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Hugo López-Fernández
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2020 – today
- 2024
- [j25]Miguel Reboiro-Jato, Daniel Pérez-Rodríguez, Miguel José Da Silva, David Vila-Fernández, Cristina P. Vieira, Jorge Vieira, Hugo López-Fernández:
SEDA 2024 update: enhancing the SEquence DAtaset builder for seamless integration into automated data analysis pipelines. BMC Bioinform. 25(1): 200 (2024) - [j24]Daniel Glez-Peña, Hugo López-Fernández, Pedro Duque, Cristina P. Vieira, Jorge Vieira:
Inferences on the evolution of the ascorbic acid synthesis pathway in insects using Phylogenetic Tree Collapser (PTC), a tool for the automated collapsing of phylogenetic trees using taxonomic information. J. Integr. Bioinform. 21(2) (2024) - [j23]Hugo López-Fernández, Miguel Pinto, Cristina P. Vieira, Pedro Duque, Miguel Reboiro-Jato, Jorge Vieira:
Auto-phylo v2 and auto-phylo-pipeliner: building advanced, flexible, and reusable pipelines for phylogenetic inferences, estimation of variability levels and identification of positively selected amino acid sites. J. Integr. Bioinform. 21(2) (2024) - 2023
- [j22]André D. Sousa, Sara Rocha, Jorge Vieira, Miguel Reboiro-Jato, Hugo López-Fernández, Cristina P. Vieira:
On the identification of potential novel therapeutic targets for spinocerebellar ataxia type 1 (SCA1) neurodegenerative disease using EvoPPI3. J. Integr. Bioinform. 20(2) (2023) - [j21]María José Jiménez-Santos, Alba Nogueira-Rodríguez, Elena Piñeiro-Yáñez, Hugo López-Fernández, Santiago García-Martín, Paula Gómez-Plana, Miguel Reboiro-Jato, Gonzalo Gómez-López, Daniel Glez-Peña, Fátima Al-Shahrour:
PanDrugs2: prioritizing cancer therapies using integrated individual multi-omics data. Nucleic Acids Res. 51(W1): 411-418 (2023) - [c17]Hugo López-Fernández, Miguel Pinto, Cristina P. Vieira, Pedro Duque, Miguel Reboiro-Jato, Jorge Vieira:
Auto-phylo: A Pipeline Maker for Phylogenetic Studies. PACBB 2023: 24-33 - 2022
- [j20]Alba Nogueira-Rodríguez, Rubén Domínguez-Carbajales, Fernando Campos-Tato, Jesús Herrero, Manuel Puga, David Remedios, Laura Rivas, Eloy Sánchez, Águeda Iglesias, Joaquín Cubiella, Florentino Fdez-Riverola, Hugo López-Fernández, Miguel Reboiro-Jato, Daniel Glez-Peña:
Real-time polyp detection model using convolutional neural networks. Neural Comput. Appl. 34(13): 10375-10396 (2022) - [j19]Hugo López-Fernández, Pedro Duque, Noé Vázquez, Florentino Fdez-Riverola, Miguel Reboiro-Jato, Cristina P. Vieira, Jorge Vieira:
SEDA: A Desktop Tool Suite for FASTA Files Processing. IEEE ACM Trans. Comput. Biol. Bioinform. 19(3): 1850-1860 (2022) - [c16]Daniel Pérez-Rodríguez, Mateo Pérez-Rodríguez, Roberto C. Agís-Balboa, Hugo López-Fernández:
Towards a Flexible and Portable Workflow for Analyzing miRNA-Seq Neuropsychiatric Data: An Initial Replicability Assessment. PACBB 2022: 31-42 - [c15]Miguel Reboiro-Jato, Jorge Vieira, Sara Rocha, André D. Sousa, Hugo López-Fernández, Cristina P. Vieira:
EvoPPI 2: A Web and Local Platform for the Comparison of Protein-Protein Interaction Data from Multiple Sources from the Same and Distinct Species. PACBB 2022: 101-110 - 2021
- [j18]Kevin Troulé, Hugo López-Fernández, Santiago García-Martín, Miguel Reboiro-Jato, Carlos Carretero-Puche, Jordi Martorell-Marugan, Guillermo Martín-Serrano, Pedro Carmona-Saez, Daniel Glez-Peña, Fátima Al-Shahrour, Gonzalo Gómez-López:
DREIMT: a drug repositioning database and prioritization tool for immunomodulation. Bioinform. 37(4): 578-579 (2021) - [j17]Daniel Pérez-Rodríguez, Hugo López-Fernández, Roberto C. Agís-Balboa:
Application of miRNA-seq in neuropsychiatry: A methodological perspective. Comput. Biol. Medicine 135: 104603 (2021) - [j16]Alba Nogueira-Rodríguez, Rubén Domínguez-Carbajales, Hugo López-Fernández, Águeda Iglesias, Joaquín Cubiella, Florentino Fdez-Riverola, Miguel Reboiro-Jato, Daniel Glez-Peña:
Deep Neural Networks approaches for detecting and classifying colorectal polyps. Neurocomputing 423: 721-734 (2021) - [j15]Hugo López-Fernández, Osvaldo Graña-Castro, Alba Nogueira-Rodríguez, Miguel Reboiro-Jato, Daniel Glez-Peña:
Compi: a framework for portable and reproducible pipelines. PeerJ Comput. Sci. 7: e593 (2021) - [c14]Hugo López-Fernández, Pedro Ferreira, Miguel Reboiro-Jato, Cristina P. Vieira, Jorge Vieira:
The pegi3s Bioinformatics Docker Images Project. PACBB 2021: 31-40 - [c13]Daniel Pérez-Rodríguez, Hugo López-Fernández, Roberto C. Agís-Balboa:
On the Reproducibility of MiRNA-Seq Differential Expression Analyses in Neuropsychiatric Diseases. PACBB 2021: 41-51 - 2020
- [c12]Hugo López-Fernández, Cristina P. Vieira, Florentino Fdez-Riverola, Miguel Reboiro-Jato, Jorge Vieira:
Inferences on Mycobacterium Leprae Host Immune Response Escape and Antibiotic Resistance Using Genomic Data and GenomeFastScreen. PACBB 2020: 42-50 - [c11]Alba Nogueira-Rodríguez, Hugo López-Fernández, Osvaldo Graña-Castro, Miguel Reboiro-Jato, Daniel Glez-Peña:
Compi Hub: A Public Repository for Sharing and Discovering Compi Pipelines. PACBB 2020: 51-59
2010 – 2019
- 2019
- [j14]Hugo López-Fernández, Aitor Blanco-Míguez, Florentino Fdez-Riverola, Borja Sánchez, Anália Lourenço:
DEWE: A novel tool for executing differential expression RNA-Seq workflows in biomedical research. Comput. Biol. Medicine 107: 197-205 (2019) - [c10]Alba Nogueira-Rodríguez, Hugo López-Fernández, Daniel Glez-Peña:
Deep Learning Techniques for Real Time Computer-Aided Diagnosis in Colorectal Cancer. DCAI (Special Sessions) 2019: 209-212 - [c9]Osvaldo Graña-Castro, Hugo López-Fernández, Florentino Fdez-Riverola, Fátima Al-Shahrour, Daniel Glez-Peña:
Proposal of a New Bioinformatics Pipeline for Metataxonomics in Precision Medicine. PACBB 2019: 8-15 - [c8]Hugo López-Fernández, Pedro Duque, Noé Vázquez, Florentino Fdez-Riverola, Miguel Reboiro-Jato, Cristina P. Vieira, Jorge Vieira:
Inferring Positive Selection in Large Viral Datasets. PACBB 2019: 61-69 - 2018
- [j13]Osvaldo Graña, Hugo López-Fernández, Florentino Fdez-Riverola, David G. Pisano, Daniel Glez-Peña:
Bicycle: a bioinformatics pipeline to analyze bisulfite sequencing data. Bioinform. 34(8): 1414-1415 (2018) - [j12]Hugo López-Fernández, Jose E. Araújo, Susana Jorge, Daniel Glez-Peña, Miguel Reboiro-Jato, Hugo Miguel Santos, Florentino Fdez-Riverola, José L. Capelo:
S2P: A software tool to quickly carry out reproducible biomedical research projects involving 2D-gel and MALDI-TOF MS protein data. Comput. Methods Programs Biomed. 155: 1-9 (2018) - [j11]Fernando Aparicio, Maria de la Luz Morales-Botello, Margarita Rubio, Asunción Hernando, Rafael Muñoz, Hugo López-Fernández, Daniel Glez-Peña, Florentino Fdez-Riverola, Manuel de la Villa, Manuel J. Maña López, Diego Gachet, Manuel de Buenaga Rodríguez:
Perceptions of the use of intelligent information access systems in university level active learning activities among teachers of biomedical subjects. Int. J. Medical Informatics 112: 21-33 (2018) - [c7]Hugo López-Fernández, Pedro Duque, Sílvia Henriques, Noé Vázquez, Florentino Fdez-Riverola, Cristina P. Vieira, Miguel Reboiro-Jato, Jorge Vieira:
A Bioinformatics Protocol for Quickly Creating Large-Scale Phylogenetic Trees. PACBB 2018: 88-96 - [c6]Noé Vázquez, Sara Rocha, Hugo López-Fernández, André Torres, Rui Camacho, Florentino Fdez-Riverola, Jorge Vieira, Cristina P. Vieira, Miguel Reboiro-Jato:
EvoPPI: A Web Application to Compare Protein-Protein Interactions (PPIs) from Different Databases and Species. PACBB 2018: 149-156 - 2017
- [j10]Miriam Rubio-Camarillo, Hugo López-Fernández, Gonzalo Gómez-López, Angel Carro, José María Fernández, Coral Fustero Torre, Florentino Fdez-Riverola, Daniel Glez-Peña:
RUbioSeq+: A multiplatform application that executes parallelized pipelines to analyse next-generation sequencing data. Comput. Methods Programs Biomed. 138: 73-81 (2017) - [c5]Hugo López-Fernández, Jose E. Araújo, Daniel Glez-Peña, Miguel Reboiro-Jato, Florentino Fdez-Riverola, José Luis Capelo-Martínez:
S2P: A Desktop Application for Fast and Easy Processing of 2D-Gel and MALDI-Based Mass Spectrometry Protein Data. PACBB 2017: 1-8 - [c4]Noé Vázquez, Cristina P. Vieira, Bárbara S. R. Amorim, André Torres, Hugo López-Fernández, Florentino Fdez-Riverola, José L. R. Sousa, Miguel Reboiro-Jato, Jorge Vieira:
Automated Collection and Sharing of Adaptive Amino Acid Changes Data. PACBB 2017: 18-25 - 2016
- [j9]Hugo López-Fernández, Gustavo de S. Pessôa, Marco A. Z. Arruda, José Luis Capelo-Martínez, Florentino Fdez-Riverola, Daniel Glez-Peña, Miguel Reboiro-Jato:
LA-iMageS: a software for elemental distribution bioimaging using LA-ICP-MS data. J. Cheminformatics 8(1): 65:1-65:10 (2016) - [c3]Miriam Rubio-Camarillo, Hugo López-Fernández, Gonzalo Gómez-López, Angel Carro, José María Fernández, Florentino Fdez-Riverola, Daniel Glez-Peña, David G. Pisano:
RUbioSeq+: An Application that Executes Parallelized Pipelines to Analyse Next-Generation Sequencing Data. PACBB 2016: 141-149 - 2015
- [j8]Hugo López-Fernández, Hugo Miguel Santos, José L. Capelo, Florentino Fdez-Riverola, Daniel Glez-Peña, Miguel Reboiro-Jato:
Mass-Up: an all-in-one open software application for MALDI-TOF mass spectrometry knowledge discovery. BMC Bioinform. 16: 318:1-318:12 (2015) - 2014
- [j7]Daniel Glez-Peña, Anália Lourenço, Hugo López-Fernández, Miguel Reboiro-Jato, Florentino Fdez-Riverola:
Web scraping technologies in an API world. Briefings Bioinform. 15(5): 788-797 (2014) - [j6]Hugo López-Fernández, Miguel Reboiro-Jato, Daniel Glez-Peña, Florentino Fernández Riverola:
A comprehensive analysis about the influence of low-level preprocessing techniques on mass spectrometry data for sample classification. Int. J. Data Min. Bioinform. 10(4): 455-473 (2014) - 2013
- [j5]Hugo López-Fernández, Miguel Reboiro-Jato, Daniel Glez-Peña, Fernando Aparicio, Diego Gachet, Manuel Buenaga, Florentino Fdez-Riverola:
BioAnnote: A software platform for annotating biomedical documents with application in medical learning environments. Comput. Methods Programs Biomed. 111(1): 139-147 (2013) - [j4]Miguel Reboiro-Jato, Rosalía Laza, Hugo López-Fernández, Daniel Glez-Peña, Fernando Díaz, Florentino Fdez-Riverola:
genEnsemble: A new model for the combination of classifiers and integration of biological knowledge applied to genomic data. Expert Syst. Appl. 40(1): 52-63 (2013) - [c2]Hugo López-Fernández, Miguel Reboiro-Jato, Sara C. Madeira, Rubén López-Cortés, J. D. Nunes-Miranda, Hugo Miguel Santos, Florentino Fdez-Riverola, Daniel Glez-Peña:
A Workflow for the Application of Biclustering to Mass Spectrometry Data. PACBB 2013: 145-153 - 2012
- [j3]Florentino Fdez-Riverola, Daniel Glez-Peña, Hugo López-Fernández, Miguel Reboiro-Jato, José Ramón Méndez:
A JAVA application framework for scientific software development. Softw. Pract. Exp. 42(8): 1015-1036 (2012) - [c1]Hugo López-Fernández, Daniel Glez-Peña, Miguel Reboiro-Jato, Gonzalo Gómez-López, David G. Pisano, Florentino Fdez-Riverola:
Applying AIBench Framework to Develop Rich User Interfaces in NGS Studies. PACBB 2012: 189-196 - 2011
- [j2]Hugo López-Fernández, Miguel Reboiro-Jato, Daniel Glez-Peña, José Ramón Méndez Reboredo, Hugo Miguel Santos, Ricardo Jorge Carreira, José Luis Capelo-Martínez, Florentino Fdez-Riverola:
Rapid development of proteomic applications with the AIBench framework. J. Integr. Bioinform. 8(3) (2011) - [j1]Hugo López-Fernández, Daniel Glez-Peña, Miguel Reboiro-Jato, Gonzalo Gómez-López, David G. Pisano, Florentino Fdez-Riverola:
PileLineGUI: a desktop environment for handling genome position files in next-generation sequencing studies. Nucleic Acids Res. 39(Web-Server-Issue): 562-566 (2011)
Coauthor Index
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