Theory, Bioinformatics and Computation

Institution: Instituto de Biología Integrativa de Sistemas (I2SYSBIO)

Members (researchers): Vicente Arnau Lombart, Wladimiro Diaz Villanueva

Home page: https://www.uv.es/tbc
Contact email: wladimiro.diaz@uv.es

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Research topics:
Publications

Román-Escrivá, P., Bernabeu, M., Paganin, E., Diaz, W., Verdú, M., Oliver, J. L., Arnau, V., & Moya, A. (2025). Metrics of Genomic Complexity in the Evolution of Bacterial Endosymbiosis. https://doi.org/10.20944/preprints202502.0282.v1

de la Fuente, R., Díaz-Villanueva, W., Arnau, V., & Moya, A. (2025). Evidence-driven biases in alternative splicing inferred from NCBI Eukaryotic Genome Annotation Pipeline metadata. https://doi.org/10.1101/2025.05.27.656353

de la Fuente, R., Díaz-Villanueva, W., Arnau, V., & Moya, A. (2024). Evolutionary trends of alternative splicing. https://doi.org/10.7554/elife.94802

de la Fuente, R., Díaz-Villanueva, W., Arnau, V., & Moya, A. (2023). Genomic Signature in Evolutionary Biology: A Review. Biology, 12(2), 322. https://doi.org/10.3390/biology12020322

Arnau, V., Díaz-Villanueva, W., Mifsut Benet, J., Villasante, P., Beamud, B., Mompó, P., Sanjuan, R., González-Candelas, F., Domingo-Calap, P., & Džunková, M. (2023). Inference of the Life Cycle of Environmental Phages from Genomic Signature Distances to Their Hosts. Viruses, 15(5), 1196. https://doi.org/10.3390/v15051196

de la Fuente, R., Díaz-Villanueva, W., Arnau, V., & Moya, A. (2023). Alternative Splicing Across the Tree of Life: A Comparative Study. https://doi.org/10.1101/2023.12.26.571677

Piquer-Esteban, S., Ruiz-Ruiz, S., Arnau, V., Diaz, W., & Moya, A. (2022). Exploring the universal healthy human gut microbiota around the World. Computational and Structural Biotechnology Journal, 20, 421–433. https://doi.org/10.1016/j.csbj.2021.12.035

Olmo-Uceda, M. J., Muñoz-Sánchez, J. C., Lasso-Giraldo, W., Arnau, V., Díaz-Villanueva, W., & Elena, S. F. (2022). DVGfinder: A Metasearch Engine for Identifying Defective Viral Genomes in RNA-Seq Data. https://doi.org/10.20944/preprints202203.0110.v1

Olmo-Uceda, M. J., Muñoz-Sánchez, J. C., Lasso-Giraldo, W., Arnau, V., Díaz-Villanueva, W., & Elena, S. F. (2022). DVGfinder: A Metasearch Tool for Identifying Defective Viral Genomes in RNA-Seq Data. Viruses, 14(5), 1114. https://doi.org/10.3390/v14051114

Cebriá-Mendoza, M., Bracho, M. A., Arbona, C., Larrea, L., Díaz, W., Sanjuán, R., & Cuevas, J. M. (2021). Exploring the Diversity of the Human Blood Virome. Viruses, 13(11), 2322. https://doi.org/10.3390/v13112322

Moya, A., Oliver, J. L., Verdú, M., Delaye, L., Arnau, V., Bernaola-Galván, P., de la Fuente, R., Díaz, W., Gómez-Martín, C., González, F. M., Latorre, A., Lebrón, R., & Román-Roldán, R. (2020). Tracking evolutionary trends towards increasing complexity: a case study in Cyanobacteria. https://doi.org/10.1101/2020.01.29.924464

Martí, J. M., Arias, L. F., Díaz, W., Arnau, V., Rodriguez-Franco, A., & Garay, C. P. (2019). Metagenomic dynamics in Olea europaea after root damage and Verticillium dahliae infection. https://doi.org/10.1101/555185

