Staff at EMBL
Pablo Minguez Paniagua
Postdoctoral Fellow
Bork Group
EMBL Heidelberg, Meyerhofstraße 1, 69117 Heidelberg, Germany
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Publications
Deciphering a global network of functionally associated post-translational modifications. Minguez, P., Parca, L., Diella, F., Mende, D.R., Kumar, R., Helmer-Citterich, M., Gavin, A.C., van Noort, V. & Bork, P. Mol Syst Biol. 2012 Jul 17;8:599. doi: 10.1038/msb.2012.31. PubMed
The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Szklarczyk, D., Franceschini, A., Kuhn, M., Simonovic, M., Roth, A., Minguez, P., Doerks, T., Stark, M., Muller, J., Bork, P., Jensen, L.J. & von Mering, C. Nucleic Acids Res. 2011 Jan;39(Database issue):D561-8. Epub 2010 Nov 2. PubMed
Assessing the biological significance of gene expression signatures and co-expression modules by studying their network properties. Minguez, P. & Dopazo, J. PLoS One. 2011 Mar 7;6(3):e17474. PubMed
Functional genomics and networks: new approaches in the extraction of complex gene modules. Minguez, P. & Dopazo, J. Expert Rev Proteomics. 2010 Feb;7(1):55-63. PubMed
Selection upon genome architecture: conservation of functional neighborhoods with changing genes. Al-Shahrour, F., Minguez, P., Marques-Bonet, T., Gazave, E., Navarro, A. & Dopazo, J. PLoS Comput Biol. 2010 Oct 7;6(10):e1000953. PubMed
SNOW, a web-based tool for the statistical analysis of protein-protein interaction networks. Minguez, P., Gotz, S., Montaner, D., Al-Shahrour, F. & Dopazo, J. Nucleic Acids Res. 2009 Jul 1;37(Web Server issue):W109-14. Epub 2009 May19. PubMed
Gene set internal coherence in the context of functional profiling. Montaner, D., Minguez, P., Al-Shahrour, F. & Dopazo, J. BMC Genomics. 2009 Apr 27;10:197. PubMed
Controlled ovarian stimulation induces a functional genomic delay of the endometrium with potential clinical implications. Horcajadas, J.A., Minguez, P., Dopazo, J., Esteban, F.J., Dominguez, F., Giudice, L.C., Pellicer, A. & Simon, C. J Clin Endocrinol Metab. 2008 Nov;93(11):4500-10. Epub 2008Aug 12. PubMed
GEPAS, a web-based tool for microarray data analysis and interpretation. Tarraga, J., Medina, I., Carbonell, J., Huerta-Cepas, J., Minguez, P., Alloza, E., Al-Shahrour, F., Vegas-Azcarate, S., Goetz, S., Escobar, P., Garcia-Garcia, F., Conesa, A., Montaner, D. & Dopazo, J. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W308-14. Epub 2008 May28. PubMed
Babelomics: advanced functional profiling of transcriptomics, proteomics and genomics experiments. Al-Shahrour, F., Carbonell, J., Minguez, P., Goetz, S., Conesa, A., Tarraga, J., Medina, I., Alloza, E., Montaner, D. & Dopazo, J. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W341-6. Epub 2008 May31. PubMed
Functional profiling of microarray experiments using text-mining derived bioentities. Minguez, P., Al-Shahrour, F., Montaner, D. & Dopazo, J. Bioinformatics. 2007 Nov 15;23(22):3098-9. Epub 2007 Sep 13. PubMed
FatiGO +: a functional profiling tool for genomic data. Integration of functional annotation, regulatory motifs and interaction data with microarray experiments. Al-Shahrour, F., Minguez, P., Tarraga, J., Medina, I., Alloza, E., Montaner, D. & Dopazo, J. Nucleic Acids Res. 2007 Jul;35(Web Server issue):W91-6. Epub 2007 May 3. PubMed
From genes to functional classes in the study of biological systems. Al-Shahrour, F., Arbiza, L., Dopazo, H., Huerta-Cepas, J., Minguez, P., Montaner, D. & Dopazo, J. BMC Bioinformatics. 2007 Apr 3;8:114. PubMed
Next station in microarray data analysis: GEPAS. Montaner, D., Tarraga, J., Huerta-Cepas, J., Burguet, J., Vaquerizas, J.M., Conde, L., Minguez, P., Vera, J., Mukherjee, S., Valls, J., Pujana, M.A., Alloza, E., Herrero, J., Al-Shahrour, F. & Dopazo, J. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W486-91. PubMed
BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments. Al-Shahrour, F., Minguez, P., Tarraga, J., Montaner, D., Alloza, E., Vaquerizas, J.M., Conde, L., Blaschke, C., Vera, J. & Dopazo, J. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W472-6. PubMed
A function-centric approach to the biological interpretation of microarray time-series. Minguez, P., Al-Shahrour, F. & Dopazo, J. Genome Inform. 2006;17(2):57-66. PubMed
BABELOMICS: a suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments. Al-Shahrour, F., Minguez, P., Vaquerizas, J.M., Conde, L. & Dopazo, J. Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W460-4. PubMed