oalib

Publish in OALib Journal

ISSN: 2333-9721

APC: Only $99

Submit

Any time

2017 ( 1 )

2016 ( 1 )

2015 ( 26 )

2014 ( 51 )

Custom range...

Search Results: 1 - 10 of 736 matches for " Francesc Solsona "
All listed articles are free for downloading (OA Articles)
Page 1 /736
Display every page Item
Biblio-MetReS for user-friendly mining of genes and biological processes in scientific documents
Anabel Usie,Hiren Karathia,Ivan Teixidó,Francesc Solsona,Rui Alves
PeerJ , 2015, DOI: 10.7287/peerj.preprints.232v1
Abstract: One way to initiate the reconstruction of molecular circuits is by using automated text-mining techniques. Developing more efficient methods for such reconstruction is a topic of active research, and those methods are typically included by bioinformaticians in pipelines used to mine and curate large literature datasets. Nevertheless, experimental biologists have a limited number of available user-friendly tools that use text-mining for network reconstruction and require no programming skills to use. One of these tools is Biblio-MetReS. Originally, this tool permitted an on-the-fly analysis of documents contained in a number of web-based literature databases to identify co-occurrence of proteins/genes. This approach ensured results that were always up-to-date with the latest live version of the databases. However, this “up-to-dateness” came at the cost of large execution times. Here we report an evolution of the application Biblio-MetReS that permits constructing co-occurrence networks for genes, GO process, Pathways, or any combination of the three types of entities and graphically represent those entities. We show that the performance of Biblio-MetReS in identifying gene co-occurrence is as least as good as that of other comparable applications (STRING and iHOP). In addition, we also show that the identification of GO processes is on par to that reported in the latest BioCreAtIvE challenge. Finally, we also report the implementation of a new strategy that combines on-the-fly analysis of new documents with preprocessed information from documents that were encountered in previous analyses. This combination simultaneously decreases program run time and maintains “up-to-dateness” of the results. Availability: http://metres.udl.cat/index.php/downloads Contact: metres.cmb@gmail.com
Biblio-MetReS for user-friendly mining of genes and biological processes in scientific documents
Anabel Usie,Hiren Karathia,Ivan Teixidó,Rui Alves,Francesc Solsona
PeerJ , 2015, DOI: 10.7717/peerj.276
Abstract: One way to initiate the reconstruction of molecular circuits is by using automated text-mining techniques. Developing more efficient methods for such reconstruction is a topic of active research, and those methods are typically included by bioinformaticians in pipelines used to mine and curate large literature datasets. Nevertheless, experimental biologists have a limited number of available user-friendly tools that use text-mining for network reconstruction and require no programming skills to use. One of these tools is Biblio-MetReS. Originally, this tool permitted an on-the-fly analysis of documents contained in a number of web-based literature databases to identify co-occurrence of proteins/genes. This approach ensured results that were always up-to-date with the latest live version of the databases. However, this ‘up-to-dateness’ came at the cost of large execution times. Here we report an evolution of the application Biblio-MetReS that permits constructing co-occurrence networks for genes, GO processes, Pathways, or any combination of the three types of entities and graphically represent those entities. We show that the performance of Biblio-MetReS in identifying gene co-occurrence is as least as good as that of other comparable applications (STRING and iHOP). In addition, we also show that the identification of GO processes is on par to that reported in the latest BioCreAtIvE challenge. Finally, we also report the implementation of a new strategy that combines on-the-fly analysis of new documents with preprocessed information from documents that were encountered in previous analyses. This combination simultaneously decreases program run time and maintains ‘up-to-dateness’ of the results. Availability: http://metres.udl.cat/index.php/downloads, Contact: metres.cmb@gmail.com.
Cooperating CoScheduling: A Coscheduling Proposal Aimed at Non-Dedicated Heterogeneous NOWs
Francesc Solsona,Mauricio Hanzich,Emilio Luque,
Francesc Giné
,Porfidio Hernández

