Research topics: Analysis packages (R, Python, etc.), Applications of Computational Biology, Artificial Intelligence, Bayesian statistics, Bioinformatics enabling techniques, Bioinformatics Software and Tools, Biomolecular simulation, Chromatin accessibility, Cloud Computing, Computational Methods, Computational models and simulations, Computational Techniques, Conservation Analysis, Containers Computing, Data Analysis, Data Visualization, Deep Learning in Biology, Development, DNA methylation, Drug Discovery and design, Epigenomics, Evolutionary rates, Experimental design, Expression Profiling, FAIRfication, Frequentist analysis, Function prediction, Functional annotation, Functional genomics, Gene regulatory networks, Genomic Annotation, Genomics, High-performance Computing, Integrative Analysis, Knowledge graphs, Large language models, Machine Learning in Biology, Mapping, Model organisms, Molecular evolution, Molecular Interactions/Docking, Multivariate statistics, Mutation Analysis and design, Network Biology, Non-model organisms, Non-parametric statistics, Omics, Pathway analysis, Phylogenetic Analysis, Regulatory biology, Resources, RNA Sequencing (RNA-seq), Sequence Alignment, Sequence analysis, Sequence error correction, Single-cell (scRNA-seq), Single-cell omics, Standards in Computational Biology, Statistical Methods for Biology, Structural bioinformatics, Structural genomics, Structure prediction, Structure-function relationship, Systems Biology, Transcriptomics
Publications
Cases, I., Martínez-Redondo, G., Fernández, R., & Rojas, A. M. (2025). Functional Annotation of Proteomes Using Protein Language Models: A High-Throughput Implementation of the ProtTrans Model. Large Language Models (LLMs) in Protein Bioinformatics, 127–137. https://doi.org/10.1007/978-1-0716-4623-6_8
Martínez-Redondo, G. I., Perez-Canales, F. M., Carbonetto, B., Fernández, J. M., Barrios-Núñez, I., Vázquez-Valls, M., Cases, I., Rojas, A. M., & Fernández, R. (2025). FANTASIA leverages language models to decode the functional dark proteome across the animal tree of life. Communications Biology, 8(1). https://doi.org/10.1038/s42003-025-08651-2
Rueda, A. D., Salvador‐Martínez, I., Sospedra‐Arrufat, I., Alcaina‐Caro, A., Fernández‐Miñán, A., Burgos‐Ruiz, A. M., Cases, I., Mohedano, A., Tena, J. J., Heyn, H., Lopez‐Rios, J., & Nusspaumer, G. (2024). The cellular landscape of the endochondral bone during the transition to extrauterine life. Immunology & Cell Biology, 102(2), 131–148. Portico. https://doi.org/10.1111/imcb.12718
Verdugo-Sivianes, E. M., Espinosa-Sánchez, A., Cases, I., Rojas, A. M., Otero-Albiol, D., Romero, L., Blanco, J. R., & Carnero, A. (2024). MEG8 as an antagonistic pleiotropic mechanism in breast cancer. Cell Death Discovery, 10(1). https://doi.org/10.1038/s41420-024-02272-0
Martínez-Redondo, G. I., Perez-Canales, F. M., Fernández, J. M., Barrios-Núñez, I., Vázquez-Valls, M., Cases, I., Rojas, A. M., & Fernández, R. (2024). Leveraging Natural Language Processing models to decode the dark proteome across the Animal Tree of Life. https://doi.org/10.1101/2024.02.28.582465
