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ORCIDMiguel A. Andrade-Navarro
Miguel A. Andrade
Person information
- affiliation: Max Delbrück Center for Molecular Medicine
- affiliation: Ottawa Hospital Research Institute
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2020 – today
- 2022
[j57]Pablo Mier
, Carlos A. Elena-Real, Juan Cortés, Pau Bernadó, Miguel A. Andrade-Navarro:
The sequence context in poly-alanine regions: structure, function and conservation. Bioinform. 38(21): 4851-4858 (2022)- [j56]Maximilian Sprang, Miguel A. Andrade-Navarro, Jean-Fred Fontaine:
Batch effect detection and correction in RNA-seq data using machine-learning-based automated assessment of quality. BMC Bioinform. 23(1): 279 (2022) - 2021
- [j55]Piyush More, Laura Bindila, Philipp Wild, Miguel A. Andrade-Navarro, Jean-Fred Fontaine:
LipiDisease: associate lipids to diseases using literature mining. Bioinform. 37(21): 3981-3982 (2021) - [j54]Lisanna Paladin, Martina Bevilacqua, Sara Errigo, Damiano Piovesan, Ivan Micetic, Marco Necci, Alexander Miguel Monzon, Maria Laura Fabre, José Luis López, Juliet F. Nilsson, Javier Ríos, Pablo Lorenzano Menna, Maia Cabrera, Martin Gonzalez Buitron, Mariane Gonçalves Kulik, Sebastian Fernandez Alberti, María Silvina Fornasari, Gustavo D. Parisi, Antonio Lagares, Layla Hirsh, Miguel A. Andrade-Navarro, Andrey V. Kajava, Silvio C. E. Tosatto:
RepeatsDB in 2021: improved data and extended classification for protein tandem repeat structures. Nucleic Acids Res. 49(Database-Issue): D452-D457 (2021) - 2020
- [j53]Pablo Mier, Lisanna Paladin, Stella Tamana, Sophia Petrosian, Borbála Hajdu-Soltész, Annika Urbanek, Aleksandra Gruca, Dariusz Plewczynski, Marcin Grynberg, Pau Bernadó, Zoltán Gáspári, Christos A. Ouzounis, Vasilis J. Promponas, Andrey V. Kajava, John M. Hancock, Silvio C. E. Tosatto, Zsuzsanna Dosztányi, Miguel A. Andrade-Navarro:
Disentangling the complexity of low complexity proteins. Briefings Bioinform. 21(2): 458-472 (2020) - [j52]Gregorio Alanis-Lobato, Jannik S. Möllmann, Martin H. Schaefer, Miguel A. Andrade-Navarro:
MIPPIE: the mouse integrated protein-protein interaction reference. Database J. Biol. Databases Curation 2020 (2020) - [j51]Alejandro Rubio, Pablo Mier, Miguel A. Andrade-Navarro, Andrés Garzón, Juan Jiménez, Antonio J. Pérez-Pulido:
CRISPR sequences are sometimes erroneously translated and can contaminate public databases with spurious proteins containing spaced repeats. Database J. Biol. Databases Curation 2020 (2020) - [j50]Patryk Jarnot, Joanna Ziemska-Legiecka, Laszlo Dobson, Matthew Merski, Pablo Mier, Miguel A. Andrade-Navarro, John M. Hancock, Zsuzsanna Dosztányi, Lisanna Paladin, Marco Necci, Damiano Piovesan, Silvio C. E. Tosatto, Vasilis J. Promponas, Marcin Grynberg, Aleksandra Gruca:
PlaToLoCo: the first web meta-server for visualization and annotation of low complexity regions in proteins. Nucleic Acids Res. 48(Webserver-Issue): W77-W84 (2020) - [c15]Sophie Burkhardt, Julia Siekiera, Josua Glodde, Miguel A. Andrade-Navarro, Stefan Kramer:
Towards Identifying Drug Side Effects from Social Media Using Active Learning andCrowd Sourcing. PSB 2020: 319-330
2010 – 2019
- 2019
- [j49]Pablo Mier, Miguel A. Andrade-Navarro:
Toward completion of the Earth's proteome: an update a decade later. Briefings Bioinform. 20(2): 463-470 (2019) - [j48]Pablo Mier, Miguel A. Andrade-Navarro:
