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Author Details

Evangelos Pafilis
Institute of Marine Biology
2007
34
14
PMIDPaper TitleJournal TitlePublished Year
36959975Exploring microbial functional biodiversity at the protein family level-From metagenomic sequence reads to annotated protein clusters.Front Bioinform2023
37289518S1000: a better taxonomic name corpus for biomedical information extraction.Bioinformatics2023
36959975Exploring microbial functional biodiversity at the protein family level-From metagenomic sequence reads to annotated protein clusters.Front Bioinform2023
37260509Arena3D<sup>web</sup>: interactive 3D visualization of multilayered networks supporting multiple directional information channels, clustering analysis and application integration.NAR Genom Bioinform2023
37289518S1000: a better taxonomic name corpus for biomedical information extraction.Bioinformatics2023
37260509Arena3D<sup>web</sup>: interactive 3D visualization of multilayered networks supporting multiple directional information channels, clustering analysis and application integration.NAR Genom Bioinform2023
35208748PREGO: A Literature and Data-Mining Resource to Associate Microorganisms, Biological Processes, and Environment Types.Microorganisms2022
37850871metaGOflow: a workflow for the analysis of marine Genomic Observatories shotgun metagenomics data.Gigascience2022
35208748PREGO: A Literature and Data-Mining Resource to Associate Microorganisms, Biological Processes, and Environment Types.Microorganisms2022
37850871metaGOflow: a workflow for the analysis of marine Genomic Observatories shotgun metagenomics data.Gigascience2022
33947809Correction for Vangay et al., "Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities".mSystems2021
33622857Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities.mSystems2021
33947809Correction for Vangay et al., "Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities".mSystems2021
34632381OnTheFly<sup>2.0</sup>: a text-mining web application for automated biomedical entity recognition, document annotation, network and functional enrichment analysis.NAR Genom Bioinform2021
344052370s and 1s in marine molecular research: a regional HPC perspective.Gigascience2021
33622857Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities.mSystems2021
344052370s and 1s in marine molecular research: a regional HPC perspective.Gigascience2021
34632381OnTheFly<sup>2.0</sup>: a text-mining web application for automated biomedical entity recognition, document annotation, network and functional enrichment analysis.NAR Genom Bioinform2021
32161947PEMA: a flexible Pipeline for Environmental DNA Metabarcoding Analysis of the 16S/18S ribosomal RNA, ITS, and COI marker genes.Gigascience2020
32161947PEMA: a flexible Pipeline for Environmental DNA Metabarcoding Analysis of the 16S/18S ribosomal RNA, ITS, and COI marker genes.Gigascience2020
33347569Corrigendum to: PEMA: a flexible pipeline for environmental DNA metabarcoding analysis of the 16S/18S ribosomal RNA, ITS, and COI marker genes.Gigascience2020
33347569Corrigendum to: PEMA: a flexible pipeline for environmental DNA metabarcoding analysis of the 16S/18S ribosomal RNA, ITS, and COI marker genes.Gigascience2020
31856214Establishment of computational biology in Greece and Cyprus: Past, present, and future.PLoS Comput Biol2019
31856214Establishment of computational biology in Greece and Cyprus: Past, present, and future.PLoS Comput Biol2019
26896844EXTRACT: interactive extraction of environment metadata and term suggestion for metagenomic sample annotation.Database (Oxford)2016
26861660Value, but high costs in post-deposition data curation.Database (Oxford)2016
26896844EXTRACT: interactive extraction of environment metadata and term suggestion for metagenomic sample annotation.Database (Oxford)2016
27932907Optimized R functions for analysis of ecological community data using the R virtual laboratory (RvLab).Biodivers Data J2016
27932906Environmental variability and heavy metal concentrations from five lagoons in the Ionian Sea (Amvrakikos Gulf, W Greece).Biodivers Data J2016
27589961Overview of the interactive task in BioCreative V.Database (Oxford)2016
28028456Seqenv: linking sequences to environments through text mining.PeerJ2016
27664130The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation.J Biomed Semantics2016
27932907Optimized R functions for analysis of ecological community data using the R virtual laboratory (RvLab).Biodivers Data J2016
27932906Environmental variability and heavy metal concentrations from five lagoons in the Ionian Sea (Amvrakikos Gulf, W Greece).Biodivers Data J2016
27589961Overview of the interactive task in BioCreative V.Database (Oxford)2016
27664130The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation.J Biomed Semantics2016
28028456Seqenv: linking sequences to environments through text mining.PeerJ2016
26861660Value, but high costs in post-deposition data curation.Database (Oxford)2016
25619994ENVIRONMENTS and EOL: identification of Environment Ontology terms in text and the annotation of the Encyclopedia of Life.Bioinformatics2015
25673338BioTextQuest+: a knowledge integration platform for literature mining and concept discovery.Bioinformatics2015
25619994ENVIRONMENTS and EOL: identification of Environment Ontology terms in text and the annotation of the Encyclopedia of Life.Bioinformatics2015
25673338BioTextQuest+: a knowledge integration platform for literature mining and concept discovery.Bioinformatics2015
24606731The founding charter of the Genomic Observatories Network.Gigascience2014
24855436Polytraits: A database on biological traits of marine polychaetes.Biodivers Data J2014
25100685BioTextQuest(+): a knowledge integration platform for literature mining and concept discovery.Bioinformatics2014
24606731The founding charter of the Genomic Observatories Network.Gigascience2014
25100685BioTextQuest(+): a knowledge integration platform for literature mining and concept discovery.Bioinformatics2014
24855436Polytraits: A database on biological traits of marine polychaetes.Biodivers Data J2014
23587026A decadal view of biodiversity informatics: challenges and priorities.BMC Ecol2013
23823062The SPECIES and ORGANISMS Resources for Fast and Accurate Identification of Taxonomic Names in Text.PLoS One2013
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Collaborators

Novo Nordisk Foundation Center for Protein Research, University of Copenhagen
Co-authored papers 10
Co-authored papers 8
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 3
International Society for Biocuration, Lawrence Berkeley National Laboratory, University of Edinburgh, University of Edinburgh School of Biological Sciences
Co-authored papers 3
Alfred Wegener Institute
Co-authored papers 3
Co-authored papers 3
University of Maryland School of Medicine, Institute for Genome Sciences
Co-authored papers 2
University of Pennsylvania Perelman School of Medicine
Co-authored papers 2
Oregon State University
Co-authored papers 2
Los Alamos National Laboratory
Co-authored papers 2
National Museum of Natural History, Smithsonian Institution
Co-authored papers 2
Lawrence Berkeley National Laboratory
Co-authored papers 2
Institute for Systems Biology
Co-authored papers 2
University of California San Diego
Co-authored papers 2
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 2
Northern Gulf Institute, Mississippi State University
Co-authored papers 2
NIOZ Royal Netherlands Institute for Sea Research
Co-authored papers 2
European Bioinformatics Institute
Co-authored papers 2
Co-authored papers 2
University of Minnesota
Co-authored papers 2
The University of Arizona
Co-authored papers 2
Biodiversity Institute, University of Oxford
Co-authored papers 2
Pacific Northwest National Laboratory
Co-authored papers 2
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 2
University of Minnesota
Co-authored papers 2
Scripps Institution of Oceanography, University of California San Diego
Co-authored papers 2
Co-authored papers 2
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 2
Lawrence Berkeley National Laboratory
Co-authored papers 2
Oak Ridge National Laboratory
Co-authored papers 2