BioInfo bibliography

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2009
Jantus Lewintre E, Reinoso Martin C, Montaner D, et al. "Analysis of chronic lymphotic leukemia transcriptomic profile: differences between molecular subgroups." Leuk Lymphoma. 2009;50:68-79. Abstract  Download: PDF (2.27 MB)
Montaner D, Minguez P, Al-Shahrour F, Dopazo J. "Gene set internal coherence in the context of functional profiling." BMC Genomics. 2009;10:197.
2008
Al-Shahrour F, Carbonell J, Minguez P, et al. "Babelomics: advanced functional profiling of transcriptomics, proteomics and genomics experiments." Nucleic Acids Res. 2008;36:W341-6. Abstract
Valls J, Grau M, Sole X, et al. "CLEAR-test: combining inference for differential expression and variability in microarray data analysis." J Biomed Inform. 2008;41:33-45. Abstract  Download: PDF (7.23 MB)
Conesa A, Bro R, Garcia-Garcia F, et al. "Direct functional assessment of the composite phenotype through multivariate projection strategies." Genomics. 2008;92:373-83. Abstract  Download: PDF (1.38 MB)
Tarraga J, Medina I, Carbonell J, et al. "GEPAS, a web-based tool for microarray data analysis and interpretation." Nucleic Acids Res. 2008;36:W308-14. Abstract
Montero-Conde C, Martin-Campos JM, Lerma E, et al. "Molecular profiling related to poor prognosis in thyroid carcinoma. Combining gene expression data and biological information." Oncogene. 2008;27:1554-61. Abstract  Download: PDF (267.4 KB)
2007
Al-Shahrour F, Minguez P, Tarraga J, et al. "FatiGO +: a functional profiling tool for genomic data. Integration of functional annotation, regulatory motifs and interaction data with microarray experiments." Nucleic Acids Res. 2007;35:W91-6. Abstract
Al-Shahrour F, Arbiza L, Dopazo H, et al. "From genes to functional classes in the study of biological systems." BMC Bioinformatics. 2007;8:114. Abstract
Conde L, Montaner D, Burguet-Castell J, Tarraga J, Al-Shahrour F, Dopazo J. "Functional profiling and gene expression analysis of chromosomal copy number alterations." Bioinformation. 2007;1:432-5. Abstract
Minguez P, Al-Shahrour F, Montaner D, Dopazo J. "Functional profiling of microarray experiments using text-mining derived bioentities." Bioinformatics. 2007;23:3098-9. Abstract  Download: PDF (70.28 KB)
Montaner D, Al-Shahrour F, Dopazo J. "New Trends in the Analysis of Functional Genomic Data.". In: Progress in Industrial Mathematics at ECMI 2006. Vol. 12. Berlin : Springer ; 2007:. Download: PDF (51.32 KB)
Medina I, Montaner D, Tarraga J, Dopazo J. "Prophet, a web-based tool for class prediction using microarray data." Bioinformatics. 2007;23:390-1. Abstract
Hernandez P, Huerta-Cepas J, Montaner D, et al. "Evidence for systems-level molecular mechanisms of tumorigenesis." BMC Genomics. 2007;8:185. Abstract
Conde L, Montaner D, Burguet-Castell J, et al. "ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling." Nucleic Acids Res. 2007;35:W81-5. Abstract
2006
Al-Shahrour F, Minguez P, Tarraga J, et al. "BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments." Nucleic Acids Res. 2006;34:W472-6. Abstract
Montaner D, Tarraga J, Huerta-Cepas J, et al. "Next station in microarray data analysis: GEPAS." Nucleic Acids Res. 2006;34:W486-91. Abstract
Arbiza L, Duchi S, Montaner D, et al. "Selective pressures at a codon-level predict deleterious mutations in human disease genes." J Mol Biol. 2006;358:1390-404. Abstract