Research Group

Detalle de: Theory, Bioinformatics and Computation

Title	Theory, Bioinformatics and Computation
Description	[EN] The Theory, Bioinformatics and Computation (TBC) group began as a collaboration between researchers from I2SysBio. The objective of the group is the development and application of mathematical methods to the analysis of large volumes of data of biological interest, including data from genomics, metagenomics, transcriptomics, interaction networks, and in general any type that, due to its volume and complexity, requires the use of high-performance computing techniques. The group has experience in studies of the impact of the human microbiome on host health and its temporal evolution and has developed taxonomic classification tools, statistical analysis of temporal variability and modeling of the evolution of the complex system. In addition, the group has conducted relevant research in the field of health genomics, such as tools for visualizing virus insertion sites in the human genome and the implications for gene therapy or the characterization of metabolic pathways with proteomic data. [ES] El grupo de Teoría, Bioinformática y Computación (TBC) surge como una colaboración entre investigadores del I2SysBio. El objetivo del grupo es el desarrollo y la aplicación de métodos matemáticos al análisis de grandes volúmenes de datos de interés biológico, entre los que se encuentran datos de genómica, metagenómica, transcriptómica, redes de interacción, y en general cualquier tipo que por su volumen y complejidad requiera del uso de técnicas de computación de alto rendimiento. El grupo tiene experiencia en estudios del impacto del microbioma humano en la salud del huésped y su evolución temporal y ha desarrollado herramientas de clasificación taxonómica, análisis estadísticos de la variabilidad temporal y modelización de la evolución del sistema complejo. Además, el grupo ha realizado investigaciones de relevancia en el ámbito de genómica en salud, como por ejemplo, herramientas de visualización de lugares de inserción de virus en el genoma humano y las implicaciones en terapia génica o la caracterización de rutas metabólicas con datos de proteómica.
Home Page	https://www.i2sysbio.es/groups/26/
Contact Email	wladimiro.diaz@uv.es
Collaborating Companies
Spin Off
Patents
Hpc Resources
Institution	I2SYSBIO
Ontology	Artificial Intelligence, Metagenomics, Metatranscriptomics
Tools
Service Units
Research Lines	Human microbiome dynamics and health, Bioinformatics for health genomics, High-performance analysis of large biological datasets
Funded Projects	Conexión CSIC en Biología Computacional y Bioinformática (BCBHub), FRAILTECH. High-throughput genome and microbiome genotypic screening technology for early detection, diagnosis and monitoring of frailty, LIVERGUT. Fecal microbiome transplantation in cirrhosis. Randomized double-blind, placebo-controlled trials in patients with compensated and decompensated cirrhosis, TEANS-PB. Temperature and antibiotics stress: effects on phage-bacteria interactions in the gut microbiota of Blattella germanica., New culture-independent methodologies for discovering symbiont bacteria of marine soft-bodied animals and their contribution to the chemical defense of their host
Selected Publications	Metrics of Genomic Complexity in the Evolution of Bacterial Endosymbiosis Preprint · 5 Feb 2025 Inference of the Life Cycle of Environmental Phages from Genomic Signature Distances to Their Hosts Article · 19 May 2023 Genomic Signature in Evolutionary Biology: A Review Article · 16 Feb 2023 DVGfinder: A Metasearch Tool for Identifying Defective Viral Genomes in RNA-Seq Data Article · 23 May 2022 Exploring the universal healthy human gut microbiota around the World Article · Jan 2022 View all (26 more) Exploring the Diversity of the Human Blood Virome Article · 21 Nov 2021 Tracking evolutionary trends towards increasing complexity: a case study in Cyanobacteria Preprint · 29 Jan 2020 Metagenomic dynamics in Olea europaea after root damage and Verticillium dahliae infection Preprint · 19 Feb 2019 Efficient Analysis and Synthesis Using a New Factorization of the Gabor Frame Matrix Article · 1 Sep 2018 IaaSMon: Monitoring Architecture for Public Cloud Computing Data Centers Article · 4 Mar 2016 Incremental Generalized Discriminative Common Vectors for Image Classification Article · Aug 2015 Fast approximated discriminative common vectors using rank-one SVD updates Book / chapter · 2013 Drug activity characterization using one-class support vector machines with counterexamples Book / chapter · 2013 Null space based image recognition using incremental eigendecomposition Book / chapter · 2011 Efficient dimensionality reduction on undersampled problems through incremental discriminative common vectors Conference paper · Dec 2010 A linear cost algorithm to compute the discrete gabor transform Article · May 2010 Learning improved feature rankings through decremental input pruning for support vector based drug activity prediction Book / chapter · 2010 Image recognition through incremental discriminative common vectors Book / chapter · 2010 Using subspace-based learning methods for medical drug design and characterization Conference paper · Oct 2008 GridQTC: A desktop client for the computational chemistry grid infrastructure Conference paper · Sep 2008 An empirical evaluation of common vector based classification methods and some extensions Book / chapter · 2008 A comparative study using different topological representations in pattern recognition based drug activity characterization Conference paper · Oct 2007 A holistic classification system for check amounts based on neural networks with rejection Book / chapter · 2005 Artificial neural networks and linear discriminant analysis: A valuable combination in the selection of new antibacterial compounds Article · 13 Apr 2004 Drugs and Nondrugs: An Effective Discrimination with Topological Methods and Artificial Neural Networks Article · 8 Jul 2003 Discrimination and selection of new potential antibacterial compounds using simple topological descriptors Article · Mar 2003 Transition structures for hydride transfer reactions in vacuo and their role in enzyme catalysis Article · Nov 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 Article · Apr 1996 Solution chemistry of N,N'-ethylenebis(salicylideneimine) and its copper(II), nickel(II) and iron(III) complexes Article · Nov 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] Article · Jan 1991 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 Article · Jul 1990
Researchers	Wladimiro Diaz Villanueva, Vicente Arnau Lombart

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