Moreno-Picot, S., Ferri, F. J., Arevalillo-Herraez, M., & Diaz-Villanueva, W. (2018). Efficient Analysis and Synthesis Using a New Factorization of the Gabor Frame Matrix. IEEE Transactions on Signal Processing, 66(17), 4564–4573. https://doi.org/10.1109/tsp.2018.2855643

Gutierrez-Aguado, J., Alcaraz Calero, J. M., & Diaz Villanueva, W. (2016). IaaSMon: Monitoring Architecture for Public Cloud Computing Data Centers. Journal of Grid Computing, 14(2), 283–297. https://doi.org/10.1007/s10723-015-9357-4

Diaz-Chito, K., Ferri, F. J., & Diaz-Villanueva, W. (2015). Incremental Generalized Discriminative Common Vectors for Image Classification. IEEE Transactions on Neural Networks and Learning Systems, 26(8), 1761–1775. https://doi.org/10.1109/tnnls.2014.2356856

Ferri, F. J., Diaz-Chito, K., & Diaz-Villanueva, W. (2013). Fast Approximated Discriminative Common Vectors Using Rank-One SVD Updates. Neural Information Processing, 368–375. https://doi.org/10.1007/978-3-642-42051-1_46

Hurtado-Cortegana, A., Ferri, F. J., Diaz-Villanueva, W., & Morell, C. (2013). Drug Activity Characterization Using One-Class Support Vector Machines with Counterexamples. Progress in Pattern Recognition, Image Analysis, Computer Vision, and Applications, 33–40. https://doi.org/10.1007/978-3-642-41827-3_5

Diaz-Chito, K., Ferri, F. J., & Díaz-Villanueva, W. (2011). Null Space Based Image Recognition Using Incremental Eigendecomposition. Pattern Recognition and Image Analysis, 313–320. https://doi.org/10.1007/978-3-642-21257-4_39

Díaz-Villanueva, W., Ferri, F. J., & Cerverón, V. (2010). Learning Improved Feature Rankings through Decremental Input Pruning for Support Vector Based Drug Activity Prediction. Trends in Applied Intelligent Systems, 653–661. https://doi.org/10.1007/978-3-642-13025-0_67

Díaz-Chito, K., Ferri, F. J., & Díaz-Villanueva, W. (2010). Image Recognition through Incremental Discriminative Common Vectors. Advanced Concepts for Intelligent Vision Systems, 304–311. https://doi.org/10.1007/978-3-642-17691-3_28

Ferri, F. J., Diaz-Chito, K., & Diaz-Villanueva, W. (2010). Efficient Dimensionality Reduction on Undersampled Problems through Incremental Discriminative Common Vectors. 2010 IEEE International Conference on Data Mining Workshops, 1159–1166. https://doi.org/10.1109/icdmw.2010.50

Moreno-Picot, S., Arevalillo-Herraez, M., & Diaz-Villanueva, W. (2010). A Linear Cost Algorithm to Compute the Discrete Gabor Transform. IEEE Transactions on Signal Processing, 58(5), 2667–2674. https://doi.org/10.1109/tsp.2010.2043137

Ferri, F. J., Diaz-Chito, K., & Diaz-Villanueva, W. (2008). Using subspace-based learning methods for medical drug design and characterization. 2008 IEEE International Conference on Systems, Man and Cybernetics, 2111–2115. https://doi.org/10.1109/icsmc.2008.4811603

Crespo, R., Piqueras, M. C., Aulló, J. M., & Díaz-Villanueva, W. (2008). GridQTC: A Desktop Client for the Computational Chemistry Grid Infrastructure. 2008 The Second International Conference on Advanced Engineering Computing and Applications in Sciences, 63–68. https://doi.org/10.1109/advcomp.2008.25

Díaz-Chito, K., Ferri, F. J., & Díaz-Villanueva, W. (2008). An Empirical Evaluation of Common Vector Based Classification Methods and Some Extensions. Structural, Syntactic, and Statistical Pattern Recognition, 977–985. https://doi.org/10.1007/978-3-540-89689-0_101