Barrios-Núñez, I., Martínez-Redondo, G. I., Medina-Burgos, P., Cases, I., Fernández, R., & Rojas, A. M. (2024). Decoding functional proteome information in model organisms using protein language models. NAR Genomics and Bioinformatics, 6(3). https://doi.org/10.1093/nargab/lqae078
Marlétaz, F., de la Calle-Mustienes, E., Acemel, R. D., Paliou, C., Naranjo, S., Martínez-García, P. M., Cases, I., Sleight, V. A., Hirschberger, C., Marcet-Houben, M., Navon, D., Andrescavage, A., Skvortsova, K., Duckett, P. E., González-Rajal, Á., Bogdanovic, O., Gibcus, J. H., Yang, L., Gallardo-Fuentes, L., … Gómez-Skarmeta, J. L. (2023). The little skate genome and the evolutionary emergence of wing-like fins. Nature, 616(7957), 495–503. https://doi.org/10.1038/s41586-023-05868-1
Alegre-Martí, A., Jiménez-Panizo, A., Martínez-Tébar, A., Poulard, C., Peralta-Moreno, M. N., Abella, M., Antón, R., Chiñas, M., Eckhard, U., Piulats, J. M., Rojas, A. M., Fernández-Recio, J., Rubio-Martínez, J., Le Romancer, M., Aytes, Á., Fuentes-Prior, P., & Estébanez-Perpiñá, E. (2023). A hotspot for posttranslational modifications on the androgen receptor dimer interface drives pathology and anti-androgen resistance. Science Advances, 9(11). https://doi.org/10.1126/sciadv.ade2175
Leon, A., Subirana, L., Magre, K., Cases, I., Tena, J. J., Irimia, M., Gomez-Skarmeta, J. L., Escriva, H., & Bertrand, S. (2022). Gene Regulatory Networks of Epidermal and Neural Fate Choice in a Chordate. Molecular Biology and Evolution, 39(4). https://doi.org/10.1093/molbev/msac055
Fragoso-Luna, A., Romero-Bueno, R., Eibl, M., Ayuso, C., Muñoz-Jiménez, C., Benes, V., Cases, I., & Askjaer, P. (2022). Expanded FLP toolbox for spatiotemporal protein degradation and transcriptomic profiling in Caenorhabditis elegans. Genetics, 223(1). https://doi.org/10.1093/genetics/iyac166
Jiménez-Panizo, A., Alegre-Martí, A., Tettey, T. T., Fettweis, G., Abella, M., Antón, R., Johnson, T. A., Kim, S., Schiltz, R. L., Núñez-Barrios, I., Font-Díaz, J., Caelles, C., Valledor, A. F., Pérez, P., Rojas, A. M., Fernández-Recio, J., Presman, D. M., Hager, G. L., Fuentes-Prior, P., & Estébanez-Perpiñá, E. (2022). The multivalency of the glucocorticoid receptor ligand-binding domain explains its manifold physiological activities. Nucleic Acids Research, 50(22), 13063–13082. https://doi.org/10.1093/nar/gkac1119
Santana-Molina, C., Rivas-Marin, E., Rojas, A. M., & Devos, D. P. (2020). Origin and Evolution of Polycyclic Triterpene Synthesis. Molecular Biology and Evolution, 37(7), 1925–1941. https://doi.org/10.1093/molbev/msaa054
Fuentes-Prior, P., Rojas, A., Hagler, A. T., & Estébanez-Perpiñá, E. (2019). Diversity of Quaternary Structures Regulates Nuclear Receptor Activities. Trends in Biochemical Sciences, 44(1), 2–6. https://doi.org/10.1016/j.tibs.2018.09.005
Jiménez-Panizo, A., Pérez, P., Rojas, A. M., Fuentes-Prior, P., & Estébanez-Perpiñá, E. (2019). Non-canonical dimerization of the androgen receptor and other nuclear receptors: implications for human disease. Endocrine-Related Cancer, 26(8), R479–R497. https://doi.org/10.1530/erc-19-0132
