Search results for "Informàtica"
showing 10 items of 74 documents
Phylogenomics Identifies an Ancestral Burst of Gene Duplications Predating the Diversification of Aphidomorpha
2019
Aphids (Aphidoidea) are a diverse group of hemipteran insects that feed on plant phloem sap. A common finding in studies of aphid genomes is the presence of a large number of duplicated genes. However, when these duplications occurred remains unclear, partly due to the high relatedness of sequenced species. To better understand the origin of aphid duplications we sequenced and assembled the genome of Cinara cedri, an early branching lineage (Lachninae) of the Aphididae family. We performed a phylogenomic comparison of this genome with 20 other sequenced genomes, including the available genomes of five other aphids, along with the transcriptomes of two species belonging to Adelgidae (a close…
Decision support systems (DSS) for wastewater treatment plants - A review of the state of the art.
2019
The use of decision support systems (DSS) allows integrating all the issues related with sustainable development in view of providing a useful support to solve multi-scenario problems. In this work an extensive review on the DSSs applied to wastewater treatment plants (WWTPs) is presented. The main aim of the work is to provide an updated compendium on DSSs in view of supporting researchers and engineers on the selection of the most suitable method to address their management/operation/design problems. Results showed that DSSs were mostly used as a comprehensive tool that is capable of integrating several data and a multi-criteria perspective in order to provide more reliable results. Only …
Vibration control strategy for large-scale structures with incomplete multi-actuator system and neighbouring state information
2016
The synthesis of optimal controllers for vibrational protection of large-scale structures with multiple actuation devices and partial state information is a challenging problem. In this study, the authors present a design strategy that allows computing this kind of controllers by using standard linear matrix inequality optimisation tools. To illustrate the main elements of the new approach, a five-story structure equipped with two interstory actuation devices and subjected to a seismic disturbance is considered. For this control setup, three different controllers are designed: an ideal state-feedback H 8 controller with full access to the complete state information and two static output-fee…
Using Inverse Reinforcement Learning with Real Trajectories to Get More Trustworthy Pedestrian Simulations
2020
Reinforcement learning is one of the most promising machine learning techniques to get intelligent behaviors for embodied agents in simulations. The output of the classic Temporal Difference family of Reinforcement Learning algorithms adopts the form of a value function expressed as a numeric table or a function approximator. The learned behavior is then derived using a greedy policy with respect to this value function. Nevertheless, sometimes the learned policy does not meet expectations, and the task of authoring is difficult and unsafe because the modification of one value or parameter in the learned value function has unpredictable consequences in the space of the policies it represents…
A new parallel pipeline for DNA methylation analysis of long reads datasets
2017
Background DNA methylation is an important mechanism of epigenetic regulation in development and disease. New generation sequencers allow genome-wide measurements of the methylation status by reading short stretches of the DNA sequence (Methyl-seq). Several software tools for methylation analysis have been proposed over recent years. However, the current trend is that the new sequencers and the ones expected for an upcoming future yield sequences of increasing length, making these software tools inefficient and obsolete. Results In this paper, we propose a new software based on a strategy for methylation analysis of Methyl-seq sequencing data that requires much shorter execution times while…
Transcriptomic and Genetic Associations between Alzheimer's Disease, Parkinson's Disease, and Cancer.
2021
Simple Summary Epidemiological studies have identified a link between neurodegenerative disorders and a reduced risk of overall cancer. Increases and decreases in the risk of site-specific cancers have also been reported. However, it is still unknown whether these associations arise due to shared genetic and molecular factors or are explained by other phenomena (e.g., biases in epidemiological studies or the use of medication). In this study, we aimed to investigate the potential molecular, genetic, and pharmacological links between Alzheimer’s and Parkinson’s diseases and a large panel of 22 cancer types. To examine the overlapping involvement of genes and pathways, we obtained differentia…
Deciphering genomic heterogeneity and the internal composition of tumour activities through a hierarchical factorisation model
2021
Genomic heterogeneity constitutes one of the most distinctive features of cancer diseases, limiting the efficacy and availability of medical treatments. Tumorigenesis emerges as a strongly stochastic process, producing a variable landscape of genomic configurations. In this context, matrix factorisation techniques represent a suitable approach for modelling such complex patterns of variability. In this work, we present a hierarchical factorisation model conceived from a systems biology point of view. The model integrates the topology of molecular pathways, allowing to simultaneously factorise genes and pathways activity matrices. The protocol was evaluated by using simulations, showing a hi…
Client Applications and Server-Side Docker for Management of RNASeq and/or VariantSeq Workflows and Pipelines of the GPRO Suite
2023
The GPRO suite is an in-progress bioinformatic project for -omics data analysis. As part of the continued growth of this project, we introduce a client- and server-side solution for comparative transcriptomics and analysis of variants. The client-side consists of two Java applications called “RNASeq” and “VariantSeq” to manage pipelines and workflows based on the most common command line interface tools for RNA-seq and Variant-seq analysis, respectively. As such, “RNASeq” and “VariantSeq” are coupled with a Linux server infrastructure (named GPRO Server-Side) that hosts all dependencies of each application (scripts, databases, and command line interface software). Implementation of the Serv…
Adaptive synchronization of master-slave systems with mixed neutral and discrete time-delays and nonlinear perturbations
2011
This paper investigates the delay-dependent adaptive synchronization problem of the master and slave structure of linear systems with both constant neutral and time-varying discrete time-delays and nonlinear perturbations based on the Barbalat lemma and matching conditions. An adaption law which includes the master-slave parameters is obtained by using the Lyapunov functional method and inequality techniques to synchronize the master-slave systems without the knowledge of upper bounds of perturbation terms. Particularly, it is shown that the synchronization speed can be controlled by adjusting the update gain of the synchronization signal. A numerical example has been given to show the effe…
The Windy clustered prize-collecting arc-routing problem
2011
This paper introduces the windy clustered prize-collecting arc-routing problem. It is an arc-routing problem where each demand edge is associated with a profit that is collected once if the edge is serviced, independent of the number of times the edge is traversed. It is further required that if a demand edge is serviced, then all the demand edges of its component are also serviced. A mathematical programming formulation is given and some polyhedral results including several facet-defining and valid inequalities are presented. The separation problem for the different families of inequalities is studied. Numerical results from computational experiments are analyzed. © 2011 INFORMS.