Publications
Castellanos, E., Rosas, I., Negro, A., Gel, B., Alibés, A., Baena, N., Pineda, M., Pi, G., Pintos, G., Salvador, H., Lazaro, C., Blanco, I., Vilageliu, L., Brems, H., Grinberg, D., Legius, E., Serra, E. "Mutational spectrum by phenotype: panel-based NGS testing of patients with clinical suspicion of RASopathy and children with multiple café-au-lait macules" (2020) Clinical Genetics, 97, 264-275 link
González, B. , Fece de la Cruz, F. , Samuelsson, J.K., Alibés, A., Alonso, S. "Epigenetic and transcriptional dysregulation of VWA2 associated with a MYC-driven oncogenic program in colorectal cancer" (2018) Scientific Reports, 8, Article num: 11097 link
Alonso, S., González, B., Alibés, A., Perucho, M. "Analysis of Somatic DNA Methylation Alterations of Genes Encoding Cell Surface Metallopeptidases in Colorectal Cancer" Proteases and Cancer in the series Methods in Molecular Biology, Vol. 1731, Humana Press. Eds. Santiago Cal and Álvaro Obaya (2018), 1731:271-294 link
Samuelsson J.K., Dumbovic G., Polo C., Moreta C., Alibés A., Ruiz-Larroya T., Giménez-Bonafé P., Alonso S., Forcales S.V, Perucho M. "Helicase Lymphoid-Specific Enzyme Contributes to the Maintenance of Methylation of SST1 Pericentromeric Repeats That Are Frequently Demethylated in Colon Cancer and Associate with Genomic Damage" (2017) Epigenomes, 1, 2 link
Kato F., Fiorentino F.P., Alibés A., Perucho M., Sánchez-Céspedes M., Kohno T., Yokota J. "MYCL is a Target of a BET Bromodomain Inhibitor, JQ1, on Growth Suppression Efficacy in Small Cell Lung Cancer Cells" (2016) Oncotarget, 7, 77378-77388 link
Hosseini A., Alibés A., Noguera-Julian M., Gil V., Paredes R., Soliva R., Orozco M., Guallar V., "Computational Prediction of HIV-1 Resistance to Protease Inhibitors" (2016) Journal of Chemical Information and Modeling, 56, 915-923 link (Cited in El País)
Alonso S., Alibés A., Perucho M., "Tècniques de diagnòstic molecular aplicades a l’estudi del càncer" (2015) Treballs de la Societat Catalana de Biologia , 66, 53-61 link
Chen W.H., van Noort V., Lluch-Senar M., Hennrich M.L., H Wodke J.A.H., Yus E., Alibés A., Roma G., Mende D.R., Pesavento C., Typas A., Gavin A.C., Serrano L., Bork P. "Integration of multi-omics data of a genome-reduced bacterium: Prevalence of post-transcriptional regulation and its correlation with protein abundances" (2016) Nucleic Acids Research, 44, 1192-1202 link
Wodke, J.A.H.*, Alibés, A.*, Hermoso, A., Cozzuto, L., Yus, E., Lluch-Senar, M., Serrano, L., Roma, G. "MyMpn: a database for the systems biology model organism Mycoplasma pneumoniae" (2015) Nucleic Acids Research, 43 (Database issue), D618-D623link
Mancuso, F.M., Montfort, M., Carreras, A., Alibés, A., Roma, G. "HumMeth27QCReport: an R package for quality control and primary analysis of Illumina Infinium methylation data" (2011) BMC Research Notes, 4, 546 link
De Masi, F.*, Grove, C.A.*, Vedenko, A., Alibés, A., Gisselbrecht, S.S., Serrano, L., Bulyk, M.L., Walhout, A.J.M. "Using a structural and logics systems approach to infer bHLH–DNA binding specificity determinants" (2011) Nucleic Acids Research, 39, 4553-4563 link
Nadra, A.D., Serrano, L., Alibés, A. "DNA-binding specificity prediction with FoldX" (2011) Methods in Enzymology: Synthetic Biology, Part B - Computer Aided Design and DNA Assembly, 498, 3-18 link
Muñoz, I.G., Prieto, J., Subramanian, S., Coloma, J., Redondo, P., Villate, M., Merino, N., Marenchino, M., D'Abramo, M., Gervasio, F.L., Grizot, S., Daboussi, F., Smith, J., Chion-Sotinel, I., Pâques, F., Duchateau, P., Alibés, A., Stricher, F., Serrano, L., Blanco, F.J., Montoya, G. "Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus" (2011) Nucleic Acids Research, 39, 729-743 link