Traitpedia: a collaborative effort to gather species traits. Bioinform. 35(6): 1079-1081 (2019) - 2018
- [j47]Franziska Härtner, Miguel A. Andrade-Navarro, Gregorio Alanis-Lobato:
Geometric characterisation of disease modules. Appl. Netw. Sci. 3(1): 10:1-10:17 (2018) - [j46]Gregorio Alanis-Lobato, Pablo Mier, Miguel A. Andrade-Navarro:
The latent geometry of the human protein interaction network. Bioinform. 34(16): 2826-2834 (2018) - [j45]Pablo Mier, Antonio J. Pérez-Pulido, Miguel A. Andrade-Navarro:
Automated selection of homologs to track the evolutionary history of proteins. BMC Bioinform. 19(1): 431:1-431:9 (2018) - 2017
- [j44]Pablo Mier, Miguel A. Andrade-Navarro:
dAPE: a web server to detect homorepeats and follow their evolution. Bioinform. 33(8): 1221-1223 (2017) - [j43]Lisanna Paladin, Layla Hirsh, Damiano Piovesan, Miguel A. Andrade-Navarro, Andrey V. Kajava, Silvio C. E. Tosatto:
RepeatsDB 2.0: improved annotation, classification, search and visualization of repeat protein structures. Nucleic Acids Res. 45(Database-Issue): D308-D312 (2017) - [j42]Gregorio Alanis-Lobato, Miguel A. Andrade-Navarro, Martin H. Schaefer:
HIPPIE v2.0: enhancing meaningfulness and reliability of protein-protein interaction networks. Nucleic Acids Res. 45(Database-Issue): D408-D414 (2017) - [c14]Marco Frasca, Jean-Fred Fontaine, Giorgio Valentini, Marco Mesiti, Marco Notaro, Dario Malchiodi, Miguel A. Andrade-Navarro:
Disease-Genes Must Guide Data Source Integration in the Gene Prioritization Process. CIBB 2017: 60-69 - [c13]Michael G. Sadovsky, Jean-Fred Fontaine, Miguel A. Andrade-Navarro, Yury Yakubailik, Natalia Rudenko:
Lost Strings in Genomes: What Sense Do They Make? IWBBIO (2) 2017: 20-29 - 2016
- [j41]Gregorio Alanis-Lobato, Pablo Mier, Miguel A. Andrade-Navarro:
Manifold learning and maximum likelihood estimation for hyperbolic network embedding. Appl. Netw. Sci. 1: 10 (2016) - [j40]Gregorio Alanis-Lobato, Miguel A. Andrade-Navarro:
Distance Distribution between Complex Network Nodes in Hyperbolic Space. Complex Syst. 25(3) (2016) - [j39]Pablo Mier, Miguel A. Andrade-Navarro:
FastaHerder2: Four Ways to Research Protein Function and Evolution with Clustering and Clustered Databases. J. Comput. Biol. 23(4): 270-278 (2016) - 2014
- [j38]Sander Bollen, Mathias Leddin, Miguel A. Andrade-Navarro, Nancy Mah:
CAFE: an R package for the detection of gross chromosomal abnormalities from gene expression microarray data. Bioinform. 30(10): 1484-1485 (2014) - [j37]Klaus Wethmar, Adriano Barbosa-Silva, Miguel A. Andrade-Navarro, Achim Leutz:
uORFdb - a comprehensive literature database on eukaryotic uORF biology. Nucleic Acids Res. 42(Database-Issue): 60-67 (2014) - [j36]Harald Stachelscheid, Stefanie Seltmann, Fritz Lekschas, Jean-Fred Fontaine, Nancy Mah, Mariana L. Neves, Miguel A. Andrade-Navarro, Ulf Leser, Andreas Kurtz:
CellFinder: a cell data repository. Nucleic Acids Res. 42(Database-Issue): 950-958 (2014) - [j35]José A. Gijón-Correas, Miguel A. Andrade-Navarro, Jean-Fred Fontaine:
Alkemio: association of chemicals with biomedical topics by text and data mining. Nucleic Acids Res. 42(Webserver-Issue): 422-429 (2014) - [j34]Apichat Suratanee, Martin H. Schaefer, Matthew J. Betts, Zita Soons, Heiko A. Mannsperger, Nathalie Harder, Marcus Oswald, Markus Gipp, Ellen Ramminger, Guillermo Marcus Martinez, Reinhard Männer, Karl Rohr, Erich E. Wanker, Robert B. Russell, Miguel A. Andrade-Navarro, Roland Eils, Rainer König:
Characterizing Protein Interactions Employing a Genome-Wide siRNA Cellular Phenotyping Screen. PLoS Comput. Biol. 10(9) (2014) - 2013
- [j33]Francisco M. Ortuño Guzman, Ignacio Rojas, Miguel A. Andrade-Navarro, Jean-Fred Fontaine:
Using cited references to improve the retrieval of related biomedical documents. BMC Bioinform. 14: 113 (2013) - [j32]Arvind Mer, Miguel A. Andrade-Navarro:
A novel approach for protein subcellular location prediction using amino acid exposure. BMC Bioinform. 14: 342 (2013) - [j31]Joachim von Eichborn, Mathias Dunkel, Björn O. Gohlke, Sarah C. Preissner, Michael F. Hoffmann, Jakob M. J. Bauer, J. Douglas Armstrong, Martin H. Schaefer, Miguel A. Andrade-Navarro, Nicolas Le Novère, Michael D. R. Croning, Seth G. N. Grant, Pim van Nierop, August B. Smit, Robert Preissner:
SynSysNet: integration of experimental data on synaptic protein-protein interactions with drug-target relations. Nucleic Acids Res. 41(Database-Issue): 834-840 (2013) - [j30]Martin H. Schaefer, Tiago J. S. Lopes, Nancy Mah, Jason E. Shoemaker, Yukiko Matsuoka, Jean-Fred Fontaine, Caroline Louis-Jeune, Amie J. Eisfeld, Gabriele Neumann, Carol Perez-Iratxeta, Yoshihiro Kawaoka, Hiroaki Kitano, Miguel A. Andrade-Navarro:
Adding Protein Context to the Human Protein-Protein Interaction Network to Reveal Meaningful Interactions. PLoS Comput. Biol. 9(1) (2013) - 2012
- [j29]Miguel A. Andrade-Navarro, Gareth A. Palidwor, Carolina Perez-Iratxeta:
Peer2ref: a peer-reviewer finding web tool that uses author disambiguation. BioData Min. 5: 14 (2012) - [c12]Metin Akay, Yuan-Ting Zhang, Konstantina S. Nikita, Miguel A. Andrade, Christos A. Ouzounis:
Keynote lectures. BIBE 2012: 1-10 - 2011
- [j28]Tiago J. S. Lopes, Martin H. Schaefer, Jason E. Shoemaker, Yukiko Matsuoka, Jean-Fred Fontaine, Gabriele Neumann, Miguel A. Andrade-Navarro, Yoshihiro Kawaoka, Hiroaki Kitano:
Tissue-specific subnetworks and characteristics of publicly available human protein interaction databases. Bioinform. 27(17): 2414-2421 (2011) - [j27]David Fournier, Miguel A. Andrade-Navarro:
PDBpaint, a visualization webservice to tag protein structures with sequence annotations. Bioinform. 27(18): 2605-2606 (2011) - [j26]Adriano Barbosa-Silva, Jean-Fred Fontaine, Elisa R. Donnard, Fernanda Stussi, José Miguel Ortega, Miguel A. Andrade-Navarro:
PESCADOR, a web-based tool to assist text-mining of biointeractions extracted from PubMed queries. BMC Bioinform. 12: 435 (2011) - [j25]Jean-Fred Fontaine, Florian Priller, Adriano Barbosa-Silva, Miguel A. Andrade-Navarro:
Génie: literature-based gene prioritization at multi genomic scale. Nucleic Acids Res. 39(Web-Server-Issue): 455-461 (2011) - 2010
- [j24]Adriano Barbosa-Silva, Theodoros G. Soldatos, Ivan L. F. Magalhães, Georgios A. Pavlopoulos, Jean-Fred Fontaine, Miguel A. Andrade-Navarro, Reinhard Schneider, José Miguel Ortega:
LAITOR - Literature Assistant for Identification of Terms co-Occurrences and Relationships. BMC Bioinform. 11: 70 (2010)
2000 – 2009
- 2009
- [j23]Jean-Fred Fontaine, Adriano Barbosa-Silva, Martin H. Schaefer, Matthew R. Huska, Enrique M. Muro, Miguel A. Andrade-Navarro:
MedlineRanker: flexible ranking of biomedical literature. Nucleic Acids Res. 37(Web-Server-Issue): 141-146 (2009) - [j22]Gareth A. Palidwor, Sergey Shcherbinin, Matthew R. Huska, Tamas Rasko, Ulrich Stelzl, Anup Arumughan, Raphaele Foulle, Pablo Porras, Luis Sánchez-Pulido, Erich E. Wanker, Miguel A. Andrade-Navarro:
Detection of Alpha-Rod Protein Repeats Using a Neural Network and Application to Huntingtin. PLoS Comput. Biol. 5(3) (2009) - [c11]Mircea Trifan, Dan Ionescu, Carolina Perez-Iratxeta, Miguel A. Andrade:
Text Mining and Semantic Search with a Predicate Argument Structure Database. BIOCOMP 2009: 664-668 - 2008
- [c10]Shenggang Li, Miguel A. Andrade-Navarro, David Sankoff:
A Customized Class of Functions for Modeling and Clustering Gene Expression Profiles in Embryonic Stem Cells. BSB 2008: 92-103 - 2007
- [j21]Carolina Perez-Iratxeta, Miguel A. Andrade-Navarro, Jonathan D. Wren:
Evolving research trends in bioinformatics. Briefings Bioinform. 8(2): 88-95 (2007) - [j20]Matthew R. Huska, Henrik Buschmann, Miguel A. Andrade-Navarro:
BiasViz: visualization of amino acid biased regions in protein alignments. Bioinform. 23(22): 3093-3094 (2007) - [j19]Carolina Perez-Iratxeta, Peer Bork, Miguel A. Andrade-Navarro:
Update of the G2D tool for prioritization of gene candidates to inherited diseases. Nucleic Acids Res. 35(Web-Server-Issue): 212-216 (2007) - 2006
- [j18]Gareth A. Palidwor, Emmanuel G. Reynaud, Miguel A. Andrade-Navarro:
Taxonomic colouring of phylogenetic trees of protein sequences. BMC Bioinform. 7: 79 (2006) - [j17]Enrique M. Muro, Carolina Perez-Iratxeta, Miguel A. Andrade-Navarro:
Amplification of the Gene Ontology annotation of Affymetrix probe sets. BMC Bioinform. 7: 159 (2006) - 2005
- [j16]Brian P. Suomela, Miguel A. Andrade:
Ranking the whole MEDLINE database according to a large training set using text indexing. BMC Bioinform. 6: 75 (2005) - [j15]Carolina Perez-Iratxeta, Miguel A. Andrade:
Inconsistencies over time in 5% of NetAffx probe-to-gene annotations. BMC Bioinform. 6: 183 (2005) - 2004
- [j14]Antonio J. Pérez-Pulido, Carolina Perez-Iratxeta, Peer Bork, Guillermo Thode, Miguel A. Andrade:
Gene annotation from scientific literature using mappings between keyword systems. Bioinform. 20(13): 2084-2091 (2004) - 2003
- [j13]Ioannis Iliopoulos, Sophia Tsoka, Miguel A. Andrade, Anton J. Enright, Mark Carroll, Patrick Poullet, Vasilis J. Promponas, Theodore Liakopoulos, Giorgos Palaios, Claude Pasquier, Stavros J. Hamodrakas, Javier Tamames, Asutosh T. Yagnik, Anna Tramontano, Damien Devos, Christian Blaschke, Alfonso Valencia, David Brett, David M. A. Martin, Christophe Leroy, Isidore Rigoutsos, Chris Sander, Christos A. Ouzounis:
Evaluation of annotation strategies using an entire genome sequence. Bioinform. 19(6): 717-726 (2003) - [j12]Parantu K. Shah, Carolina Perez-Iratxeta, Peer Bork, Miguel A. Andrade:
Information extraction from full text scientific articles: Where are the keywords? BMC Bioinform. 4: 20 (2003) - [j11]Carolina Perez-Iratxeta, Antonio J. Pérez-Pulido, Peer Bork, Miguel A. Andrade:
Update on XplorMed: a web server for exploring scientific literature. Nucleic Acids Res. 31(13): 3866-3868 (2003) - 2001
- [j10]Miguel A. Andrade, Enrique M. Muro, Federico Morán:
Simulation of plasticity in the adult visual cortex. Biol. Cybern. 84(6): 445-451 (2001) - 2000
- [j9]Luis Sánchez-Pulido, Yan P. Yuan, Miguel A. Andrade, Peer Bork:
NAIL-Network Analysis Interface for Linking HMMER results. Bioinform. 16(7): 656-657 (2000)
1990 – 1999
- 1999