Ferri, F. J., Diaz-Villanueva, W., & Castro, M. J. (2007). A comparative study using different topological representations in pattern recognition based drug activity characterization. 2007 IEEE International Conference on Systems, Man and Cybernetics, 2011–2015. https://doi.org/10.1109/icsmc.2007.4413980

Castro, M. J., Díaz, W., Ferri, F. J., Ruiz-Pinales, J., Jaime-Rivas, R., Blat, F., España, S., Aibar, P., Grau, S., & Griol, D. (2005). A Holistic Classification System for Check Amounts Based on Neural Networks with Rejection. Pattern Recognition and Machine Intelligence, 310–314. https://doi.org/10.1007/11590316_45

Murcia-Soler, M., Pérez-Giménez, F., García-March, F. J., Salabert-Salvador, M. T., Díaz-Villanueva, W., Castro-Bleda, M. J., & Villanueva-Pareja, A. (2004). Artificial Neural Networks and Linear Discriminant Analysis:  A Valuable Combination in the Selection of New Antibacterial Compounds. Journal of Chemical Information and Computer Sciences, 44(3), 1031–1041. https://doi.org/10.1021/ci030340e

Murcia-Soler, M., Pérez-Giménez, F., García-March, F. J., Salabert-Salvador, M. T., Díaz-Villanueva, W., & Castro-Bleda, M. J. (2003). Drugs and Nondrugs:  An Effective Discrimination with Topological Methods and Artificial Neural Networks. Journal of Chemical Information and Computer Sciences, 43(5), 1688–1702. https://doi.org/10.1021/ci0302862

Murcia-Soler, M., Pérez-Giménez, F., Garcı́a-March, F. J., Salabert-Salvador, M. T., Dı́az-Villanueva, W., & Medina-Casamayor, P. (2003). Discrimination and selection of new potential antibacterial compounds using simple topological descriptors. Journal of Molecular Graphics and Modelling, 21(5), 375–390. https://doi.org/10.1016/s1093-3263(02)00184-5

Andrés, J., Moliner, V., Safont, V. S., Aulló, J. M., Díaz, W., & Tapia, O. (1996). Transition structures for hydride transfer reactions in vacuo and their role in enzyme catalysis. Journal of Molecular Structure: THEOCHEM, 371, 299–312. https://doi.org/10.1016/s0166-1280(96)04670-2

Diaz, W., Aullo, J. M., Paulino, M., & Tapia, O. (1996). Transition structure and reactive complexes for hydride transfer in an isoalloxazine-nicotinamide complex. On the catalytic mechanism of glutathione reductase. An ab initio MO SCF study. Chemical Physics, 204(2–3), 195–203. https://doi.org/10.1016/0301-0104(95)00425-4

Castro, I., Faus, J., Julve, M., Muñoz, M. C., Diaz, W., & Solans, X. (1991). Study of the interaction between [Cu(bipy)]2+ and oxalate in dimethyl sulfoxide. Crystal structure of [Cu2(bipy)2(H2O)2ox]SO4·[Cu(bipy)ox]. Inorganica Chimica Acta, 179(1), 59–66. https://doi.org/10.1016/s0020-1693(00)85373-6

Lloret, F., Mollar, M., Faus, J., Julve, M., Castro, I., & Diaz, W. (1991). Solution chemistry of N,N’-ethylenebis(salicylideneimine) and its copper(II), nickel(II) and iron(III) complexes. Inorganica Chimica Acta, 189(2), 195–206. https://doi.org/10.1016/s0020-1693(00)80188-7

Lahuerta, P., Martinez-Mañez, R., Paya, J., Peris, E., & Diaz, W. (1990). ortho-metallation of P(m-MeC6H4)3 in dirhodium(II) tetraacetate. Molecular structure of Rh2(O2CCH3)2[(m-MeC6H3)P(m-MeC6H4)2]2(HO2CCH3)2·CH3CO2H. Inorganica Chimica Acta, 173(1), 99–105. https://doi.org/10.1016/s0020-1693(00)91060-0

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