Gene finding in the chicken genome

Background: Despite the continuous production of genome sequence for a number of organisms,reliable, comprehensive, and cost effective gene prediction remains problematic. This is particularlytrue for genomes for which there is not a large collection of known gene sequences, such as therecently published chicken genome. We used the chicken sequence to test comparative andhomology-based gene-finding methods followed by experimental validation as an effective genomeannotation method.Results: We performed experimental evaluation by RT-PCR of three different computational genefinders, Ensembl, SGP2 and TWINSCAN, applied to the chicken genome. A Venn diagram wascomputed and each component of it was evaluated. The results showed that de novo comparativemethods can identify up to about 700 chicken genes with no previous evidence of expression, andcan correctly extend about 40% of homology-based predictions at the 5' end.Conclusions: De novo comparative gene prediction followed by experimental verification iseffective at enhancing the annotation of the newly sequenced genomes provided by standardhomology-based methods.

OSIRISv1.2: a named entity recognition system for sequence variants of genes in biomedical literature

Background: Single Nucleotide Polymorphisms, among other type of sequence variants, constitute key elements in genetic epidemiology and pharmacogenomics. While sequence data about genetic variation is found at databases such as dbSNP, clues about the functional and phenotypic consequences of the variations are generally found in biomedical literature. The identification of the relevant documents and the extraction of the information from them are hampered by the large size of literature databases and the lack of widely accepted standard notation for biomedical entities. Thus, automatic systems for the identification of citations of allelic variants of genes in biomedical texts are required. Results: Our group has previously reported the development of OSIRIS, a system aimed at the retrieval of literature about allelic variants of genes http://ibi.imim.es/osirisform.html. Here we describe the development of a new version of OSIRIS (OSIRISv1.2, http://ibi.imim.es/OSIRISv1.2.html webcite) which incorporates a new entity recognition module and is built on top of a local mirror of the MEDLINE collection and HgenetInfoDB: a database that collects data on human gene sequence variations. The new entity recognition module is based on a pattern-based search algorithm for the identification of variation terms in the texts and their mapping to dbSNP identifiers. The performance of OSIRISv1.2 was evaluated on a manually annotated corpus, resulting in 99% precision, 82% recall, and an F-score of 0.89. As an example, the application of the system for collecting literature citations for the allelic variants of genes related to the diseases intracranial aneurysm and breast cancer is presented. Conclusion: OSIRISv1.2 can be used to link literature references to dbSNP database entries with high accuracy, and therefore is suitable for collecting current knowledge on gene sequence variations and supporting the functional annotation of variation databases. The application of OSIRISv1.2 in combination with controlled vocabularies like MeSH provides a way to identify associations of biomedical interest, such as those that relate SNPs with diseases.

The Multiscenario Multienvironment BioSecure Multimodal Database (BMDB)

A new multimodal biometric database designed and acquired within the framework of the European BioSecure Network of Excellence is presented. It is comprised of more than 600 individuals acquired simultaneously in three scenarios: 1) over the Internet, 2) in an office environment with desktop PC, and 3) in indoor/outdoor environments with mobile portable hardware. The three scenarios include a common part of audio/video data. Also, signature and fingerprint data have been acquired both with desktop PC and mobile portable hardware. Additionally, hand and iris data were acquired in the second scenario using desktop PC. Acquisition has been conducted by 11 European institutions. Additional features of the BioSecure Multimodal Database (BMDB) are: two acquisitionsessions, several sensors in certain modalities, balanced gender and age distributions, multimodal realistic scenarios with simple and quick tasks per modality, cross-European diversity, availability of demographic data, and compatibility with other multimodal databases. The novel acquisition conditions of the BMDB allow us to perform new challenging research and evaluation of eithermonomodal or multimodal biometric systems, as in the recent BioSecure Multimodal Evaluation campaign. A description of this campaign including baseline results of individual modalities from the new database is also given. The database is expected to beavailable for research purposes through the BioSecure Association during 2008.

