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Consulteu per autor "Universitat de Vic. Grup de Recerca en Bioinformàtica i Estadística Mèdica"

Consulteu per autor "Universitat de Vic. Grup de Recerca en Bioinformàtica i Estadística Mèdica"

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  • A dynamic model for the risk of bladder cancer progression
    Porta, Núria; Calle, M. Luz; Malats i Riera, Núria; Gómez, Guadalupe (Wiley, 2012)
    We propose a multistate modeling approach to describe the observed evolution of patients diagnosed with nonmuscle- invasive bladder cancer. On the basis of data from the Spanish Bladder Cancer/EPICURO study, we adjust a ...
  • A Semiparametric hierarchical method for a regression model with an interval-censored covariate
    Calle, M. Luz; Gómez, Guadalupe (Blackwell Publishers, 2005)
    A Bayesian framework is proposed for analysing regression models in which one of the covariates is interval-censored. Such a situation was encountered in an AIDS clinical trial in which the goal was to examine the ...
  • Application of Multi-SNP Approaches Bayesian LASSO and AUC-RF to Detect Main Effects of Inflammatory-Gene Variants Associated with Bladder Cancer Risk
    López de Maturana, Evangelina; Ye, Yuanging; Calle, M. Luz; Rothman, Nathaniel; Urrea Gales, Víctor; Kogevinas, Manolis; Petrus, Sandra; Chanock, Stephen; Tardón, Adonina; García-Closas, Montserrat; González-Neira, Anna; Vellalta, Gemma; Carrato, Alfredo; Navarro, Arcadi; Lorente-Galdós, Belén; Silverman, Debra T.; Real, Francisco X.; Wu, Xifeng; Malats i Riera, Núria (Public Library of Science, 2013)
    The relationship between inflammation and cancer is well established in several tumor types, including bladder cancer. We performed an association study between 886 inflammatory-gene variants and bladder cancer risk in ...
  • AUC-RF: A New Strategy for Genomic Profiling with Random Forest
    Calle, M. Luz; Urrea Gales, Víctor; Boulesteix, Anne-Laure; Malats i Riera, Núria (Karger, 2011)
    Objective: Genomic profiling, the use of genetic variants at multiple loci simultaneously for the prediction of disease risk, requires the selection of a set of genetic variants that best predicts disease status. The ...
  • Árboles de clasificación y regresión en la investigación biomédica
    Calle, M. Luz; Sánchez Espigares, Josep A. (Doyma, 2007)
  • Chromatin-Bound IkBa Regulates a Subset of Polycomb Target Genes in Differentiation and Cancer
    Mulero, María Carmen; Ferres-Marco, Dolors; Islam, Abul; Margalef, Pol; Pecoraro, Matteo; Toll, Agustí; Drechsel, Nils; Charneco, Cristina; Davies, Shelly; Bellora, Nicolás; Gallardo, Fernando; López-Arribillaga, Erika; Asensio-Juan, Elena; Rodilla, Verónica; González, Jessica; Iglesias, Mar; Shih, Vincent; Albà, M. Mar; Di Croce, Luciano; Hoffmann, Alexander; Miyamoto, Shigeki; Villà-Freixa, Jordi; López Bigas, Núria; Keyes, William M.; Domínguez, María; Bigas, Anna; Espinosa, Lluís (Elsevier, 2013)
    IkB proteins are the primary inhibitors of NF-kB. Here, we demonstrate that sumoylated and phosphorylated IkBa accumulates in the nucleus of keratinocytes and interacts with histones H2A and H4 at the regulatory region ...
  • An efficient algorithm to perform multiple testing in epistasis screening
    Van Lishout, François; Mahachie John, Jestinah M.; Gusareva, Elena S.; Urrea Gales, Víctor; Cleynen, Isabelle; Théâtre, Emilie; Charloteaux, Benoït; Calle, M. Luz; Wehenkel, Louis; Van Steen, Kristel (Biomed Central, 2013)
    Background: Research in epistasis or gene-gene interaction detection for human complex traits has grown over the last few years. It has been marked by promising methodological developments, improved translation efforts ...
  • FAM-MDR: a flexible family-based multifactor dimensionality reduction technique to detect epistasis using related individuals
    Cattaert, Tom; Urrea Gales, Víctor; Naj, Adam C.; De Lobel, Lizzy; De Wit, Vanessa; Fu, Mao; Mahachie John, Jestinah M.; Shen, Haiqing; Calle, M. Luz; Ritchie, Marylyn D.; Edwards, Todd L.; Van Steen, Kristel (04-2010)
    We propose a novel multifactor dimensionality reduction method for epistasis detection in small or extended pedigrees, FAM-MDR. It combines features of the Genome-wide Rapid Association using Mixed Model And Regression ...
  • Gene Promoter Evolution Targets the Center of the Human Protein Interaction Network
    Planas Cuchi, Jordi; Serrat i Jurado, Josep Maria (Public Library of Science, 2010)
    Assessing the contribution of promoters and coding sequences to gene evolution is an important step toward discovering the major genetic determinants of human evolution. Many specific examples have revealed the evolutionary ...
  • Genetic Susceptibility to Distinct Bladder Cancer Subphenotypes
    Guey, Lin T.; García-Closas, Montserrat; Murta-Nascimento, Cristiane; Lloreta, Josep; Palencia, Laia; Kogevinas, Manolis; Rothman, Nathaniel; Vellalta, Gemma; Calle, M. Luz; Marenne, Gaëlle; Tardón, Adonina; Carrato, Alfredo; García Closas, Reina; Serra, Consol; Silverman, Debra T.; Chanock, Stephen; Real, Francisco X.; Malats i Riera, Núria (Elsevier, 2010)