Martín-Doncel, E., Rojas, A. M., 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, 9(1). https://doi.org/10.1038/s41598-019-49821-7
Silva, J., Aivio, S., Knobel, P. A., Bailey, L. J., Casali, A., Vinaixa, M., Garcia-Cao, I., Coyaud, É., Jourdain, A. A., Pérez-Ferreros, P., Rojas, A. M., Antolin-Fontes, A., Samino-Gené, S., Raught, B., González-Reyes, A., Ribas de Pouplana, L., Doherty, A. J., Yanes, O., & Stracker, T. H. (2018). EXD2 governs germ stem cell homeostasis and lifespan by promoting mitoribosome integrity and translation. Nature Cell Biology, 20(2), 162–174. https://doi.org/10.1038/s41556-017-0016-9
Tzou, W.-S., Chu, Y., Lin, T.-Y., Hu, C.-H., Pai, T.-W., Liu, H.-F., Lin, H.-J., Cases, I., Rojas, A., Sanchez, M., You, Z.-Y., & Hsu, M.-W. (2014). Molecular Evolution of Multiple-Level Control of Heme Biosynthesis Pathway in Animal Kingdom. PLoS ONE, 9(1), e86718. https://doi.org/10.1371/journal.pone.0086718
Arcas, A., Fernández-Capetillo, O., Cases, I., & Rojas, A. M. (2014). Emergence and Evolutionary Analysis of the Human DDR Network: Implications in Comparative Genomics and Downstream Analyses. Molecular Biology and Evolution, 31(4), 940–961. https://doi.org/10.1093/molbev/msu046
Athiyarath, R., Arora, N., Fuster, F., Schwarzenbacher, R., Ahmed, R., George, B., Chandy, M., Srivastava, A., Rojas, A. M., Sanchez, M., & Edison, E. S. (2013). Two novel missense mutations in iron transport protein transferrin causing hypochromic microcytic anaemia and haemosiderosis: molecular characterization and structural implications. British Journal of Haematology, 163(3), 404–407. Portico. https://doi.org/10.1111/bjh.12487
Arcas, A., Cases, I., & Rojas, A. M. (2013). Serine/threonine kinases and E2-ubiquitin conjugating enzymes in Planctomycetes: unexpected findings. Antonie van Leeuwenhoek, 104(4), 509–520. https://doi.org/10.1007/s10482-013-9993-2
Lopez-Contreras, A. J., Ruppen, I., Nieto-Soler, M., Murga, M., Rodriguez-Acebes, S., Remeseiro, S., Rodrigo-Perez, S., Rojas, A. M., Mendez, J., Muñoz, J., & Fernandez-Capetillo, O. (2013). A Proteomic Characterization of Factors Enriched at Nascent DNA Molecules. Cell Reports, 3(4), 1105–1116. https://doi.org/10.1016/j.celrep.2013.03.009
Pons, T., Paramonov, I., Boullosa, C., Ibáñez, K., Rojas, A. M., & Valencia, A. (2013). A common structural scaffold in CTD phosphatases that supports distinct catalytic mechanisms. Proteins: Structure, Function, and Bioinformatics, 82(1), 103–118. Portico. https://doi.org/10.1002/prot.24376
Rojas, A. M., Santamaria, A., Malik, R., Jensen, T. S., Körner, R., Morilla, I., de Juan, D., Krallinger, M., Hansen, D. A., Hoffmann, R., Lees, J., Reid, A., Yeats, C., Wehner, A., Elowe, S., Clegg, A. B., Brunak, S., Nigg, E. A., Orengo, C., … Ranea, J. A. G. (2012). Uncovering the Molecular Machinery of the Human Spindle—An Integration of Wet and Dry Systems Biology. PLoS ONE, 7(3), e31813. https://doi.org/10.1371/journal.pone.0031813
Rojas, A. M., Fuentes, G., Rausell, A., & Valencia, A. (2012). The Ras protein superfamily: Evolutionary tree and role of conserved amino acids. Journal of Cell Biology, 196(2), 189–201. https://doi.org/10.1083/jcb.201103008
