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Personalized handling of semantic data with MIG

  • Rico, Mariano
  • Camacho, David
  • Corcho, Óscar
Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works. M. Rico, D. Camacho and O. Corcho, "Personalized handling of semantic data with MIG", in 20th International Workshop on Database and Expert Systems Application, Linz, 2009, pp. 64 - 68., This paper shows a semantically-enabled Web application named MIG used to create user profiles which enhances users accessibility by allowing the creation of an user interface adapted to the user needs, the device used, and its preferences. This approach exploits the Semantic Web technologies and the infrastructure and applications created in previous work., This work has been partially funded by the Spanish Ministry of Science and Innovation under the projects HADA (TIN2007-64718), METEORIC (TIN2008-02081) and DEDICON (TIC-4425).
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Ontology-based retrieval of human speech

  • Tejedor Noguerales, Javier
  • García, Roberto
  • Fernández Sánchez, Miriam
  • López-Colino, Fernando
  • Perdrix, Ferrán
  • Macías, José A.
  • Gil, Rosa
  • Oliva, Marta
  • Moya, Diego
  • Colás, José
  • Castells, Pablo
Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works. J. Tejedor, R. M. García, M. Fernández, F. J. López-Colino, F. Perdrix, J. A. Macías, R. Gil, M. Oliva, D. Moya, J. Colás, and P. Castells, "Ontology-based retrieval of human speech", in 18th International Workshop on in Database and Expert Systems Applications, 2007 (DEXA '07), 2007, pp. 485 - 489, As part of the general growth and diversification of media in different modalities, the presence of information in the form of human speech in the world-wide body of digital content is becoming increasingly significant, in terms of both volume and value. We present a semantic- based search model for human speech corpora, stressing the search for meanings rather than words. Our framework embraces the complete recognition/retrieval cycle, from word spotting to semantic annotation, query processing, and search result presentation., This research was supported by the Spanish Ministry of Science and Education (TIN2005-06885).
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Integrating open services for building educational environments

  • Claros Gómez, Iván Darío
  • Cobos, Ruth
  • Guerra, Esther
  • Lara, Juan de
  • Pescador, Ana
  • Sánchez Cuadrado, Jesús
Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.I. D. Carlos, R. Cobos, E. Guerra, J. de Lara, A. Pescador, and J. Sánchez Cuadrado, “Integrating Open Services for Building Educational Environments”, in Global Engineering Education Conference, Berlin (Germany), 2013, pp. 1147-1156, The increasing popularity of Massive Open Online Courses (MOOCs) has raised the need for highly scalable, customizable, open learning environments. At the same time, there is a growing trend to open the services that the companies offer on the web with open APIs and in the form of REST services, facilitating their integration in customized applications. The goal of this work is to show how such open services can be used for the support of on-line educational systems. These services were not created for an education context, so it is necessary to complement it with functionalities for supporting aspects such as evaluations, monitoring or collaboration. This article discusses on the strategies for integrating services for education and presents two cases studies: first, SMLearning, a collaborative learning environment supported by social media platforms Facebook and YouTube, and second, an application for project-based programming courses, customized through a generative architecture, making heavy use of Google services., This research was partly funded by the Spanish National Plan of R+D, project number TIN2011-24139; and by the Autonomous Community of Madrid, e-Madrid project, number S2009/TIC-1650.
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Using adaptive hypermedia to support diversity in secondary schools

  • Muñoz, Félix
  • Ortigosa, Álvaro
Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works. F. Muñoz, and A. Ortigosa, “Using adaptive hypermedia to support diversity in secondary schools”, in Sixth International Conference on Advanced Learning Technologies, 2006, Kerkrade, 2006, pp. 1055-1059, Attention to diversity is growing concern in public secondary schools in Spain. This paper presents an assessment about the use of adaptive hypermedia technology for supporting diversity. Three experiences were carried out with an adaptive course on mathematics to test the effects of this technology on the heterogeneous population of secondary schools. Their results and conclusions are also presented, This work has been funded by the Spanish Ministry of Science and Education, TIN2004-03140.
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A role for insulator elements in the regulation of gene expression response to hypoxia

