MÁRQUEZ CHAMORRO , Alfonso Eduardo

The problem of protein structure prediction (PSP) is one of the main challenges in structural bioinformatics. To tackle this problem, PSP can be divided into several subproblems. One of these subproblems is the prediction of disulfide bonds. The disulfide connectivity prediction problem consists in identifying which nonadjacent cysteines...

The Regression Network plugin for Cytoscape (RegNetC) implements the RegNet algorithm for the inference of transcriptional association network from gene expression profiles. This algorithm is a model tree-based method to detect the relationship between each gene and the remaining genes simultaneously instead of analyzing individually each pair...

Protein structure prediction is one of the main challenges in Bioinformatics. An useful representation for protein 3D structure is the protein contact map. In this work, we propose an evolutionary approach for contact map prediction based on amino acids physicochemical properties. The evolutionary algorithm produces a set of rules...

In this paper we propose an approach based on evolutionary computation for the prediction of secondary protein structure motifs. The prediction model consists of a set of rules that predict both the beginning and the end of the regions corresponding to a secondary structure state conformation (α-helix or β-strand). The prediction is based...

The prediction of protein structures is a current issue of great significance in structural bioinformatics. More specifically, the prediction of the tertiary structure of a protein consists of determining its three-dimensional conformation based solely on its amino acid sequence. This study proposes a method in which protein fragments are...

A variety of approaches for protein inter-residue contact pre diction have been developed in recent years. However, this problem is far from being solved yet. In this article, we present an efficient nearest neigh bor (NN) approach, called PKK-PCP, and an application for the protein inter-residue contact prediction. The great strength of using...

La predicción de la estructura terciaria de las proteínas consiste en determinar la conformación tridimensional de las mismas únicamente a partir de su secuencia de aminoácidos. En este trabajo se propone un método basado en ensamblaje de fragmentos de proteínas por similitud físico-química, que puede aprovechar la información extraída de...

Protein tertiary structure prediction consists of determining the three-dimensional conformation of a protein based solely on its amino acid sequence. This study proposes a method in which protein fragments are assembled according to their physicochemical similarities, using in formation extracted from known protein structures. Several existing...

The evaluation of business process predictive monitoring models usually focuses on accuracy of predictions. While accuracy aggre gates performance across a set of process cases, in many practical sce narios decision makers are interested in the reliability of an individual prediction, that is, an indication of how likely is a given prediction...

Modern SLA management includes SLA prediction based on data collected during service operations. Besides overall accuracy of a prediction model, decision makers should be able to measure the reliability of individual predictions before taking important decisions, such as whether to renegotiate an SLA. Measures of reliability of individual...

Protein structure prediction remains one of the most important challenges in molecular biology. Contact maps have been extensively used as a simplified representation of protein structures. In this work, we propose a multi-objective evolutionary approach for contact map prediction. The proposed method bases the prediction on a set of...

Nowadays, process mining is becoming a growing area of interest in business process management (BPM). Process mining consists in the extraction of information from the event logs of a business process. From this information, we can discover process models, monitor and improve our processes. One of the applications of process mining, is the...

Process mining allows the extraction of useful information from event logs and historical data of business processes. This informa tion will improve the performance of these processes and is generally obtained after they have finished. Therefore, predictive monitoring of business process running instances is needed, in order to provide proac...

Predictive monitoring is a key activity in some Process Aware Information Systems (PAIS) such as information systems for operational management support. Unforeseen circumstances like COVID can introduce changes in human behaviour, processes, or computing resources, which lead the owner of the process or information system to consider whether...

Multiple approaches have been developed in order to predict the protein secondary structure. In this paper, we propose an approach to such a problem based on evolutionary computation. The proposed ap proach considers various amino acids properties in order to predict the secondary structure of a protein. In particular, we will consider the hy...

In this study, we present a residue-residue contact prediction approach based on evolutionary computation. Some amino acid properties are employed according to their importance in the folding process: hydrophobicity, polarity, charge and residue size. Our evolutionary algorithm provides a set of rules which determine different cases where two...

Hoy en día, el Espacio Europeo de Educación Superior ha propiciado la modificación de las estructuras rígidas, que estaban establecidas en todas las universidades españolas, para convertir a los estudiantes en el centro del proceso de enseñanza-aprendizaje que en las mismas se lleva a cabo. En particular, en las ingenierías siempre ha...

Protein structure prediction is currently one of the main open challenges in Bioinformatics. The protein contact map is an useful, and commonly used, represen tation for protein 3D structure and represents binary proximities (contact or non-contact) between each pair of amino acids of a protein. In this work, we propose a multi objective...

In this study, a novel residue-residue contacts prediction approach based on evolutionary computation is presented. The prediction is based on four amino acids properties. In particular, we consider the hydrophobicity, the polarity, the charge and residues size. The prediction model consists of a set of rules that identi fies contacts between...

The Protein Structure Prediction (PSP) problem consists of predicting the structure of a protein from its amino acids sequence, and have received much attention lately. In fact, being able to predict the structure of a protein, would allow to know the function of the protein. In this paper, we propose a multi-objective evolutionary algorithm...

This work proposes an improvement of the multi-objective evolutionary method for the protein residue-residue contact prediction called MECoMaP. This method bases its prediction on physico chemical properties of amino acids, structural features and evolutionary information of the proteins. The evolutionary algorithm produces a set of decision...

Predictive monitoring of business processes is a challenging topic of process mining which is concerned with the prediction of process indicators of running process instances. The main value of predictive monitoring is to provide information in order to take proactive and corrective actions to improve process performance and mitigate risks in...

In this paper, we focus on protein contact map prediction. We describe a method where contact maps are predicted using decision tree-based model. The algorithm includes the subsequence information between the couple of analyzed amino acids. In order to evaluate the method generalization capabilities, we carry out an experiment using 173...

In this paper, we focus on protein contact map prediction, one of the most important intermediate steps of the protein folding prob lem. The objective of this research is to know how short-range interac tions can contribute to a system based on decision trees to learn about the correlation among the covalent structures of a protein residues....

The problem of protein structure prediction (PSP) represents one of the most important challenges in computational biology. Determining the three dimensional structure of proteins is necessary to under stand their functions at molecular level. The most representative soft computing approaches for solving the protein tertiary structure...