Valls, M., Silva‐Rocha, R., Cases, I., Muñoz, A., & de Lorenzo, V. (2011). Functional analysis of the integration host factor site of the σ54Pu promoter of Pseudomonas putida by in vivo UV imprinting. Molecular Microbiology, 82(3), 591–601. Portico. https://doi.org/10.1111/j.1365-2958.2011.07835.x
Palczewska, M., Casafont, I., Ghimire, K., Rojas, A. M., Valencia, A., Lafarga, M., Mellström, B., & Naranjo, J. R. (2011). Sumoylation regulates nuclear localization of repressor DREAM. Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, 1813(5), 1050–1058. https://doi.org/10.1016/j.bbamcr.2010.11.001
Vallespinós, M., Fernández, D., Rodríguez, L., Alvaro-Blanco, J., Baena, E., Ortiz, M., Dukovska, D., Martínez, D., Rojas, A., Campanero, M. R., & Moreno de Alborán, I. (2011). B Lymphocyte Commitment Program Is Driven by the Proto-Oncogene c-myc. The Journal of Immunology, 186(12), 6726–6736. https://doi.org/10.4049/jimmunol.1002753
Carbajosa, G., & Cases, I. (2010). Transcriptional Networks that Regulate Hydrocarbon Biodegradation. Handbook of Hydrocarbon and Lipid Microbiology, 1399–1410. https://doi.org/10.1007/978-3-540-77587-4_96
Campillos, M., Cases, I., Hentze, M. W., & Sanchez, M. (2010). SIREs: searching for iron-responsive elements. Nucleic Acids Research, 38(Web Server), W360–W367. https://doi.org/10.1093/nar/gkq371
Mañes, S., Fuentes, G., Peregil, R. M., Rojas, A. M., & Lacalle, R. A. (2010). An isoform‐specific PDZ‐binding motif targets type I PIP5 kinase beta to the uropod and controls polarization of neutrophil‐like HL60 cells. The FASEB Journal, 24(9), 3381–3392. Portico. https://doi.org/10.1096/fj.09-153106
Trigo, A., Valencia, A., & Cases, I. (2009). Systemic approaches to biodegradation. FEMS Microbiology Reviews, 33(1), 98–108. https://doi.org/10.1111/j.1574-6976.2008.00143.x
Carbajosa, G., Trigo, A., Valencia, A., & Cases, I. (2009). Bionemo: molecular information on biodegradation metabolism. Nucleic Acids Research, 37(Database), D598–D602. https://doi.org/10.1093/nar/gkn864
Krallinger, M., Rojas, A. M., & Valencia, A. (2009). Creating Reference Datasets for Systems Biology Applications Using Text Mining. Annals of the New York Academy of Sciences, 1158(1), 14–28. Portico. https://doi.org/10.1111/j.1749-6632.2008.03750.x
Proell, M., Riedl, S. J., Fritz, J. H., Rojas, A. M., & Schwarzenbacher, R. (2008). The Nod-Like Receptor (NLR) Family: A Tale of Similarities and Differences. PLoS ONE, 3(4), e2119. https://doi.org/10.1371/journal.pone.0002119
Bayón, Y., Trinidad, A. G., de la Puerta, M. L., del Carmen Rodríguez, M., Bogetz, J., Rojas, A., De Pereda, J. M., Rahmouni, S., Williams, S., Matsuzawa, S., Reed, J. C., Crespo, M. S., Mustelin, T., & Alonso, A. (2008). KCTD5, a putative substrate adaptor for cullin3 ubiquitin ligases. The FEBS Journal, 275(15), 3900–3910. Portico. https://doi.org/10.1111/j.1742-4658.2008.06537.x