计算机科学技术学报 , 2007,
Abstract: Implicit coscheduling techniques applied to non-dedicated homogeneous Networks Of Workstations(NOWs) have shown they can perform well when many local users compete with a single parallel job.Implicit coscheduling deals with minimizing the communication waiting time of parallel processes by identifying the processes in need of coscheduling through gathering and analyzing implicit runtime information,basically communication events.Unfortunately,implicit coscheduling techniques do not guarantee the performance of local and parallel jobs,when the number of parallel jobs competing against each other is increased.Thus,a low efficiency use of the idle computational resources is achieved. In order to solve these problems,a new technique,named Cooperating CoScheduling(CCS),is presented in this work.Unlike traditioual implicit coscheduling techniques,under CCS,each node takes its scheduling decisions from the occurrence of local events,basically communication,memory,Input/Output and CPU,together with foreign events received from cooperating nodes.This allows CCS to provide a social contract based on reserving a percentage of CPU and memory resources to ensure the progress of parallel jobs without disturbing the local users,while coscheduling of communicating tasks is ensured.Besides,the CCS algorithm uses status information from the cooperating nodes to balance the resources across the cluster when necessary.Experimental results in a non-dedicated heterogeneous NOW reveal that CCS allows the idle resources to be exploited efficiently,thus obtaining a satisfactory speedup and provoking an overhead that is imperceptible to the local user.
Biblio-MetReS: A bibliometric network reconstruction application and server
Anabel Usié, Hiren Karathia, Ivan Teixidó, Joan Valls, Xavier Faus, Rui Alves, Francesc Solsona
BMC Bioinformatics , 2011, DOI: 10.1186/1471-2105-12-387
Abstract: This article presents such a tool, Biblio-MetReS, and compares its functioning and results to those of other user-friendly applications (iHOP, STRING) that are widely used. Under similar conditions, Biblio-MetReS creates networks that are comparable to those of other user friendly tools. Furthermore, analysis of full text documents provides more complete reconstructions than those that result from using only the abstract of the document.Literature-based automated network reconstruction is still far from providing complete reconstructions of molecular networks. However, its value as an auxiliary tool is high and it will increase as standards for reporting biological entities and relationships become more widely accepted and enforced. Biblio-MetReS is an application that can be downloaded from http://metres.udl.cat/ webcite. It provides an easy to use environment for researchers to reconstruct their networks of interest from an always up to date set of scientific documents.Reconstructing molecular networks that are responsible for regulating biological processes is a fundamental task in molecular biology, if one is to understand how the different components of those networks contribute to each process. In recent years many alternative types of methods have been proposed to achieve such a reconstruction [1,2]. One type of method relies on the automated analysis of published literature to identify genes and proteins that co-occur in the same document(s) [3-11]. It has been assumed that if two genes or proteins are cited in the same document, there is the likelihood that they functionally interact. In fact, many algorithms, methods and tools have been proposed and implemented in order to reconstruct the network of genes associated with a given gene of interest, by automated mining of the published literature [3-31].Only a small number of these tools are more widely cited (and likely used) by molecular biologists (Table 1). Out of these, iHOP [3] and STRING [5] have a usa
A user-friendly web portal for T-Coffee on supercomputers
Josep Rius, Fernando Cores, Francesc Solsona, Jano I van Hemert, Jos Koetsier, Cedric Notredame
BMC Bioinformatics , 2011, DOI: 10.1186/1471-2105-12-150
Abstract: In this paper we show how PTC can be easily deployed and controlled on a super computer architecture using a web portal developed using Rapid. Rapid is a tool for efficiently generating standardized portlets for a wide range of applications and the approach described here is generic enough to be applied to other applications, or to deploy PTC on different HPC environments.The PTC portal allows users to upload a large number of sequences to be aligned by the parallel version of TC that cannot be aligned by a single machine due to memory and execution time constraints. The web portal provides a user-friendly solution.Nowadays, researchers in the field of genomics increasingly require greater computational resources to perform their experiments. Until recently, typical biological datasets consisted of less than a 100 sequences. A well-endowed desktop computer was therefore sufficient to produce a satisfactory multiple sequence alignment with most software. The situation has now dramatically changed with recent progress in large-scale genomics resulting in