  • Tiana, Maria
  • Villar, Diego
  • Pérez-Guijarro, Eva
  • Gómez-Maldonado, Laura
  • Moltó, Eduardo
  • Fernández-Miñán, Ana
  • Gómez-Skármeta, José Luis
  • Montoliu, Lluís
  • Del Peso, Luis
Hypoxia inducible factor (HIF) up-regulates the transcription of a few hundred genes required for the adaptation to hypoxia. This restricted set of targets is in sharp contrast with the widespread distribution of the HIF binding motif throughout the genome. Here, we investigated the transcriptional response of GYS1 and RUVBL2 genes to hypoxia to understand the mechanisms that restrict HIF activity toward specific genes. GYS1 and RUVBL2 genes are encoded by opposite DNA strands and separated by a short intergenic region (∼1kb) that contains a functional hypoxia response element equidistant to both genes. However, hypoxia induced the expression of GYS1 gene only. Analysis of the transcriptional response of chimeric constructs derived from the intergenic region revealed an inhibitory sequence whose deletion allowed RUVBL2 induction by HIF. Enhancer blocking assays, performed in cell culture and transgenic zebrafish, confirmed the existence of an insulator element within this inhibitory region that could explain the differential regulation of GYS1 and RUVBL2 by hypoxia. Hence, in this model, the selective response to HIF is achieved with the aid of insulator elements. This is the first report suggesting a role for insulators in the regulation of differential gene expression in response to environmental signals, The Ministerio de Ciencia e Innovación (Spanish Ministry of Science and Innovation, MICINN) grant numbers Nucleic Acids Research, 2012, Vol. 40, No. 5 1925 SAF2008-03147 (to L.del P.), BIO2009-1297 (to L.M.), BFU2010-14839 (to J.L.G.-S.), CSD2007-00008 (to J.L.G.-S.); Comunidad Autónoma de Madrid grant number S-SAL-0311_2006 (to L.del P.); the 7th Research Framework Programme of the European Union grant number METOXIA project ref. HEALTH-F2-2009-222741 (to L.del P.); Junta de Andalucía grant number CVI-3488 (to J.L.G.-S.); CIBERER (ISCIII) (to E.M.). Funding for open access charge: SAF2008-03147 (to L.del P.)
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Regulation of SNAIL1 and E-cadherin function by DNMT1 in a DNA methylation-independent context

  • Espada, Jesús M.
  • Peinado, Héctor
  • Lopez-Serra, Lidia
  • Setién, Fernando
  • López-Serra, Paula
  • Portela, Anna
  • Renart, Jaime
  • Carrasco, Elisa
  • Calvo, María Isabel
  • Juarranz, Ángeles
  • Cano, Amparo
  • Esteller, Manel Asunción Alsina
Mammalian DNA methyltransferase 1 (DNMT1) is essential for maintaining DNA methylation patterns after cell division. Disruption of DNMT1 catalytic activity results in whole genome cytosine demethylation of CpG dinucleotides, promoting severe dysfunctions in somatic cells and during embryonic development. While these observations indicate that DNMT1-dependent DNA methylation is required for proper cell function, the possibility that DNMT1 has a role independent of its catalytic activity is a matter of controversy. Here, we provide evidence that DNMT1 can support cell functions that do not require the C-terminal catalytic domain. We report that PCNA and DMAP1 domains in the N-terminal region of DNMT1 are sufficient to modulate E-cadherin expression in the absence of noticeable changes in DNA methylation patterns in the gene promoters involved. Changes in E-cadherin expression are directly associated with regulation of β-catenin-dependent transcription. Present evidence suggests that the DNMT1 acts on E-cadherin expression through its direct interaction with the E-cadherin transcriptional repressor SNAIL1, MEC (SAF2008-00609 to J.E.); MEC (SAF2007-63051 and Consolider CSD2007-00017); EU (MRTN-CT-2004- 005428 to A.C.); MEC (SAF2004-07729, Consolider CSD2006-49); EU (FP7-CANCERDIP-2007-200620 to M.E.); MEC (SAF2010-19152 to J.R.). M.E. is an ICREA Research Professor. J.E. is a Ramon y Cajal Program researcher (MICIIN). Funding for open access charge: Consolider CSD2006-49 (Grant of the Spanish Science Governmental Department)
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Quantitation of cell-free DNA and RNA in plasma during tumor progression in rats