- [j8]Miguel A. Andrade, Nigel P. Brown, Christophe Leroy, S. Hörsch, Antoine de Daruvar, C. Reich, Angelo Franchini, Javier Tamames, Alfonso Valencia, Christos A. Ouzounis, Chris Sander:
Automated genome sequence analysis and annotation. Bioinform. 15(5): 391-412 (1999) - [c9]Miguel A. Andrade:
Position-Specific Annotation of Protein Function Based on Multiple Homologs. ISMB 1999: 28-33 - [c8]Christian Blaschke, Miguel A. Andrade, Christos A. Ouzounis, Alfonso Valencia:
Automatic Extraction of Biological Information from Scientific Text: Protein-Protein Interactions. ISMB 1999: 60-67 - [c7]Enrique M. Muro, Miguel A. Andrade, Pedro Isasi, Federico Morán:
A Self-Organizing Model for the Development of Ocular Dominance and Orientation Columns in the Virtual Cortex. IWANN (1) 1999: 104-112 - 1998
- [j7]Oswaldo Trelles, Miguel A. Andrade, Alfonso Valencia, Emilio L. Zapata, José María Carazo:
Computational space reduction and parallelization of a new clustering approach for large groups of sequences. Bioinform. 14(5): 439-451 (1998) - [j6]Miguel A. Andrade, Alfonso Valencia:
Automatic extraction of keywords from scientific text: application to the knowledge domain of protein families. Bioinform. 14(7): 600-607 (1998) - 1997
- [j5]Miguel A. Andrade, Georg Casari, Chris Sander, Alfonso Valencia:
Classification of protein families and detection of the determinant residues with an improved self-organizing map. Biol. Cybern. 76(6): 441-450 (1997) - [j4]Miguel A. Andrade, Georg Casari, Antoine de Daruvar, Chris Sander, Reinhard Schneider, Javier Tamames, Alfonso Valencia, Christos A. Ouzounis:
Sequence analysis of the Methanococcus jannaschii genome and the prediction of protein function. Comput. Appl. Biosci. 13(4): 481-483 (1997) - [j3]Miguel A. Andrade, Federico Morán:
Receptive Field Map Development by Anti-Hebbian Learning. Neural Networks 10(6): 1037-1052 (1997) - [c6]Florencio Pazos, Luis Sánchez-Pulido, Juan Antonio Garcia-Ranca, Miguel A. Andrade, Silvia Atrian, Alfonso Valencia:
Comparative Analysis of Different Methods for the Detection of Specificity Regions in Protein Families. BCEC 1997: 132-145 - [c5]Miguel A. Andrade, Alfonso Valencia:
Automatic Annotation for Biological Sequences by Etraction of Keywords from MEDLINE Abstracts: Development of a Prototype System. ISMB 1997: 25-32 - [c4]Enrique M. Muro, Pedro Isasi, Miguel A. Andrade, Federico Morán:
Development of On-Off and Off-On Receptive Fields Using a Semistochastic Model. IWANN 1997: 35-43 - 1996
- [j2]Miguel A. Andrade, Federico Morán:
Structural study of the development of ocularity domains using a neural network model. Biol. Cybern. 74(3): 243-254 (1996) - 1995
- [c3]Federico Morán, Miguel A. Andrade:
A Neural Network Model for Plasticity in Adult Striate Cortex. IWANN 1995: 108-113 - 1994
- [j1]Juan Julián Merelo Guervós, Miguel A. Andrade, Alberto Prieto, Federico Morán:
Proteinotopic feature maps. Neurocomputing 6(4): 443-454 (1994) - 1993
- [c2]Miguel A. Andrade, Federico Morán:
A Model for the Development of Neurons Selective to Visual Stimulus Size. IWANN 1993: 24-29 - 1991
- [c1]Juan Julián Merelo Guervós, Miguel A. Andrade, Carlos Ureña, Alberto Prieto, Federico Morán:
Application of Vector Quantization Algorithms to Protein Classification and Secondary Structure Computation. IWANN 1991: 415-421
Coauthor Index
Carolina Perez-Iratxeta
aka: Carol Perez-Iratxeta
aka: Carol Perez-Iratxeta
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