Oscar M. Rueda

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RESEARCH ARTICLE A Bayesian HMM with random eects and an unknown number of states for DNA copy number analysis

Oscar M. Rueda, O. Rueda, 2011 .

A Flexible Statistical Method for Detecting Genomic Copy-Number Changes Using Hidden Markov Models with Reversible Jump MCMC

Ramón Díaz-Uriarte, Oscar M. Rueda, O. Rueda, 2006 .

Asterias: integrated analysis of expression and aCGH data using an open-source, web-based, parallelized software suite

Mariana L. Neves, Ramón Díaz-Uriarte, Edward R. Morrissey, 2007, Nucleic Acids Res..

A response to Yu et al. "A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array", BMC Bioinformatics 2007, 8: 145

Ramón Díaz-Uriarte, Oscar M. Rueda, 2007, BMC Bioinformatics.

Dynamics of breast cancer relapse reveal late recurring ER-positive genomic subgroups

Bin Liu, José Antonio Seoane Fernández, Carlos Caldas, 2019, Nature.

Improving Breast Cancer Survival Analysis through Competition-Based Multidimensional Modeling

Erhan Bilal, Benjamin A. Logsdon, Gustavo Stolovitzky, 2013, PLoS Comput. Biol..

Flexible and Accurate Detection of Genomic Copy-Number Changes from aCGH

Ramón Díaz-Uriarte, Oscar M. Rueda, O. Rueda, 2007, PLoS Comput. Biol..

Abstract B020: A copy number and expression based classifier for breast cancer tumors

Carlos Caldas, Roslin Russell, Oscar M. Rueda, 2013 .

Detection of recurrent copy number alterations in the genome: taking among-subject heterogeneity seriously

Ramón Díaz-Uriarte, Oscar M. Rueda, O. Rueda, 2009, BMC Bioinformatics.

Asterias: a parallelized web-based suite for the analysis of expression and aCGH data

Ramón Díaz-Uriarte, Patricio Yankilevich, Edward R. Morrissey, 2006 .

Penalized regression elucidates aberration hotspots mediating subtype-specific transcriptional responses in breast cancer

Florian Markowetz, Yinyin Yuan, Oscar M. Rueda, 2011, Bioinform..

RJaCGH: Bayesian analysis of aCGH arrays for detecting copy number changes and recurrent regions

Ramón Díaz-Uriarte, Oscar M. Rueda, O. Rueda, 2009, Bioinform..

Imaging mass cytometry and multiplatform genomics define the phenogenomic landscape of breast cancer

Carlos Caldas, Oscar M. Rueda, Bernd Bodenmiller, 2020, Nature Cancer.

A flexible , accurate , and extensible statistical method for detecting genomic copy-number changes using Hidden Markov Models with Reversible Jump MCMC

Oscar M. Rueda, Ramón Dı́az-Uriarte, 2006 .

ADaCGH: A Parallelized Web-Based Application and R Package for the Analysis of aCGH Data

Ramón Díaz-Uriarte, Oscar M. Rueda, O. Rueda, 2007, PloS one.

Interrogating open issues in cancer precision medicine with patient-derived xenografts

Hans Clevers, Manuel Hidalgo, Eva Budinská, 2017, Nature Reviews Cancer.

Progesterone receptor modulates estrogen receptor-α action in breast cancer

Rory Stark, James Hadfield, Carlos Caldas, 2015, Nature.

Imaging breast cancer using hyperpolarized carbon-13 MRI

Evis Sala, Fiona J. Gilbert, Martin J. Graves, 2020, Proceedings of the National Academy of Sciences.

Finding Recurrent Regions of Copy Number Variation: A Review

Ramón Díaz-Uriarte, Oscar M. Rueda, O. Rueda, 2008 .

A Bayesian HMM with random effects and an unknown number of states for DNA copy number analysis

Ramón Díaz-Uriarte, Cristina Rueda, Oscar M. Rueda, 2013 .

Erratum: The somatic mutation profiles of 2,433 breast cancers refine their genomic and transcriptomic landscapes

Bin Liu, Carlos Caldas, Arusha Oloumi, 2016, Nature Communications.

TP53 Mutation Spectrum in Breast Cancer Is Subtype Specific and Has Distinct Prognostic Relevance

Carlos Caldas, Vessela N. Kristensen, Oscar M. Rueda, 2014, Clinical Cancer Research.

Intersect-then-combine approach: improving the performance of somatic variant calling in whole exome sequencing data using multiple aligners and callers

Carlos Caldas, Oscar M. Rueda, Suet-Feung Chin, 2017, Genome Medicine.

Computational approach to discriminate human and mouse sequences in patient-derived tumour xenografts

Harry W. Clifford, Carlos Caldas, Oscar M. Rueda, 2018, BMC Genomics.

waviCGH: a web application for the analysis and visualization of genomic copy number alterations

Ramón Díaz-Uriarte, Daniel Rico, David G. Pisano, 2010, Nucleic Acids Res..

Master regulators of FGFR2 signalling and breast cancer risk

Kerstin B. Meyer, Carlos Caldas, Xin Wang, 2013, Nature Communications.

A Biobank of Breast Cancer Explants with Preserved Intra-tumor Heterogeneity to Screen Anticancer Compounds

John W. Cassidy, James Hadfield, Carlos Caldas, 2016, Cell.