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G. Pavlopoulos · SciRah

Researcher profile · Semantic Scholar

G. Pavlopoulos

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G. Pavlopoulos — researcher profile on SciRah

h-index: 31
Works: 101
Citations: 6,422

Most-cited papers

Uncovering Earth’s virome
D. Páez-Espino, E. Eloe-Fadrosh, G. Pavlopoulos, A. Thomas +5 more
2016Nature1,016 citations
Semantic Scholar
Using graph theory to analyze biological networks
G. Pavlopoulos, Maria Secrier, Charalampos N. Moschopoulos, Theodoros G. Soldatos +4 more
2011BioData Mining808 citations Open access
Semantic Scholar
Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection
R. Seshadri, S. Leahy, G. Attwood, Koon Hoong Teh +20 more
2018Nature Biotechnology559 citations Open access
Semantic Scholar
Protein Structure Determination using Metagenome sequence data
S. Ovchinnikov, Hahnbeom Park, N. Varghese, Po-Ssu Huang +5 more
2017Science480 citations Open access
Semantic Scholar
Metagenomics: Tools and Insights for Analyzing Next-Generation Sequencing Data Derived from Biodiversity Studies
A. Oulas, C. Pavloudi, P. Polymenakou, G. Pavlopoulos +4 more
2015Bioinformatics and Biology Insights354 citations Open access
Semantic Scholar
A Guide to Conquer the Biological Network Era Using Graph Theory
Mikaela Koutrouli, E. Karatzas, D. Páez-Espino, G. Pavlopoulos
2020Frontiers in Bioengineering and Biotechnology243 citations Open access
Semantic Scholar
A survey of visualization tools for biological network analysis
G. Pavlopoulos, Anna-Lynn Wegener, Reinhard Schneider
2008BioData Mining228 citations Open access
Semantic Scholar
Large-Scale Analyses of Human Microbiomes Reveal Thousands of Small, Novel Genes
Hila Sberro, Brayon J. Fremin, S. Zlitni, F. Edfors +5 more
2019Cell221 citations Open access
Semantic Scholar
Corrigendum to: Bipartite graphs in systems biology and medicine: a survey of methods and applications
G. Pavlopoulos, Costas Bouyioukos, Evripides Markou
2020GigaScience196 citations Open access
Semantic Scholar
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
D. Páez-Espino, I-Min A. Chen, K. Palaniappan, A. Ratner +28 more
2016Nucleic Acids Res.184 citations Open access
Semantic Scholar
HipMCL: a high-performance parallel implementation of the Markov clustering algorithm for large-scale networks
A. Azad, G. Pavlopoulos, C. Ouzounis, N. Kyrpides +1 more
2018Nucleic Acids Research142 citations Open access
Semantic Scholar
Nontargeted virus sequence discovery pipeline and virus clustering for metagenomic data
D. Páez-Espino, G. Pavlopoulos, Natalia N. Ivanova, N. Kyrpides
2017Nature Protocols127 citations Open access
Semantic Scholar
A reference guide for tree analysis and visualization
G. Pavlopoulos, Theodoros G. Soldatos, A. Barbosa-Silva, Reinhard Schneider
2010BioData Mining121 citations Open access
Semantic Scholar
Visualizing genome and systems biology: technologies, tools, implementation techniques and trends, past, present and future
G. Pavlopoulos, Dimitris Malliarakis, Nikolas Papanikolaou, Theodosis Theodosiou +2 more
2015GigaScience104 citations Open access
Semantic Scholar
Protein-protein interaction predictions using text mining methods.
Nikolas Papanikolaou, G. Pavlopoulos, T. Theodosiou, I. Iliopoulos
2015Methods94 citations
Semantic Scholar
Global BioID-based SARS-CoV-2 proteins proximal interactome unveils novel ties between viral polypeptides and host factors involved in multiple COVID19-associated mechanisms
E. Laurent, Yorgos Sofianatos, Anastassia Komarova, Jean-Pascal Gimeno +27 more
2020bioRxiv78 citations Open access
Semantic Scholar
Diversity, evolution, and classification of virophages uncovered through global metagenomics
D. Páez-Espino, Jinglie Zhou, S. Roux, Stephen Nayfach +9 more