Analysis of the folksonomy of freesound

User generated content shared in online communities is often described using collaborative tagging systems where users assign labels to content resources. As a result, a folksonomy emerges that relates a number of tags with the resources they label and the users that have used them. In this paper we analyze the folksonomy of Freesound, an online audio clip sharing site which contains more than two million users and 150,000 user-contributed sound samplescovering a wide variety of sounds. By following methodologies taken from similar studies, we compute some metrics that characterize the folksonomy both at the globallevel and at the tag level. In this manner, we are able to betterunderstand the behavior of the folksonomy as a whole, and also obtain some indicators that can be used as metadata for describing tags themselves. We expect that such a methodology for characterizing folksonomies can be useful to support processes such as tag recommendation or automatic annotation of online resources.

Compleción de una base de datos sobre las paralimpiadas de invierno

El siguiente estudio es el resultado de varios meses de investigación acerca de los posibles equivalentes en español y contextos de uso para términos en francés e inglés utilizados para referirse a materiales deportivos utilizados en las paralimpiadas de invierno y, a su vez, sobre tipologías de prótesis.

Apropament de la traducció jurídica a l'àmbit de la traducció assistida

Aquest treball acadèmic pretén demostrar que la traducció jurídica i la traducció assistida són dues disciplines plenament compatibles, així com establir la utilitat d'apropar aquests dos àmbits. Per tal d'acomplir aquest objectiu, es creen projectes de traducció, bases de dades terminològiques i memòries de traducció de textos jurídics mercantils (contractes d'agència) i civils (certificats de defunció) tot utilitzant el sistema de traducció assistida per ordinador (TAO) Foreign Desk/Frog. Les conclusions del treball es van extreure amb el bolcatge en altres projectes de les memòries generades, així com la reutilització en altres projectes de les BDTs creades.

Investigación terminológica: trabajo y empleo

Contribuir en el « Projet Multilingue » del banco de datos terminológicos y lingüísticos del Gobierno de Canadá, TERMIUM, a través de la investigación de equivalentes de 30 términos/unidades sintagmáticas relacionadas con el trabajo y el empleo.

Recull terminològic sobre economia

Glossari d'equivalents al castellà a partir de termes de l'àmbit de l'economia en anglès i en francès . Aquest treball acadèmic s’emmarca dins del conveni de col·laboració que manté la Universitat Pompeu Fabra (UPF) amb el Banc de dades terminològiques i lingüístiques del Canadà (TERMIUM).

Apprima't

Proyecto final de carrera sobre el desarrollo de una aplicación móvil para plataformas Android, conteniendo fragmentos, actividades y manejos de bases de datos.Se utiliza también el API de Google Maps para mostrar la posición del usuario y puntos precargados desde la base de datos.

SIS: Sistema Integral Sanitario

Desarrollo de una aplicación para responder a la necesidad del ministerio de Sanidad de informatizar todo el sistema sanitario, desde hospitales hasta farmacias.

Gestión sanitaria

El presente documento tratará de recorrer las diferentes fases del ciclo de vida de una aplicación orientada al sector sanitario.

Eina de càlcul de complements salarials

Aquesta memòria descriu el projecte desenvolupat per al departament de personal de l’empresa DEKON Técnicas de Cimentación, S.L. per tal de comptar les hores de treball i calcular els complements salarials. El projecte es divideix en tres fases. La primera és l'anàlisi del procés per establir quines són les necessitats, arribant a la conclusió de que la solució és crear una nova aplicació que substituirà l'actual. La segona és el disseny d'aquesta eina, amb la definició de casos d'ús, la planificació de les bases de dades, l'estat de l'art, etc. Per últim, el desenvolupament i implementació d'aquesta eina a l'empresa.

Generación automática de cuadros de mando vía web

El proyecto consta de una aplicación web destinada a generar cuadros de mandos para distintos clientes de una manera ágil y dinámica reduciendo así los tiempos de implementación de una herramienta de estas características. Dicha aplicación será desarrollada bajo .NET para el lado del servidor y jQuery & google Maps API para el lado cliente, por lo que hace a los informes y la base de datos todo estará implementado con Microsoft SQL Server 2008 R2.

Disseny i implementació d'un sistema de control de registres sanitaris

El treball consisteix en implementar un sistema de BD per donar resposta a la necessitat d'una gran empresa del sector cosmètic que necessita dissenyar un sistema de control dels registres sanitaris que ha de realitzar en els diferents països on es comercialitzen els seus productes.

Diseño e implementación de un SGBD para todo lo relacionado a jugadores, partidos y equipos de baloncesto

Trabajo sobre cómo implementar un sistema de base de datos relacionado con las competiciones de baloncesto.