Mathieu-Daudé, F., Lafay, B., Touzet, O., Lelièvre, J., Parrado, F., Bosseno, M.-F., Rojas, A. M., Fatha, S., Ouaissi, A., & Brenière, S. F. (2008). Exploring the FL-160-CRP gene family through sequence variability of the complement regulatory protein (CRP) expressed by the trypomastigote stage of Trypanosoma cruzi. Infection, Genetics and Evolution, 8(3), 258–266. https://doi.org/10.1016/j.meegid.2007.12.010
Cacas, J.-L., Marmey, P., Montillet, J.-L., Sayegh-Alhamdia, M., Jalloul, A., Rojas-Mendoza, A., Clérivet, A., & Nicole, M. (2008). A novel patatin-like protein from cotton plant, GhPat1, is co-expressed with GhLox1 during Xanthomonas campestris-mediated hypersensitive cell death. Plant Cell Reports, 28(1), 155–164. https://doi.org/10.1007/s00299-008-0622-x
Cases, I., Velázquez, F., & de Lorenzo, V. (2007). The ancestral role of the phosphoenolpyruvate–carbohydrate phosphotransferase system (PTS) as exposed by comparative genomics. Research in Microbiology, 158(8–9), 666–670. https://doi.org/10.1016/j.resmic.2007.08.002
Velázquez, F., Pflüger, K., Cases, I., De Eugenio, L. I., & de Lorenzo, V. (2007). The Phosphotransferase System Formed by PtsP, PtsO, and PtsN Proteins Controls Production of Polyhydroxyalkanoates in
Pseudomonas putida. Journal of Bacteriology, 189(12), 4529–4533. https://doi.org/10.1128/jb.00033-07
Sonnenberg, A., Rojas, A. M., & de Pereda, J. M. (2007). The Structure of a Tandem Pair of Spectrin Repeats of Plectin Reveals a Modular Organization of the Plakin Domain. Journal of Molecular Biology, 368(5), 1379–1391. https://doi.org/10.1016/j.jmb.2007.02.090
Grego-Bessa, J., Luna-Zurita, L., del Monte, G., Bolós, V., Melgar, P., Arandilla, A., Garratt, A. N., Zang, H., Mukouyama, Y., Chen, H., Shou, W., Ballestar, E., Esteller, M., Rojas, A., Pérez-Pomares, J. M., & de la Pompa, J. L. (2007). Notch Signaling Is Essential for Ventricular Chamber Development. Developmental Cell, 12(3), 415–429. https://doi.org/10.1016/j.devcel.2006.12.011
Jiménez-Baranda, S., Gómez-Moutón, C., Rojas, A., Martínez-Prats, L., Mira, E., Ana Lacalle, R., Valencia, A., Dimitrov, D. S., Viola, A., Delgado, R., Martínez-A., C., & Mañes, S. (2007). Filamin-A regulates actin-dependent clustering of HIV receptors. Nature Cell Biology, 9(7), 838–846. https://doi.org/10.1038/ncb1610
López, G., Rojas, A., Tress, M., & Valencia, A. (2007). Assessment of predictions submitted for the CASP7 function prediction category. Proteins: Structure, Function, and Bioinformatics, 69(S8), 165–174. https://doi.org/10.1002/prot.21651
Sanchez-Pulido, L., Valencia, A., & Rojas, A. M. (2007). Are promyelocytic leukaemia protein nuclear bodies a scaffold for caspase-2 programmed cell death? Trends in Biochemical Sciences, 32(9), 400–406. https://doi.org/10.1016/j.tibs.2007.08.001
Carro, A., Tress, M., de Juan, D., Pazos, F., Lopez-Romero, P., del Sol, A., Valencia, A., & Rojas, A. M. (2006). TreeDet: a web server to explore sequence space. Nucleic Acids Research, 34(Web Server), W110–W115. https://doi.org/10.1093/nar/gkl203
Cabrera, J. R., Sanchez-Pulido, L., Rojas, A. M., Valencia, A., Mañes, S., Naranjo, J. R., & Mellström, B. (2006). Gas1 Is Related to the Glial Cell-derived Neurotrophic Factor Family Receptors α and Regulates Ret Signaling. Journal of Biological Chemistry, 281(20), 14330–14339. https://doi.org/10.1074/jbc.m509572200