2019Microbiome74 citations Open access
Semantic Scholar
Empirical Comparison of Visualization Tools for Larger-Scale Network Analysis
G. Pavlopoulos, D. Páez-Espino, N. Kyrpides, I. Iliopoulos
2017Adv. Bioinformatics67 citations Open access
Semantic Scholar
Medusa: A tool for exploring and clustering biological networks
G. Pavlopoulos, Sean D. Hooper, A. Sifrim, Reinhard Schneider +1 more
2011BMC Research Notes61 citations Open access
Semantic Scholar
Unraveling genomic variation from next generation sequencing data
G. Pavlopoulos, A. Oulas, Ernesto Iacucci, A. Sifrim +4 more
2013BioData Mining54 citations Open access
Semantic Scholar
Caipirini: using gene sets to rank literature
Theodoros G. Soldatos, S. O'Donoghue, Venkata P. Satagopam, A. Barbosa-Silva +4 more
2012BioData Mining51 citations Open access
Semantic Scholar
Prediction of miRNA targets.
A. Oulas, Nestoras Karathanasis, Annita Louloupi, G. Pavlopoulos +3 more
2015Methods in molecular biology47 citations
Semantic Scholar
Arena3D: visualizing time-driven phenotypic differences in biological systems
Maria Secrier, G. Pavlopoulos, J. Aerts, Reinhard Schneider
2012BMC Bioinformatics44 citations Open access
Semantic Scholar
Structure determination of the HgcAB complex using metagenome sequence data: insights into microbial mercury methylation
C. Cooper, Kai-Yuan Zheng, Katherine W. Rush, A. Johs +7 more
2020Communications Biology39 citations Open access
Semantic Scholar
Network analysis of genes and their association with diseases.
P. Kontou, A. Pavlopoulou, Niki L. Dimou, G. Pavlopoulos +1 more
2016Gene39 citations Open access
Semantic Scholar
FLAME: A Web Tool for Functional and Literature Enrichment Analysis of Multiple Gene Lists
Foteini Thanati, E. Karatzas, Fotis A. Baltoumas, Dimitrios J. Stravopodis +2 more
2021bioRxiv38 citations Open access
Semantic Scholar
DrugQuest - a text mining workflow for drug association discovery
Nikolas Papanikolaou, G. Pavlopoulos, T. Theodosiou, I. Vizirianakis +1 more
2016BMC Bioinformatics37 citations Open access
Semantic Scholar
ProteoSign: an end-user online differential proteomics statistical analysis platform
Georgios Efstathiou, A. Antonakis, G. Pavlopoulos, T. Theodosiou +7 more
2017Nucleic Acids Res.36 citations Open access
Semantic Scholar
Which clustering algorithm is better for predicting protein complexes?
Charalampos N. Moschopoulos, G. Pavlopoulos, Ernesto Iacucci, J. Aerts +3 more
2011BMC Research Notes35 citations Open access
Semantic Scholar
LAITOR - Literature Assistant for Identification of Terms co-Occurrences and Relationships
A. Barbosa-Silva, Theodoros G. Soldatos, Ivan L. F. Magalhães, G. Pavlopoulos +4 more
2010BMC Bioinformatics33 citations Open access
Semantic Scholar
NAP: The Network Analysis Profiler, a web tool for easier topological analysis and comparison of medium-scale biological networks
T. Theodosiou, Georgios Efstathiou, Nikolas Papanikolaou, N. Kyrpides +3 more
2017BMC Research Notes31 citations Open access
Semantic Scholar
Distributed Many-to-Many Protein Sequence Alignment using Sparse Matrices
Oguz Selvitopi, S. Ekanayake, Giulia Guidi, G. Pavlopoulos +2 more
2020International Conference for High Performance Computing, Networking, Storage and Analysis30 citations Open access
Semantic Scholar
BioTextQuest: a knowledge integration platform for literature mining and concept discovery
Nikolas Papanikolaou, G. Pavlopoulos, E. Pafilis, T. Theodosiou +6 more
201429 citations
Semantic Scholar
Annotate-it: a Swiss-knife approach to annotation, analysis and interpretation of single nucleotide variation in human disease
A. Sifrim, J. Van Houdt, L. Tranchevent, B. Nowakowska +6 more
2012Genome Medicine29 citations Open access
Semantic Scholar
Human gene correlation analysis (HGCA): A tool for the identification of transcriptionally co-expressed genes