Alibés, A.*, Nadra, A.D.*, De Masi, F., Bulyk, M.L., Serrano, L., Stricher, F. "Using protein design algorithms to understand the molecular basis of disease caused by protein-DNA interactions: the Pax6 example" (2010) Nucleic Acids Research, 38, 7422-7431 link
Alibés, A., Serrano, L., Nadra, A.D. "Structure-based DNA binding prediction and design" Engineered Zinc Finger Proteins in the series Methods in Molecular Biology, Vol. 649, Humana Press. Eds. Joel Mackay and David Segal (2010), 77-88. abstract book link help page
Redondo, P., Prieto, J., Muñoz, I.G., Alibés, A., Stricher, F., Serrano, L., Cabaniols, J-P., Daboussi, F., Arnould, S., Perez, C., Duchateau, P., Pâques, F., Blanco, F.J., Montoya, G. "Molecular basis of xeroderma pigmentosum group C DNA recognition by engineered meganucleases" (2008) Nature, 456, 107-11: link (Rated 'Exceptional' by F1000 Biology, cited in ElPais)
Marcaida, M.J., Prieto, J., Redondo, P., Nadra, A.D., Alibés, A., Serrano, L., Grizot, S., Duchateau, P., Pâques, F., Blanco, F.J., Montoya, G. "Crystal structure of I-DmoI in complex with its target DNA provides new insights into meganuclease engineering" (2008) Proc. Natl Acad. Sci USA, 105, 16888-16893: link
Alibés, A.*, Cañada, A.*, Díaz-Uriarte, R. "PaLS: filtering common literature, biological terms and pathway information" (2008) Nucleic Acids Research 36 (Web Server Issue) W364-W367: link
Díaz-Uriarte, R., Alibés, A., Morrissey, E.R., Cañada, A., Rueda, O.M., Neves, M.L., "Asterias: integrated analysis of expression and aCGH data using an open-source, web-based, parallelized software suite" (2007) Nucleic Acids Resarch 35 (Web Server issue) W75-W80: link
Alibés, A., Yankilevich, P., Cañada, A., Díaz-Uriarte, R. "IDconverter and IDClight: Conversion and annotation of gene and protein IDs" (2007) BMC Bioinformatics, 8:9 link
Alibés, A., Morrissey, E.R., Cañada, A., Rueda, O., Casado, D., Yankilevich, P., Díaz-Uriarte, R. "Asterias: a parallelized web-based suite for the analysis of expression and aCGH data" (2007) Cancer Informatics, 2, 1 link
Robinson-Rechavi, M., Alibés, A., Godzik, A. "Contributions of electrostatic interactions, compactness and quaternary structure to protein thermostability: lessons from structural genomics of Thermotoga maritima" (2006) Journal of Molecular Biology, 356, 547-557 link
Astrophysics:
Alibés, A., Labay, J., and Canal, R. "Galactic Cosmic Rays from Superbubbles and the Abundances of Lithium, Beryllium, and Boron" (2002) The Astrophysical Journal, 571, 326. link
Alibés, A., Labay, J., and Canal, R. "Chemical evolution and abundance gradients in the Milky Way" (2001) arXiv:astro-ph/0107016 link
Alibés, A., Labay, J., and Canal, R. "Galactic chemical abundance evolution in the solar neighborhood up to the iron peak" (2001) Astronomy and Astrophysics, 370, 1103. link
Alibés, A., Labay, J., and Canal, R."Galactic chemical evolution and the abundances of lithium, beryllium and boron" (2001) Cosmic evolution, World Scientific, 129 link
Alibés, A., Labay, J., and Canal, R."Light element evolution at the Solar Neighborhood" (2000) Light Elements and Their Evolution. IAU Symposia, 198, 563 link
Alibés, A., and Canal, R. "Light Element Evolution in the Galactic Halo" (1999) LiBeB Cosmic Rays, and Related X- and Gamma-Rays, ASP Conference Series, Vol. 171., Astronomical Society of the Pacific, 131 link
* Joint first authors