Florencio Pazos Cabaleiro
Biography
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Tenured Scientist (Científico Titular) of the Spanish Research Council (CSIC) since June 2006 and Group Leader of the Computational Systems Biology Group at the National Centre for Biotechnology (CNB-CSIC). M.Sc. in Biochemistry (1995) and Ph.D. in Sciences (Bioinformatics, 2001) from the Universidad Autónoma de Madrid, with the thesis "Protein Interactions. Computational Techniques", carried out with Dr. Alfonso Valencia in the Protein Design Group (CNB-CSIC). He was consultant for Lion Biosciences AG (1999-2001), Senior Scientist/Project Leader at ALMA Bioinformatics (2001-2002), Research Associate in Prof. Michael Sternberg's Structural Bioinformatics Group at Imperial College London (2003-2005), working on the modelling of metabolic networks and protein function prediction, and Ramón y Cajal researcher (2005-2006). (Description curated from publicly available data.) |
Profile
| Institution | CNB |
| Position | Tenured Scientist (Científico Titular) and Group Leader |
| Home page | https://csbg.cnb.csic.es/pazos/ |
| Contact email | pazos@cnb.csic.es |
| ORCID | 0000-0002-2646-6226 |
BCB Hub
| BCB Committee | Not a member |
| BCB Tools | MBROLE, Breaking-Cas, CoMentG, Allergen Predictor, Cell4Rare, PMIDigest, iFragMent, Bacterial Feature Finder (BaFF), WeReview: CRISPR Tools, Mirrortree server, pMT |
| BCB Services |
Research
Research topics
None
Research lines
Projects, networks, transfer & teaching
Teaching
Master programs
- Master in Bioinformatics - Universidad Complutense de Madrid (2006-2012) and Escuela Nacional de Sanidad, Instituto de Salud Carlos III (2013-2017): organization and teaching of the 2-week module on Biological Networks and Systems Biology
- Master's courses at the Universidad Autónoma de Madrid (Bacterial Biotechnology, Understanding Biomolecules)
- Degree and master courses at the Universidad Carlos III de Madrid (since 2013)
- Bioinformatics and Data Management - University of Malaga (2015-2020)
- Source: https://csbg.cnb.csic.es/pazos/cv.html
Doctoral programs
- PhD courses at the Department of Molecular Biology, Universidad Autónoma de Madrid (Bioinformatics, Structure of Macromolecules, Microbial Biotechnology; 1999-2001 and 2005-2011), including the organization and teaching of the 2-week PhD course Biological Networks and Systems Biology (2008)
- Source: https://csbg.cnb.csic.es/pazos/cv.html
Publications 89 entries
- Prediction of plant food allergens using protein embeddings Software · 2026
- Network-Based Methods for Approaching Human Pathologies from a Phenotypic Point of View Article · 17 Jun 2022
- CoMent: Relationships Between Biomedical Concepts Inferred From the Scientific Literature Software · Jun 2022
- Computational prediction of protein functional sites—Applications in biotechnology and biomedicine Book / chapter · 2022
- Prediction of Protein Sites and Physicochemical Properties Related to Functional Specificity Article · 3 Dec 2021
View all (84 more)
- A genome-wide analysis identifies DIDO3 binding at active chromatin and topological boundaries in mouse stem cells Preprint · 29 Sep 2021
- Predicting biological pathways of chemical compounds with a profile-inspired approach Software · 12 Jun 2021
- Network Analysis in Systems Biology Book / chapter · 2021
- Protein residues determining interaction specificity in paralogous families Article · 18 Dec 2020
- Phenotype-genotype comorbidity analysis of patients with rare disorders provides insight into their pathological and molecular bases Article · 1 Oct 2020
- Systematic identification of genetic systems associated with phenotypes in patients with rare genomic copy number variations Article · 10 Aug 2020
- Concomitant prediction of environmental fate and toxicity of chemical compounds Article · 1 Jan 2020
- Bacterial Feature Finder (BaFF)—a system for extracting features overrepresented in sets of prokaryotic organisms Software · 14 Feb 2019
- Applications of molecular networks in biomedicine Article · 1 Jan 2019
- Automatic detection of genomic regions with informative epigenetic patterns Article · 28 Nov 2018
- Effect of the sequence data deluge on the performance of methods for detecting protein functional residues Article · 27 Feb 2018
- Characteristics and evolution of the ecosystem of software tools supporting research in molecular biology Article · 16 Jan 2018
- Factors affecting interactome-based prediction of human genes associated with clinical signs Article · 17 Jul 2017
- A Molecular Basis for the Presentation of Phosphorylated Peptides by HLA-B Antigens Article · Feb 2017
- Rare disease relations through common genes and protein interactions Article · Jun 2016
- Breaking-Cas—interactive design of guide RNAs for CRISPR-Cas experiments for ENSEMBL genomes Software · 10 May 2016
- MBROLE 2.0—functional enrichment of chemical compounds Software · 15 Apr 2016
- Characterization of clinical signs in the human interactome Article · 9 Feb 2016
- Functional Analysis of Metabolomics Data Book / chapter · 2016
- Protein functional features are reflected in the patterns of mRNA translation speed Article · 9 Jul 2015
- Practical analysis of specificity-determining residues in protein families Article · 2 Jul 2015
- Detection of significant protein coevolution Software · 24 Feb 2015
- Practical protein bioinformatics Book / chapter · 2015
- Rational design of a ligand-based antagonist of jasmonate perception Article · 6 Jul 2014
- Practical aspects of protein co-evolution Article · 22 Apr 2014
- Molecular determinants of the ATP hydrolysis asymmetry of the CCT chaperonin complex Article · 12 Feb 2014
- Structural basis for the broad specificity of a new family of amino-acid racemases Article · 24 Dec 2013
- COPRED: prediction of fold, GO molecular function and functional residues at the domain level Article · 29 May 2013