the availability of biologically meaningful datasets comprising thousands of sequences. One of the most immediate consequence is the need of alignment tools designed for large-scale analysis that are able to process thousands, or even tens of thousands, of sequences. The computational requirements of these problems consists of months of computer time and terabytes of memory, which in turn requires High-Performance Computing (HPC) systems with thousands of processors, also known as supercomputers. Unfortunately, most supercomputers still provide only very basic user interfaces based on terminals used over several decades. We address this issue by introducing a user-friendly portal that provides controlled access in a versatile way to an accurate multiple sequence alignment tool--Parallel T-Coffee [1]--that runs efficiently on the required computing resources (supercomputer or Grid). Thereby we allow large-scale alignme
C2MS: Dynamic Monitoring and Management of Cloud Infrastructures
Gary A. McGilvary,Josep Rius,í?igo Goiri,Francesc Solsona,Adam Barker,Malcolm Atkinson
Computer Science , 2013,
Abstract: Server clustering is a common design principle employed by many organisations who require high availability, scalability and easier management of their infrastructure. Servers are typically clustered according to the service they provide whether it be the application(s) installed, the role of the server or server accessibility for example. In order to optimize performance, manage load and maintain availability, servers may migrate from one cluster group to another making it difficult for server monitoring tools to continuously monitor these dynamically changing groups. Server monitoring tools are usually statically configured and with any change of group membership requires manual reconfiguration; an unreasonable task to undertake on large-scale cloud infrastructures. In this paper we present the Cloudlet Control and Management System (C2MS); a system for monitoring and controlling dynamic groups of physical or virtual servers within cloud infrastructures. The C2MS extends Ganglia - an open source scalable system performance monitoring tool - by allowing system administrators to define, monitor and modify server groups without the need for server reconfiguration. In turn administrators can easily monitor group and individual server metrics on large-scale dynamic cloud infrastructures where roles of servers may change frequently. Furthermore, we complement group monitoring with a control element allowing administrator-specified actions to be performed over servers within service groups as well as introduce further customized monitoring metrics. This paper outlines the design, implementation and evaluation of the C2MS.
Consejos útiles para mejorar las presentaciones técnicas audiovisuales
Felipe Solsona
ACIMED , 2000,
Abstract:
Best Approach for Low-Risk Superficial Bladder Cancer
Eduardo Solsona
The Scientific World Journal , 2006, DOI: 10.1100/tsw.2006.407
Abstract:
Claves de la evolución demográfica en el cambio de milenio
Solsona,Montse; Viciana,Francisco;
Gaceta Sanitaria , 2004, DOI: 10.1590/S0213-91112004000700004
Abstract: this article describes the main features of the dynamics of demographic change in the population of spain during the twentieth century, emphasizing the most recent developments: population ageing, the establishment of a very low fertility regime and the increasing importance of foreign immigration as well as the impact which all these have on the composition of households. those aspects most directly related to the provision of health and social services is discussed, such as the impact of increased life expectancy on the incidence of illness and handicap in the population, the role of foreign immigration in providing personal services within the family and the health implications of the new model of delayed fertility. finally, the health implications of population projections for the next 50 years are discussed.
Importancia de la participación laboral como determinante del divorcio en Espa a1
Carles Simó,Montse Solsona
Papeles de Geografía , 2003,
Abstract: El potencial de la información retrospectiva recogida en la Encuesta sobre Fecundidad y Familia (1995) nos ha animado a realizar una nueva exploración de la participación laboral como variable explicativa de la propensión a la ruptura de una unión en Espa a de las cohortes de unión de 1966 a 1999. Nuestro propósito es evaluar el poder predictivo relativo de esta variable en un modelo explicativo que incluye tres dimensiones: la socialización de los individuos, las características de la unión y los recursos educativos y profesionales. Los resultados son inequívocos, la participación laboral para las mujeres y la no participación para los hombres, se asocia positivamente con la ruptura de una unión. El efecto neto de esta variable, junto con la condición de ser cohabitante y la de haber crecido en una gran ciudad, presentan un alto poder predictivo en nuestro modelo de regresión exponencial de factores determinantes del divorcio en Espa a.
Page 1 /736
Display every page Item


Home
Copyright © 2008-2017 Open Access Library. All rights reserved.