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Viewing Publication 1 - 38 from 38

2024

CoMentG: comprehensive retrieval of generic relationships between biomedical concepts from the scientific literatureJorge Novoa, Javier López-Ibáñez, Monica Chagoyen, Juan Antonio Garcia-Ranea, Florencio Pazos. biodb, 2024, January 2024. [doi]

2023

MBROLE3: improved functional enrichment of chemical compounds for metabolomics data analysisJavier López-Ibáñez, Florencio Pazos, Monica Chagoyen. nar, 51(W1):305-309, July 2023. [doi]

2021

Predicting biological pathways of chemical compounds with a profile-inspired approachJavier López-Ibáñez, Florencio Pazos, Monica Chagoyen. bmcbi, 22(1):320, 2021. [doi]

Protein residues determining interaction specificity in paralogous familiesBorja Pitarch, Juan A. G. Ranea, Florencio Pazos. bioinformatics, 37(8):1076-1082, 2021. [doi]

2019

Bacterial Feature Finder (BaFF) - a system for extracting features overrepresented in sets of prokaryotic organismsJavier López-Ibáñez, Laura T. Martín, Monica Chagoyen, Florencio Pazos. bioinformatics, 35(18):3482-3483, 2019. [doi]

Characteristics and evolution of the ecosystem of software tools supporting research in molecular biologyFlorencio Pazos, Monica Chagoyen. bib, 20(4):1329-1336, 2019. [doi]

2018

Effect of the sequence data deluge on the performance of methods for detecting protein functional residuesDiego Garrido-Martín, Florencio Pazos. bmcbi, 19(1), 2018. [doi]

2017

Factors affecting interactome-based prediction of human genes associated with clinical signsSara González-Pérez, Florencio Pazos, Monica Chagoyen. bmcbi, 18(1):340, 2017. [doi]

2016

2015

Detection of significant protein coevolutionDavid Ochoa, David de Juan, Alfonso Valencia, Florencio Pazos. bioinformatics, 31(13):2166-2173, 2015. [doi]

2013

Tools for the functional interpretation of metabolomic experimentsMonica Chagoyen, Florencio Pazos. bib, 14(6):737-744, 2013. [doi]

COPRED: prediction of fold, GO molecular function and functional residues at the domain levelDaniel Lopez, Florencio Pazos. bioinformatics, 29(14):1811-1812, 2013. [doi]

Concomitant prediction of function and fold at the domain level with GO-based profilesDaniel Lopez, Florencio Pazos. bmcbi, 14(S-3), 2013. [doi]

2012

JDet: interactive calculation and visualization of function-related conservation patterns in multiple sequence alignments and structuresThilo Muth, Juan A. García-Martín, Antonio Rausell, David de Juan, Alfonso Valencia, Florencio Pazos. bioinformatics, 28(4):584-586, 2012. [doi]

2011

MBRole: enrichment analysis of metabolomic dataMonica Chagoyen, Florencio Pazos. bioinformatics, 27(5):730-731, 2011. [doi]

Selection of organisms for the co-evolution-based study of protein interactionsDorota Herman, David Ochoa, David de Juan, Daniel Lopez, Alfonso Valencia, Florencio Pazos. bmcbi, 12:363, 2011. [doi]

2010

Quantifying the biological significance of gene ontology biological processes - implications for the analysis of systems-wide dataMonica Chagoyen, Florencio Pazos. bioinformatics, 26(3):378-384, 2010. [doi]

Studying the co-evolution of protein families with the Mirrortree web serverDavid Ochoa, Florencio Pazos. bioinformatics, 26(10):1370-1371, 2010. [doi]

Quantitative global studies of reactomes and metabolomes using a vectorial representation of reactions and chemical compoundsJuan C. Triviño, Florencio Pazos. bmcsb, 4:46, 2010. [doi]

2008

2006

TreeDet: a web server to explore sequence spaceAngel Carro, Michael L. Tress, David de Juan, Florencio Pazos, Pedro Lopez-Romero, Antonio del Sol, Alfonso Valencia, Ana María Rojas. nar, 34(Web-Server-Issue):110-115, 2006. [doi]

TSEMA: interactive prediction of protein pairings between interacting familiesJosé M. G. Izarzugaza, David de Juan, Carles Pons, Juan A. G. Ranea, Alfonso Valencia, Florencio Pazos. nar, 34(Web-Server-Issue):315-319, 2006. [doi]

Phylogeny-independent detection of functional residuesFlorencio Pazos, Antonio Rausell, Alfonso Valencia. bioinformatics, 22(12):1440-1448, 2006. [doi]

2005

EVAcon: a protein contact prediction evaluation serviceOsvaldo Graña, Volker A. Eyrich, Florencio Pazos, Burkhard Rost, Alfonso Valencia. nar, 33(Web-Server-Issue):347-351, 2005. [doi]

Accessible Protein Interaction Data for Network Modeling. Structure of the Information and Available RepositoriesManuel Gómez, Ramón Alonso-Allende, Florencio Pazos, Osvaldo Graña, David de Juan, Alfonso Valencia. TCSB, 1:1-13, 2005. [doi]

MetaRouter: bioinformatics for bioremediationFlorencio Pazos, David Guijas, Alfonso Valencia, Victor de Lorenzo. nar, 33(Database-Issue):588-592, 2005. [doi]

2004

The Biodegradation Network, a New Scenario for Computational Systems Biology ResearchFlorencio Pazos, David Guijas, Manuel J. Gomez, Almudena Trigo, Victor de Lorenzo, Alfonso Valencia. cmsb 2005: 252-256 [doi]

Modelling Inhibition in Metabolic Pathways Through Abduction and InductionAlireza Tamaddoni-Nezhad, Antonis C. Kakas, Stephen Muggleton, Florencio Pazos. ilp 2004: 305-322 [doi]

2003

EVA: evaluation of protein structure prediction serversIngrid Y. Y. Koh, Volker A. Eyrich, Marc A. Martí-Renom, Dariusz Przybylski, Mallur S. Madhusudhan, Narayanan Eswar, Osvaldo Graña, Florencio Pazos, Alfonso Valencia, Andrej Sali, Burkhard Rost. nar, 31(13):3311-3315, 2003.

2001

EVA: continuous automatic evaluation of protein structure prediction serversVolker A. Eyrich, Marc A. Martí-Renom, Dariusz Przybylski, Mallur S. Madhusudhan, András Fiser, Florencio Pazos, Alfonso Valencia, Andrej Sali, Burkhard Rost. bioinformatics, 17(12):1242-1243, 2001.

1999

A platform for integrating threading results with protein family analysesFlorencio Pazos, Burkhard Rost, Alfonso Valencia. bioinformatics, 15(12):1062-1063, 1999.

1997

A graphical interface for correlated mutations and other protein structure prediction methodsFlorencio Pazos, O. Olmea, Alfonso Valencia. bioinformatics, 13(3):319-321, 1997.

Comparative Analysis of Different Methods for the Detection of Specificity Regions in Protein FamiliesFlorencio Pazos, Luis Sánchez-Pulido, Juan A. Garcia-Ranca, Miguel A. Andrade, Silvia Atrian, Alfonso Valencia. bcec 1997: 132-145

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