  • García-Olmo, Dolores C.
  • Picazo, María G.
  • Toboso, Inmaculada
  • Asensio, Ana I.
  • Garcia-Olmo, Damian
Background: To clarify the implications of cell-free nucleic acids (cfNA) in the plasma in neoplastic disease, it is necessary to determine the kinetics of their release into the circulation.Methods: To quantify non-tumor and tumor DNA and RNA in the plasma of tumor-bearing rats and to correlate such levels with tumor progression, we injected DHD/K12-PROb colon cancer cells subcutaneously into syngenic BD-IX rats. Rats were sacrificed and their plasma was analyzed from the first to the eleventh week after inoculation.Results: The release of large amounts of non-tumor DNA into plasma was related to tumor development from its early stages. Tumor-specific DNA was detected in 33% of tumor-bearing rats, starting from the first week after inoculation and at an increasing frequency thereafter. Animals that were positive for tumor DNA in the plasma had larger tumors than those that were negative (p = 0.0006). However, the appearance of both mutated and non-mutated DNA fluctuated with time and levels of both were scattered among individuals in each group. The release of non-tumor mRNA was unaffected by tumor progression and we did not detect mutated RNA sequences in any animals.Conclusions: The release of normal and tumor cfDNA into plasma appeared to be related to individual-specific factors. The contribution of tumor DNA to the elevated levels of plasma DNA was intermittent. The release of RNA into plasma during cancer progression appeared to be an even more selective and elusive phenomenon than that of DNA, This work was financed in part by grants from Fondo Europeo de Desarrollo Regional and Fondo de Investigación Sanitaria (nos. PI031540 and PS09/00874) and from Junta de Comunidades de Castilla La Mancha (no. 03047), Spain
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Peginesatide in patients with anemia undergoing hemodialysis

  • Fishbane, Steven A.
  • Schiller, Brigitte M.
  • Locatelli, Francesco
  • Covic, Adrian Constantin
  • Provenzano, Robert
  • Wiȩcek, Andrzej
  • Levin, Nathan W.
  • Kaplan, Mark R.
  • Macdougall, Iain C.
  • Francisco, Carol A.
  • Mayo, Martha R.
  • Polu, Krishna R.
  • Duliège, Anne Marie
  • Besarab, Anatole
BACKGROUND: Peginesatide, a synthetic peptide-based erythropoiesis- stimulating agent (ESA), is a potential therapy for anemia in patients with advanced chronic kidney disease. METHODS: We conducted two randomized, controlled, open-label studies (EMERALD 1 and EMERALD 2) involving patients undergoing hemodialysis. Cardiovascular safety was evaluated by analysis of an adjudicated composite safety end point - death from any cause, stroke, myocardial infarction, or serious adverse events of congestive heart failure, unstable angina, or arrhythmia - with the use of pooled data from the two EMERALD studies and two studies involving patients not undergoing dialysis. In the EMERALD studies, 1608 patients received peginesatide once monthly or continued to receive epoetin one to three times a week, with the doses adjusted as necessary to maintain a hemoglobin level between 10.0 and 12.0 g per deciliter for 52 weeks or more. The primary efficacy end point was the mean change from the baseline hemoglobin level to the mean level during the evaluation period; noninferiority was established if the lower limit of the two-sided 95% confidence interval was -1.0 g per deciliter or higher in the comparison of peginesatide with epoetin. The aim of evaluating the composite safety end point in the pooled cohort was to exclude a hazard ratio with peginesatide relative to the comparator ESA of more than 1.3. RESULTS: In an analysis involving 693 patients from EMERALD 1 and 725 from EMERALD 2, peginesatide was noninferior to epoetin in maintaining hemoglobin levels (mean between-group difference, -0.15 g per deciliter; 95% confidence interval [CI], -0.30 to -0.01 in EMERALD 1; and 0.10 g per deciliter; 95% CI, -0.05 to 0.26 in EMERALD 2). The hazard ratio for the composite safety end point was 1.06 (95% CI, 0.89 to 1.26) with peginesatide relative to the comparator ESA in the four pooled studies (2591 patients) and 0.95 (95% CI, 0.77 to 1.17) in the EMERALD studies. The proportions of patients with adverse and serious adverse events were similar in the treatment groups in the EMERALD studies. The cardiovascular safety of peginesatide was similar to that of the comparator ESA in the pooled cohort. CONCLUSIONS: Peginesatide, administered monthly, was as effective as epoetin, administered one to three times per week, in maintaining hemoglobin levels in patients undergoing hemodialysis, Supported by Affymax and Takeda Pharmaceutical
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Detecting the same text in different languages