Goldovsky, L., Cases, I., Enright, A. J., & Ouzounis, C. A. (2005). BioLayoutJava. Applied Bioinformatics, 4(1), 71–74. https://doi.org/10.2165/00822942-200504010-00009
Cases, I., & de Lorenzo, V. (2005). Promoters in the environment: transcriptional regulation in its natural context. Nature Reviews Microbiology, 3(2), 105–118. https://doi.org/10.1038/nrmicro1084
Goldovsky, L., Janssen, P., Ahren, D., Audit, B., Cases, I., Darzentas, N., Enright, A. J., Lopez-Bigas, N., Peregrin-Alvarez, J. M., Smith, M., Tsoka, S., Kunin, V., & Ouzounis, C. A. (2005). CoGenT++: an extensive and extensible data environment for computational genomics. Bioinformatics, 21(19), 3806–3810. https://doi.org/10.1093/bioinformatics/bti579
Rojas, A. M., Sanchez‐Pulido, L., Fütterer, A., van Wely, K. H. M., Martinez‐A, C., & Valencia, A. (2005). Death inducer obliterator protein 1 in the context of DNA regulation. The FEBS Journal, 272(14), 3505–3511. Portico. https://doi.org/10.1111/j.1742-4658.2005.04759.x
Marmey, P., Rojas-Mendoza, A., de Kochko, A., Beachy, R. N., & Fauquet, C. M. (2005). Characterization of the protease domain of Rice tungro bacilliform virus responsible for the processing of the capsid protein from the polyprotein. Virology Journal, 2(1). https://doi.org/10.1186/1743-422x-2-33
de Juan, D., Mellado, M., Rodríguez-Frade, J. M., Hernanz-Falcón, P., Serrano, A., del Sol, A., Valencia, A., Martínez-A, C., & Rojas, A. M. (2005). A framework for computational and experimental methods: Identifying dimerization residues in CCR chemokine receptors. Bioinformatics, 21(suppl_2), ii13–ii18. https://doi.org/10.1093/bioinformatics/bti1101
Valls, M., Cases, I., & Lorenzo, V. (2004). Transcription Mediated By rpoN-Dependent Promoters. Pseudomonas, 289–317. https://doi.org/10.1007/978-1-4419-9084-6_10
Sánchez-Pulido, L., Rojas, A. M., van Wely, K. H., Martinez-A, C., & Valencia, A. (2004). SPOC: A widely distributed domain associated with cancer, apoptosis and transcription. BMC Bioinformatics, 5(1). https://doi.org/10.1186/1471-2105-5-91
Magnusson, O. Th., Toyama, H., Saeki, M., Rojas, A., Reed, J. C., Liddington, R. C., Klinman, J. P., & Schwarzenbacher, R. (2004). Quinone biogenesis: Structure and mechanism of PqqC, the final catalyst in the production of pyrroloquinoline quinone. Proceedings of the National Academy of Sciences, 101(21), 7913–7918. https://doi.org/10.1073/pnas.0402640101
Sanchez-Pulido, L., Rojas, A. M., Valencia, A., Martinez-A, C., & Andrade, M. A. (2004). ACRATA: a novel electron transfer domain associated to apoptosis and cancer. BMC Cancer, 4(1). https://doi.org/10.1186/1471-2407-4-98
Rojas, A. M., Rios, J. E. G. de los, Saux, M. F.-L., Jimenez, P., Reche, P., Bonneau, S., Sutra, L., Mathieu-Daudé, F., & McClelland, M. (2004). Erwinia toletana sp. nov., associated with Pseudomonas savastanoi-induced tree knots. International Journal of Systematic and Evolutionary Microbiology, 54(6), 2217–2222. https://doi.org/10.1099/ijs.0.02924-0