I. Michalopoulos, G. Pavlopoulos, Apostolos Malatras, Alexandros Karelas +3 more
2012BMC Research Notes28 citations Open access
Semantic Scholar
GPCRs, G-proteins, effectors and their interactions: human-gpDB, a database employing visualization tools and data integration techniques
Venkata P. Satagopam, Margarita C. Theodoropoulou, Christos K. Stampolakis, G. Pavlopoulos +4 more
2010Database J. Biol. Databases Curation28 citations Open access
Semantic Scholar
GIBA: a clustering tool for detecting protein complexes
Charalampos N. Moschopoulos, G. Pavlopoulos, Reinhard Schneider, S. Likothanassis +1 more
2009BMC Bioinformatics28 citations Open access
Semantic Scholar
Biomolecule and Bioentity Interaction Databases in Systems Biology: A Comprehensive Review
Fotis A. Baltoumas, Sofia Zafeiropoulou, E. Karatzas, Mikaela Koutrouli +7 more
2021Biomolecules27 citations Open access
Semantic Scholar
jClust: a clustering and visualization toolbox
G. Pavlopoulos, Charalampos N. Moschopoulos, Sean D. Hooper, Reinhard Schneider +1 more
2009Bioinform.27 citations Open access
Semantic Scholar
Biological information extraction and co-occurrence analysis.
G. Pavlopoulos, V. Promponas, C. Ouzounis, I. Iliopoulos
2014Methods in molecular biology26 citations
Semantic Scholar
Distinct transcriptional profile of blood mononuclear cells in Behcet's disease: insights into the central role of neutrophil chemotaxis.
Kleio-Maria Verrou, N. Vlachogiannis, Giannis Ampatziadis-Michailidis, P. Moulos +4 more
2021Rheumatology25 citations
Semantic Scholar
Arena3Dweb: interactive 3D visualization of multilayered networks
E. Karatzas, Fotis A. Baltoumas, N. Panayiotou, Reinhard Schneider +1 more
2020bioRxiv25 citations Open access
Semantic Scholar
OnTheFly2.0: a text-mining web application for automated biomedical entity recognition, document annotation, network and functional enrichment analysis
Fotis A. Baltoumas, Sofia Zafeiropoulou, E. Karatzas, Savvas Paragkamian +7 more
2021bioRxiv22 citations Open access
Semantic Scholar
Exploring microbial functional biodiversity at the protein family level—From metagenomic sequence reads to annotated protein clusters
Fotis A. Baltoumas, E. Karatzas, D. Páez-Espino, N. K. Venetsianou +7 more
2023Frontiers in Bioinformatics20 citations Open access
Semantic Scholar
PREGO: A Literature and Data-Mining Resource to Associate Microorganisms, Biological Processes, and Environment Types
Haris Zafeiropoulos, Savvas Paragkamian, S. Ninidakis, G. Pavlopoulos +2 more
2022Microorganisms20 citations Open access
Semantic Scholar
Arena3Dweb: interactive 3D visualization of multilayered networks supporting multiple directional information channels, clustering analysis and application integration
Maria Kokoli, E. Karatzas, Fotis A. Baltoumas, Reinhard Schneider +5 more
2022bioRxiv20 citations Open access
Semantic Scholar
Flame (v2.0): advanced integration and interpretation of functional enrichment results from multiple sources
E. Karatzas, Fotis A. Baltoumas, Eleni Aplakidou, P. Kontou +4 more
2023bioRxiv18 citations Open access
Semantic Scholar
IL-6 Signaling Attenuates TNF-α Production by Plasmacytoid Dendritic Cells in Rheumatoid Arthritis
G. Papadaki, P. Goutakoli, Ioanna Tiniakou, Joachim R. Grün +9 more
2022Journal of Immunology18 citations Open access
Semantic Scholar
Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining
E. Karatzas, Fotis A. Baltoumas, Ioannis Kasionis, D. Sanoudou +4 more
2022Biomolecules18 citations Open access
Semantic Scholar
OnTheFly: a tool for automated document-based text annotation, data linking and network generation
G. Pavlopoulos, E. Pafilis, M. Kuhn, Sean D. Hooper +1 more
2009Bioinform.18 citations Open access
Semantic Scholar

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