- Emerging methods in protein co-evolution Article · 5 Mar 2013
- Genome-Wide Analysis of Protein Disorder in Arabidopsis thaliana: Implications for Plant Environmental Adaptation Article · 7 Feb 2013
- Concomitant prediction of function and fold at the domain level with GO-based profiles Article · Feb 2013
- Protein intrinsic disorder in plants Article · 2013
- Computational Prediction of Important Regions in Protein Sequences [Life Sciences] Article · Nov 2012
- Tools for the functional interpretation ofmetabolomic experiments Article · 14 Oct 2012
- Incorporating information on predicted solvent accessibility to the co-evolution-based study of protein interactions Article · 10 Oct 2012
- JDet: interactive calculation and visualization of function-related conservation patterns in multiple sequence alignments and structures Article · 9 Dec 2011
- Selection of organisms for the co-evolution-based study of protein interactions Article · 12 Sep 2011
- Towards the prediction of protein interaction partners using physical docking Article · 15 Feb 2011
- MBRole: Enrichment analysis of metabolomic data Software · 5 Jan 2011
- Genetic polymorphisms among C57BL/6 mouse inbred strains Article · 27 May 2010
- Quantitative global studies of reactomes and metabolomes using a vectorial representation of reactions and chemical compounds Article · 20 Apr 2010
- Studying the co-evolution of protein families with the Mirrortree web server Software · 30 Mar 2010
- Protein interactions and ligand binding: From protein subfamilies to functional specificity Article · 19 Jan 2010
- Quantifying the biological significance of gene ontology biological processes--implications for the analysis of systems-wide data Article · 4 Dec 2009
- Reactome Array: Forging a Link Between Metabolome and Genome Article · 9 Oct 2009
- Corrigendum to “Automatic Methods for Predicting Functionally Important Residues” [J. Mol. Biol. 326 (2003) 1289–1302] Article · Mar 2009
- Gene ontology functional annotations at the structural domain level Article · 24 Feb 2009
- Protein co‐evolution, co‐adaptation and interactions Article · 25 Sep 2008
- Co‐evolution and co‐adaptation in protein networks Article · 20 Feb 2008
- Integrative Top-Down System Metabolic Modeling in Experimental Disease States via Data-Driven Bayesian Methods Article · 15 Feb 2008
- Defining functional distances over Gene Ontology Article · 25 Jan 2008
- Enhancing the prediction of protein pairings between interacting families using orthology information Article · 23 Jan 2008
- High-confidence prediction of global interactomes based on genome-wide coevolutionary networks Article · 22 Jan 2008
- Integrative Top-Down System Metabolic Modeling in Experimental Disease States via Data-Driven Bayesian Methods Article · 8 Jan 2008
- Prediction of protein interaction based on similarity of phylogenetic trees. Book / chapter · 2008
- The environmental fate of organic pollutants through the global microbial metabolism Article · 5 Jun 2007
- TSEMA: interactive prediction of protein pairings between interacting families Article · 1 Jul 2006
- TreeDet: a web server to explore sequence space Article · 1 Jul 2006
- Phylogeny-independent detection of functional residues Article · 21 Mar 2006
- The proteome: structure, function and evolution Article · 3 Feb 2006
- Assessing Protein Co-evolution in the Context of the Tree of Life Assists in the Prediction of the Interactome Article · Sep 2005
- EVAcon: a protein contact prediction evaluation service Article · 1 Jul 2005
- The Biodegradation Network, a New Scenario for Computational Systems Biology Research Book / chapter · 2005
- Accessible Protein Interaction Data for Network Modeling. Structure of the Information and Available Repositories Book / chapter · 2005
- MetaRouter: bioinformatics for bioremediation Article · 17 Dec 2004
- Automated prediction of protein function and detection of functional sites from structure Article · 29 Sep 2004
- Modelling Inhibition in Metabolic Pathways Through Abduction and Induction Book / chapter · 2004
- The single tryptophan of the PsbQ protein of photosystem II is at the end of a 4-α-helical bundle domain Article · 9 Sep 2003
- The organization of the microbial biodegradation network from a systems‐biology perspective Article · 5 Sep 2003
- EVA: evaluation of protein structure prediction servers Article · 1 Jul 2003
- The Oligomerization Domain of VP3, the Scaffolding Protein of Infectious Bursal Disease Virus, Plays a Critical Role in Capsid Assembly Article · Jun 2003
- Prediction of Protein‐Protein Interactions from Evolutionary Information Other · 10 Feb 2003
- A neural network approach to evaluate fold recognition results Article · 6 Feb 2003
- Automatic Methods for Predicting Functionally Important Residues Article · Feb 2003
- CAFASP3 in the spotlight of EVA Article · 2003
- Computational methods for the prediction of protein interactions Article · Jun 2002
- In silico two‐hybrid system for the selection of physically interacting protein pairs Article · 7 Mar 2002
- Prediction of protein–protein interaction sites in heterocomplexes with neural networks Article · Mar 2002
- EVA: continuous automatic evaluation of protein structure prediction servers Article · 1 Dec 2001
- Threading structural model of the manganese‐stabilizing protein PsbO reveals presence of two possible β‐sandwich domains Article · 23 Oct 2001
- Similarity of phylogenetic trees as indicator of protein–protein interaction Article · Sep 2001
- CAFASP2: The second critical assessment of fully automated structure prediction methods Article · 2001
- A platform for integrating threading results with protein family analyses Article · 1 Dec 1999
- Correlated mutations contain information about protein-protein interaction 1 1Edited by A. R. Fersht Article · Aug 1997