificial immune algorithm (AIA) with the Bayes net method, named as AIAEC. In the proposed algorithm, a brain effective connectivity network is mapped onto an antibody, and four immune operators are employed to perform the optimization process of antibodies, including clonal selection operator, crossover operator, mutation operator and suppression operator, and finally gets an antibody with the highest K2 score as the solution. AIAEC is then tested on Smith's simulated datasets, and the effect of the different factors on AIAEC is evaluated, including the node number, session length, as well as the other potential confounding factors of the blood oxygen level dependent (BOLD) signal. It was revealed that, as contrast to other existing methods, AIAEC got the best performance on the majority of the datasets. It was also found that AIAEC could attain a relative better solution under the influence of many factors, although AIAEC was differently affected by the aforementioned factors. AIAEC is thus demonstrated to be an effective method for detecting the brain effective connectivity

Social Services for Homeless in Pardubice

There is actual conditon of providing social services for homeless people in Pardubice in this graduation work, confront with the needs of these people that are expressed in the questionnaire. Social work and its distinction according the structure of service purpose in the institutions of social services for homeless people in Pardubice is described very properly in this graduation work. There is sollution of disproportion between offer and demand for individual social instituons in Pardubice suggested in the end of this graduation work. The main change would be in the origin of new institutions such as Lodging house for women, Subliminal institution for homeless people, Social and sanitary institution for homeless people and Housing for seniors and deseased homeless people in the end of this graduation work. Powered by TCPDF (www.tcpdf.org