    Background: Clinical, pathologic, and molecular evidence indicate that bladder cancer is heterogeneous with pathologic/molecular features that define distinct subphenotypes with different prognoses. It is conceivable ...
  • Genetic Variation in the TP53 Pathway and Bladder Cancer Risk. A Comprehensive Analysis
    Pineda, S.; Milne, R.L.; Calle, M. Luz; Rothman, Nathaniel; López de Maturana, Evangelina; Herranz, J.; Kogevinas, Manolis; Chanock, Stephen; Tardón, Adonina; Márquez, M.; Guey, Lin T.; García-Closas, Montserrat; Lloreta, Josep; Baum, E.; González-Neira, Anna; Carrato, Alfredo; Navarro, Arcadi; Silverman, Debra T.; Real, Francisco X.; Malats i Riera, Núria (Public Library of Science, 2014)
    Introduction: Germline variants in TP63 have been consistently associated with several tumors, including bladder cancer, indicating the importance of TP53 pathway in cancer genetic susceptibility. However, variants in ...
  • Global adaptive rank truncated product method for gene-set analysis in association studies
    Vilor Tejedor, Natàlia; Calle, M. Luz (Wiley, 2014)
    Gene set analysis (GSA) aims to assess the overall association of a set of genetic variants with a phenotype and has the potential to detect subtle effects of variants in a gene or a pathway that might be missed when ...
  • Influence of the g conformation of Ser and Thr on the structure of transmembrane helices
    Deupi, Xavier; Olivella, Mireia; Sanz, Arantxa; Dölker, Nicole; Campillo Grau, María Mercedes; Pardo Carrasco, Leonardo (Elsevier, 2010)
    In order to study the influence of Ser and Thr on the structure of transmembrane helices we have analyzed a database of helix stretches extracted from crystal structures of membrane proteins and an ensemble of model ...
  • Interval censoring: identifiability and the constant-sum property
    Oller, Ramon; Gómez, Guadalupe; Calle, M. Luz (Oxford University Press, 2007)
    The constant-sum property given in Oller et al. (2004) for censoring models justifies the use of a simplified likelihood to obtain the nonparametric maximum likelihood estimator of the lifetime distribution. In this paper ...
  • MB-MDR: Model-Based Multifactor Dimensionality Reduction for detecting interactions in high-dimensional genomic data
    Calle, M. Luz; Urrea Gales, Víctor; Malats i Riera, Núria; Van Steen, Kristel (05-02-2008)
    L’anàlisi de l’efecte dels gens i els factors ambientals en el desenvolupament de malalties complexes és un gran repte estadístic i computacional. Entre les diverses metodologies de mineria de dades que s’han proposat per ...
  • mbmdr: an R package for exploring gene–gene interactions associated with binary or quantitative traits
    Calle, M. Luz; Urrea Gales, Víctor; Malats i Riera, Núria; Van Steen, Kristel (Oxford University Press, 2010)
    Summary: We describe mbmdr, an R package for implementing the model-based multifactor dimensionality reduction (MB-MDR) method. MB-MDR has been proposed by Calle et al. as a dimension reduction method for exploring ...
  • Methylglyoxal Produced by Amyloid- Peptide-Induced Nitrotyrosination of Triosephosphate Isomerase Triggers Neuronal Death in Alzheimer’s Disease
    Tajes, M.; Eraso-Pichot, A.; Rubio-Moscardó, F.; Guivernau, B.; Ramos-Fernández, E.; Bosch-Morató, M.; Guix, F.X.; Clarimón, J.; Miscione, G.P.; Boada, M.; Gil-Gómez, G.; Suzuki, T.; Molina, H.; Villà-Freixa, Jordi; Vicente, R.; Muñoz, F.J. (IOP Press, 2014)
    Amyloid-β peptide (Aβ) aggregates induce nitro-oxidative stress, contributing to the characteristic neurodegeneration found in Alzheimer's disease (AD). One of the most strongly nitrotyrosinated proteins in AD is the ...
  • Model-Based Multifactor Dimensionality Reduction for detecting epistasis in case–control data in the presence of noise
    Cattaert, Tom; Calle, M. Luz; Dudek, Scott M.; Mahachie John, Jestinah M.; Van Lishout, François; Urrea Gales, Víctor; Ritchie, Marylyn D.; Van Steen, Kristel (Blackwell, 2011)
    Analyzing the combined effects of genes and/or environmental factors on the development of complex diseases is a great challenge from both the statistical and computational perspective, even using a relatively small number ...
  • New Model of Cystic Fibrosis Transmembrane Conductance Regulator Proposes Active Channel-like Conformation
    Dalton, James; Kalid, Ori; Schushan, Maya; Ben-Tal, Nir; Villà-Freixa, Jordi (American Chemical Society, 2012)
    The cystic fibrosis transmembrane conductance regulator (CFTR) is an unusual ABC transporter, functioning as a chloride channel critical for fluid homeostasis in multiple organs. Disruption of CFTR function is associated ...
  • Nonparametric Bayesian estimation from interval-censored data using Monte Carlo methods
    Calle, M. Luz; Gómez, Guadalupe (Elsevier, 2001)
    We study the estimation of the survival function based on interval-censored data from a nonparametric Bayesian point of view. Interval censoring arises when the time variable of interest cannot be directly observed and ...

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