  • Koroutchev, Kostadin
  • Cebrián Ramos, Manuel
Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works. K. Koroutchev, and M. Cebrian, “Detecting the same text in different languages”, in Information Theory Workshop, 2006. ITW '06 Punta del Este. IEEE, Punta del Este, Uruguay, 2006, pp. 337-341, Compression based similarity distances have the main drawback of needing the same coding scheme for the objects to be compared. When two texts are translated, there exists significant similarity with no literal coincidence. In this article, we present an algorithm that compares the redundancy structure of the data extracted by means of a Lempel- Ziv compression scheme. Each text is presented as a graph and two texts are considered similar with our measure if they have the same referential topology when compressed. We give empirical evidence that this measure detects similarity between data coded in different languages., This work was partially supported by grant TIN 2004-07676-G01 of the Spanish Ministry of Education and Culture. Partially supported by grant TSI 2005-08255-C07-06 of the Spanish Ministry of Education and Culture
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Adherence to dietary recommendations among Spanish and immigrant adolescents living in Spain: The AFINOS study, Adherencia a las recomendaciones nutricionales entre adolescentes Españoles e inmigrantes residentes en España: Estudio AFINOS

  • Esteban-Gonzalo, Laura
  • Veiga, Óscar Luis
  • Gómez-Martínez, Sonia
  • Regidor, Enrique
  • Martínez Parés, David
  • Marcos, Ascensión
  • Calle, María Elisa
Objectives: This study compares the adherence of immigrant and Spanish adolescents residing in the Madrid region (Spain) to national dietary recommendations. The factors compared were the consumption of items from the eight basic food groups (vegetables, fruits, bread/cereals, meat, eggs, fish, legumes and milk/dairy products), including the excessive or deficient consumption of eggs, meat and fish. In addition, the evaluation of excessive sweet foods or soft drinks in the diet was also considered. Subsequently, the influence of length of residence on dietary habits was examined. Materials and methods: Self-reported data were co - llected in a cross-sectional survey conducted over the period November 2007 to February 2008. The study participants were a representative sample of adolescents aged 13 to 17 years (n = 2,081, 1,055 girls) living in the Madrid region. Participants were recruited from secondary schools (grades 7th to 10th) randomly selected according to the geographic distribution of adolescents in the region. Results: Immigrant adolescents showed a greater likelihood of not fulfilling recommendations for the consumption of meat, fish, eggs, legumes, bread/cereals, and milk/dairy products. Their diets were also more likely to lack sufficient fish and they also consumed more eggs and more sweet foods and soft drinks than their native counterparts. Spanish adolescents were more likely not to meet recommendations for the intake of vegetables. Length of residence weakly affected dietary habits, with both negative and positive effects observed. Conclusion: The likelihood of not fulfilling dietary recommendations was higher among the immigrant adolescents with the exception of the intake of fruits and vegetables., Objetivos: Este estudio compara la adherencia a las recomendaciones nutricionales de adolescentes inmigrantes y españoles residentes en la Comunidad de Madrid, España. Se comparó el consumo de ocho grupos principales de alimentos (verduras, frutas, pan/cereales, carne, huevos, pescado, legumbres, leche/derivados lácteos) incluyendo el consumo excesivo y deficiente de huevos, carne y pescado. También fue valorado el consumo excesivo de dulces y bebidas azucaradas. Posteriormente se analizó la influencia del tiempo de residencia en España sobre los mencionados hábitos de dieta. Material y método: Se llevó a cabo un estudio transversal en el que fueron recogidos datos auto-reportados durante el periodo comprendido entre noviembre 2007 y febrero 2008. Se obtuvo una muestra representativa de adolescentes con edades comprendidas entre 13 y 17 años (n = 2.081, 1.055 mujeres) residentes en la Comunidad de Madrid. Los participantes pertenecían a centros de enseñanza secundaria seleccionados aleatoriamente según la distribución geográfica de los adolescentes en la región. Resultados: Los inmigrantes adolescentes presentaron una mayor probabilidad de no cumplir las recomendaciones nutricionales para el consume de carne, pescado, legumbres, pan/cereales y leche/derivados, de consumir una cantidad insuficiente de pescado y más dulces y bebidas azucaradas que sus compañeros españoles. Los adolescentes españoles mostraron una mayor probabilidad de no cumplir con la recomendación establecida para verduras. El tiempo de residencia afectó débilmente los hábitos de dieta, asociando aspectos tanto positivos como negativos. Conclusiones: La probabilidad de no cumplir las recomendaciones nutricionales fue mayor entre los adolescentes inmigrantes con excepción del consumo de frutas y verduras., The AFINOS Study was supported by grant DEP2006- 56184-C03-01-02-03/PREV from the Spanish Ministry of Education and Science and co-funded by FEDER funds from the European Union
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