Publications

Correia et al. (2020) "Isolation, identification and biotechnological applications of a novel, robust, free-living Chlorococcum(Oophila) amblystomatis strain isolated from a local pond", Appl. Sci. https://doi.org/10.3390/app10093040 

Egger et al. (2020) "Uncovering the shell game with barcodes: diversity of meiofaunal Caecidae snails (Truncatelloidea, Caenogastropoda) from Central America", ZooKeys https://doi.org/10.3897/zookeys.968.52986 

Carlier et al. (2020) "Prokaryotic diversity in stream sediments affected by acid mine drainage" Extremophiles https://doi.org/10.1007/s00792-020-01196-8

Sousa et al. (2020) "The chloroplast land plant phylogeny: analyses employing better-fitting tree-and site-heterogeneous composition models" Frontiers in plant science https://doi.org/10.3389/fpls.2020.01062

Sousa et al. (2020) "The mitochondrial phylogeny of land plants shows support for Setaphyta under composition-heterogeneous substitution models" PeerJ https://doi.org/10.7717/peerj.8995   

Williams et al. (2020) "Phylogenomics provides robust support for a two-domains tree of life" Nature ecology & evolution https://doi.org/10.1038/s41559-019-1040-x 

Louro et al. (2019) "A haplotype-resolved draft genome of the European sardine (Sardina pilchardus)" GigaScience https://doi.org/10.1093/gigascience/giz059

Ettamimi et al. (2019) "A meta-taxonomic investigation of the prokaryotic diversity of water bodies impacted by acid mine drainage from the São Domingos mine in southern Portugal" Extremophiles https://doi.org/10.1007/s00792-019-01136-1 

Monteiro et al. (2019) “YEASTRACT+: a portal for cross-species comparative genomics of transcription regulation in yeasts”, Nucleic Acids Research https://doi.org/10.1093/nar/gkz859

Selby et al. (2019) "BrAPI—an application programming interface for plant breeding applications", Bioinformatics https://doi.org/10.1093/bioinformatics/btz190

Vázquez et al. (2019) "DBM 1.0: A Desktop Application for Efficient Retrieval and Processing of High-Quality Sequence Data and Application to the Identification of the Putative Coffea S-Locus", Interdisciplinary Sciences: Computational Life Sciences https://doi.org/10.1007/s12539-019-00320-3

Vázquez et al. (2019) "EvoPPI 1.0: a Web Platform for Within- and Between-Species Multiple Interactome Comparisons and Application to Nine PolyQ Proteins Determining Neurodegenerative Diseases", Interdisciplinary Sciences: Computational Life Sciences https://doi.org/10.1007/s12539-019-00317-y

Antunes et al. (2018) "Transcriptional profiling of Zygosaccharomyces bailii early response to acetic acid or copper stress mediated by ZbHaa1", Scientific Reports, 8: 14122 https://doi.org/10.1038/s41598-018-32266-9

Costa et al. (2018) "PHENO - the BrAPI endpoint provided by the Portuguese node of ELIXIR" https://brapi.biodata.pt

López-Fernández et al. (2018) "A Bioinformatics Protocol for Quickly Creating Large-Scale Phylogenetic Trees", 12th International Conference on Practical Applications of Computational Biology & Bioinformatics. Toledo, Spain https://doi.org/10.1007/978-3-319-98702-6_11

López-Fernández et al. (2018) "Bioinformatics Protocols for Quickly Obtaining Large-Scale Data Sets for Phylogenetic Inferences", https://doi.org/10.1007/s12539-018-0312-5

Ouma-Mugabe et al. (2018) "Characterising partnership for research and innovation in Sub-Saharan Africa: Lessons from the case of the Africa-EU ProIntensAfrica Initiative", South African Journal of International Affairs-SAJIA, 25:531-545 https://doi.org/10.1080/10220461.2018.1551152

Pommier et al. (2018) "Plant Phenotype Experiment Ontology (PPEO)" http://purl.org/ppeo

Ramos et al. (2018) "The draft genome sequence of cork oak", Sci Data 5:180069 https://doi.org/10.1038/sdata.2018.69 

Teixeira et al. (2018) “YEASTRACT, an upgraded database for the analysis of transcription regulatory networks in Saccharomyces cerevisiae", Nucleic Acids Research, 46: D348-D353 https://doi.org/10.1093/nar/gkx842 

Vázquez et al. (2018) "EvoPPI: a Web Application to Compare Protein-Protein Interactions (PPIs) From Different Databases and Species", 12th International Conference on Practical Applications of Computational Biology & Bioinformatics. Toledo, Spain https://doi.org/10.1007/978-3-319-98702-6_18

Vázquez et al. (2018) "Large Scale Analyses and Visualization of Adaptive Amino Acid Changes Projects", Interdisciplinary Sciences: Computational Life Sciences https://doi.org/10.1007/s12539-018-0282-7

Chaves et al. (2017) "miRPursuit - sRNA-workflow analysis using NGS Data to non-model plants", FEBS Letters https://doi.org/10.1002/1873-3468.12746

Michotey and Chaves (2017) "Woody Plant Ontology (WPO) Crop Ontology" http://www.cropontology.org/ontology/CO_357/Woody%20Plant%20Ontology

Monteiro et al. (2017) “The PathoYeastract database: an information system for the analysis of gene and genomic transcription regulation in pathogenic yeasts", Nucleic Acids Research, 45: D597-D603 https://doi.org/10.1093/nar/gkw817 

Vázquez et al. (2017) "Automated Collection and Sharing of Adaptive Amino Acid Changes Data", 11th International Conference on Practical Applications of Computational Biology & Bioinformatics. Porto, Portugal https://doi.org/10.1007/978-3-319-60816-7_3