Cell biology and Biotechnology

Bioinformatics and Computational Biology

Relevant publications (all times selected)

  1. Barrios I, Cases I, Martínez-Redondo G, Fernández* R & Rojas AM*. Decoding proteome functional information using protein language models. 2024. NARGAB: /doi.org/10.1093/nargab/lqae078.
  2. Martínez-Redondo* GI, Barrios I, Vázquez-Valls M, Rojas AM* & Fernández R*, Preprint. Illuminating the dark proteome across the Animal Tree of Life. 2024. doi: https://doi.org/10.1101/2024.02.28.582465
  3. Alegre-Marti, A. et al., 2023. A hotspot for post-translational modifications on the androgen receptor dimer interface drives pathology and resistance to anti-androgens. Science Advances. https://www.science.org/doi/10.1126/sciadv.ade2175. 
  4. Jiménez-Panizo, Alegre-Marti, A., Tettey, T. Fetweiss,G.; Abella-Monleon.M.; Anton, R.; Johnson, T.; Kim, S.; Lousi, S., Nuñez-Barrios, I.; Font-Diaz, J.; Caelles, C.; Valledor, A.; Perez, P.; Rojas, A.; Fernández-Recio, J.; Presman, D.; Hager, D.; Fuentes-Prior, P., Estébanez-Perpiñá,E. 2022. The multivalency of the glucocorticoid receptor ligand-binding domain explains its manifold physiological activities. Nucleic Acids Research doi: 10.1093/nar/gkac1119.
  5. Mencucci, MV, Rojas-Mendoza, AM., Andres-León,E., Lisi-Roman,C., Gagliardino, JJ, Abba,MC., Maiztegui,B. 2022 Identification of novel microRNAs associated with type 2 diabetes by an integrative bioinformatic analysis. Human Gene . Doi:10.1016/j.humgen.2022.201125.
  6. Verdugo-Sivianes, EM, Rojas, AM, Muñoz-Galván,S., Otero-Albiol, D., Carnero, A. 2020. Mutation of SPINOPHILIN (PPP1R9B) found in human tumors promotes the tumorigenic and stemness properties of cells. Theranostics. doi:10.7150/thno.53572 
  7. Santana-Molina, C, Rivas-Marin, E, Rojas, AM, & Devos, D.P. 2020. Origin and evolution of polycyclic triterpene synthesis. Molecular Biology and Evolution. Doi: 10.1093/molbev/msaa054 
  8. Martín-Doncel, E., Rojas, AM, Cantarero, L, & Lazo P.A., 2019 VRK1 functional insufficiency due to alterations in protein stability or kinase activity of human VRK1 pathogenic variants implicated in neuromotor syndromes. Scientific Reports. Doi: 10.1038/s41598-019-49821-7.
  9. Jiménez-Panizo, A., Pérez P., Rojas A., Fuentes-Prior, P., Estébanez-Perpiña, E. 2019. Non-canonical dimerization of the androgen receptor and other nuclear receptors: implications for human disease. Endocrine Related Cancer. DOI: 10.1530/ERC-19-0132. 
  10. Andrés-León and Ana M. Rojas. 2019. miARma-Seq, a comprehensive pipeline for the simultaneous study and integration of miRNA and mRNA expression data. METHODS. DOI: 10.1016/j.ymeth.2018.09.002 
  11. Fuentes-Prior,P., Rojas, A., Hagler, AT., Estebanez-Perpina,E. (2018) Diversity of Quaternary structures regulates Nuclear receptor activities. Trends in Biochemical Sciences. DOI:10.1016/j.tibs.2018.09.005.
  12. Silva.J., Aivio, S., Knoble, PA., Casali, A., Vinaixa, M., Garcia-Cao, I., Coyaud, E., Jourdain, AA., Perez-Ferreros, P., Rojas, AM., Antolin-Fontes, A., Samino-Gene, S., Raught, B., Gozalez-Reyes, A., Ribas de Pouplana, L., Doherty, AJ., Yanes, O, and TH Stracker. (2018) EXD2 governs germ stem cell homeostasis and lifespan by promoting mitoribosome integrity and translation. Nature Cell Biology. DOI:10.1038/s41556-017-0016-9.   
  13. Andres-Leon, E., Cases, I., Alonso,S.* and Rojas, A.M.*. (2017) Novel miRNA-mRNA interactions conserved in essential cancer pathways. Scientific Reports DOI:10.1038/srep46101.
  14. Castaneda-Garcia, A; Prieto, A.I., Rodriguez-Beltran, J., Alonso, N., Cantillon, D., Costas. C., Perez-Lago, L., Zegeye, E.D.., Herranz, M., Plocinski, P., Tonjum, T., Garcia de Viedma, D., Paget, M, Waddell, S.J., Rojas, A.M.*, Doherty, A.J.*, and Blazquez, J* (2017) A non-canonical mismatch repair pathway in prokaryotes. Nature communications DOI:10.1038/ncomms14246.
  15. Tristán-Clavijo E, G.-Scholl F, Macaya, A, Iglesias G, Rojas AM, Lucas, M, Castellano A, and Martinez-Mir, A. (2016) Dominant-negative mutation p.Arg324Thr in KCNA1 impairs Kv1.1 channel function in episodic ataxia. Movement disorders. DOI:10.1002/mds.26737.
  16.  Andres-Leon, E, Nuñez-Torres, R, and Ana M Rojas*. (2016) miARma-Seq: a comprehensive tool for miRNA, mRNA and circRNA analysis. Scientific Reports. DOI:10.1038/srep25749.
  17.  Basilico, F.*, Maffini, S*., Weir. J.R*., Prumbaum, D., Rojas, A.M, Zimniak, Z., De Antoni, A., Jeganathan, S., Voss, B., van Gerwen, S., Krenn, V., Massimiliano, L., Valencia, A., Vetter, I.R., Herzog, F., Raunser, S., Pasqualato, S and Musacchio, A. (2014) The pseudo GTPase CENP-M drives human kinetochore assembly. eLife. DOI: 10.7554/eLife.02978.
  18. Rojas, A.M., Fuentes, G., Rausell, A., and Valencia, A. (2012). The Ras protein superfamily: Evolutionary tree and role of conserved amino acids. The Journal of Cell Biology. DOI:10.1083/jcb.201103008.

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