Partitional Clustering of Protein Sequences - An Inductive Logic Programming Approach. - Nuno A. Fonseca; Vítor Santos Costa; Rui Camacho; Cristina P. Vieira; Jorge Vieira (IWANN (2), 2009)

ADOPS - Automatic Detection Of Positively Selected Sites. - David Reboiro-Jato; Miguel Reboiro-Jato; Florentino Fdez-Riverola; Cristina P. Vieira; Nuno A. Fonseca; Jorge Vieira (J. Integr. Bioinform., 2012)

Automated Collection and Sharing of Adaptive Amino Acid Changes Data. - 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 (PACBB, 2017)

A Bioinformatics Protocol for Quickly Creating Large-Scale Phylogenetic Trees. - Hugo López-Fernández; Pedro Duque; Sílvia Henriques; Noé Vázquez; Florentino Fdez-Riverola; Cristina P. Vieira; Miguel Reboiro-Jato; Jorge Vieira (PACBB, 2018)

EvoPPI: A Web Application to Compare Protein-Protein Interactions (PPIs) from Different Databases and Species. - Noé Vázquez; Sara Rocha; Hugo López-Fernández; André Torres; Rui Camacho; Florentino Fdez-Riverola; Jorge Vieira; Cristina P. Vieira; Miguel Reboiro-Jato (PACBB, 2018)

Inferring Positive Selection in Large Viral Datasets. - Hugo López-Fernández; Pedro Duque; Noé Vázquez; Florentino Fdez-Riverola; Miguel Reboiro-Jato; Cristina P. Vieira; Jorge Vieira (PACBB, 2019)

Inferences on Mycobacterium Leprae Host Immune Response Escape and Antibiotic Resistance Using Genomic Data and GenomeFastScreen. - Hugo López-Fernández; Cristina P. Vieira; Florentino Fdez-Riverola; Miguel Reboiro-Jato; Jorge Vieira (PACBB, 2020)

The pegi3s Bioinformatics Docker Images Project. - Hugo López-Fernández; Pedro Ferreira 002; Miguel Reboiro-Jato; Cristina P. Vieira; Jorge Vieira (PACBB, 2021)

EvoPPI 2: A Web and Local Platform for the Comparison of Protein-Protein Interaction Data from Multiple Sources from the Same and Distinct Species. - Miguel Reboiro-Jato; Jorge Vieira; Sara Rocha; André D. Sousa; Hugo López-Fernández; Cristina P. Vieira (PACBB, 2022)

SEDA: A Desktop Tool Suite for FASTA Files Processing. - Hugo López-Fernández; Pedro Duque; Noé Vázquez; Florentino Fdez-Riverola; Miguel Reboiro-Jato; Cristina P. Vieira; Jorge Vieira (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Auto-phylo: A Pipeline Maker for Phylogenetic Studies. - Hugo López-Fernández; Miguel Pinto; Cristina P. Vieira; Pedro Duque; Miguel Reboiro-Jato; Jorge Vieira (PACBB, 2023)

On the identification of potential novel therapeutic targets for spinocerebellar ataxia type 1 (SCA1) neurodegenerative disease using EvoPPI3. - André D. Sousa; Sara Rocha; Jorge Vieira; Miguel Reboiro-Jato; Hugo López-Fernández; Cristina P. Vieira (J. Integr. Bioinform., 2023)

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. - Daniel Glez-Peña; Hugo López-Fernández; Pedro Duque; Cristina P. Vieira; Jorge Vieira (J. Integr. Bioinform., 2024)

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. - Hugo López-Fernández; Miguel Pinto; Cristina P. Vieira; Pedro Duque; Miguel Reboiro-Jato; Jorge Vieira (J. Integr. Bioinform., 2024)

SEDA 2024 update: enhancing the SEquence DAtaset builder for seamless integration into automated data analysis pipelines. - Miguel Reboiro-Jato; Daniel Pérez-Rodríguez; Miguel José Da Silva; David Vila-Fernández; Cristina P. Vieira; Jorge Vieira; Hugo López-Fernández (BMC Bioinform., 2024)