Kunin, V., Cases, I., Enright, A. J., de Lorenzo, V., & Ouzounis, C. A. (2003). Genome Biology, 4(2), 401. https://doi.org/10.1186/gb-2003-4-2-401
Janssen, P., Audit, B., Cases, I., Darzentas, N., Goldovsky, L., Kunin, V., Lopez-Bigas, N., Peregrin-Alvarez, J., Pereira-Leal, J. B., Tsoka, S., & Ouzounis, C. A. (2003). Genome Biology, 4(5), 402. https://doi.org/10.1186/gb-2003-4-5-402
Cases, I., de Lorenzo, V., & Ouzounis, C. A. (2003). Transcription regulation and environmental adaptation in bacteria. Trends in Microbiology, 11(6), 248–253. https://doi.org/10.1016/s0966-842x(03)00103-3
Janssen, P., Enright, A. J., Audit, B., Cases, I., Goldovsky, L., Harte, N., Kunin, V., & Ouzounis, C. A. (2003). COmplete GENome Tracking (COGENT): a flexible data
environment for computational genomics. Bioinformatics, 19(11), 1451–1452. https://doi.org/10.1093/bioinformatics/btg161
Cases, I., Ussery, D. W., & De Lorenzo, V. (2003). The σ54 regulon (sigmulon) of Pseudomonas putida. Environmental Microbiology, 5(12), 1281–1293. Portico. https://doi.org/10.1111/j.1462-2920.2003.00528.x
Cánovas, D., Cases, I., & De Lorenzo, V. (2003). Heavy metal tolerance and metal homeostasis in Pseudomonas putida as revealed by complete genome analysis. Environmental Microbiology, 5(12), 1242–1256. Portico. https://doi.org/10.1111/j.1462-2920.2003.00463.x
Reche, M. P., Jiménez, P. A., Alvarez, F., García de los Ríos, J. E., Rojas, A. M., & De Pedro, P. (2003). Incidence of Salmonellae in Captive and Wild Free‐Living Raptorial Birds in Central Spain. Journal of Veterinary Medicine, Series B, 50(1), 42–44. Portico. https://doi.org/10.1046/j.1439-0450.2003.00623.x
Liu, T., Rojas, A., Ye, Y., & Godzik, A. (2003). Homology modeling provides insights into the binding mode of the PAAD/DAPIN/pyrin domain, a fourth member of the CARD/DD/DED domain family. Protein Science, 12(9), 1872–1881. Portico. https://doi.org/10.1110/ps.0359603
Reed, J. C., Doctor, K., Rojas, A., Zapata, J. M., Stehlik, C., Fiorentino, L., Damiano, J., Roth, W., Matsuzawa, S., Newman, R., Takayama, S., Marusawa, H., Xu, F., Salvesen, G., & Godzik, A. (2003). Comparative Analysis of Apoptosis and Inflammation Genes of Mice and Humans. Genome Research, 13(6b), 1376–1388. https://doi.org/10.1101/gr.1053803
Cases, I., & De Lorenzo, V. (2002). The grammar of (micro)biological diversity. Environmental Microbiology, 4(11), 623–627. Portico. https://doi.org/10.1046/j.1462-2920.2002.00346.x
Reche, M. P., García de los Ríos, J. E., Jiménez, P. A., Rojas, A. M., & Rotger, R. (2002). gyrA
Mutations Associated with Nalidixic Acid-Resistant Salmonellae from Wild Birds. Antimicrobial Agents and Chemotherapy, 46(9), 3108–3109. https://doi.org/10.1128/aac.46.9.3108-3109.2002
Rojas, A., & Doolittle, R. F. (2002). The Occurrence of Type S1A Serine Proteases in Sponge and Jellyfish. Journal of Molecular Evolution, 55(6), 790–794. https://doi.org/10.1007/s00239-002-2361-x
Cases, I., & de Lorenzo, V. (1998). Expression systems and physiological control of promoter activity in bacteria. Current Opinion in Microbiology, 1(3), 303–310. https://doi.org/10.1016/s1369-5274(98)80034-9
