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1

Erratum: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life

Mukherjee, Supratim, Seshadri, Rekha, Varghese, Neha J, Eloe-Fadrosh, Emiley A, Meier-Kolthoff, Jan P, Göker, Markus, Coates, R Cameron, Hadjithomas, Michalis, Pavlopoulos, Georgios A, Paez-Espino, Da

Journal:

Nature Biotechnology

Year:

2018

Language:

english

File:

PDF, 71 KB

english, 2018

2

Metagenomics: Tools and Insights for Analyzing Next-Generation Sequencing Data Derived from Biodiversity Studies

Pavlopoulos,, Oulas, Anastasis, Pavloudi, Christina, Polymenakou, Paraskevi, Papanikolaou, Nikolas, Kotoulas, Georgios, Arvanitidis, Christos, Iliopoulos, Ioannis

Journal:

Bioinformatics and Biology Insights

Year:

2015

Language:

english

File:

PDF, 594 KB

english, 2015

3

Uncovering Earth’s virome

Paez-Espino, David, Eloe-Fadrosh, Emiley A., Pavlopoulos, Georgios A., Thomas, Alex D., Huntemann, Marcel, Mikhailova, Natalia, Rubin, Edward, Ivanova, Natalia N., Kyrpides, Nikos C.

Journal:

Year:

2016

Language:

english

File:

PDF, 12.67 MB

english, 2016

4

Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection

Seshadri, Rekha, Leahy, Sinead C, Attwood, Graeme T, Teh, Koon Hoong, Lambie, Suzanne C, Cookson, Adrian L, Eloe-Fadrosh, Emiley A, Pavlopoulos, Georgios A, Hadjithomas, Michalis, Varghese, Neha J, Pa

Journal:

Nature Biotechnology

Year:

2018

Language:

english

File:

PDF, 1.93 MB

english, 2018

5

Alcohol use and abuse in training conscripts of the Hellenic navy

Georgios Moussas, Leonidas Tzemos, Vassilis Pavlopoulos, Konstantinos Papadimitriou, Vassilis Menoutis, Lefteris Lykouras

Journal:

Annals of General Psychiatry

Year:

2006

Language:

english

File:

PDF, 205 KB

english, 2006

6

Visualizing genome and systems biology: technologies, tools, implementation techniques and trends, past, present and future

Pavlopoulos, Georgios A., Malliarakis, Dimitris, Papanikolaou, Nikolas, Theodosiou, Theodosis, Enright, Anton J., Iliopoulos, Ioannis

Journal:

Year:

2015

Language:

english

File:

PDF, 3.57 MB

english, 2015

7

Protein structure determination using metagenome sequence data

Ovchinnikov, Sergey, Park, Hahnbeom, Varghese, Neha, Huang, Po-Ssu, Pavlopoulos, Georgios A., Kim, David E., Kamisetty, Hetunandan, Kyrpides, Nikos C., Baker, David

Journal:

Year:

2017

Language:

english

File:

PDF, 2.20 MB

english, 2017

8

1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life

Mukherjee, Supratim, Seshadri, Rekha, Varghese, Neha J, Eloe-Fadrosh, Emiley A, Meier-Kolthoff, Jan P, Göker, Markus, Coates, R Cameron, Hadjithomas, Michalis, Pavlopoulos, Georgios A, Paez-Espino, Da

Journal:

Nature Biotechnology

Year:

2017

Language:

english

File:

PDF, 4.89 MB

english, 2017

9

Diversity, evolution, and classification of virophages uncovered through global metagenomics

Paez-Espino, David, Zhou, Jinglie, Roux, Simon, Nayfach, Stephen, Pavlopoulos, Georgios A., Schulz, Frederik, McMahon, Katherine D., Walsh, David, Woyke, Tanja, Ivanova, Natalia N., Eloe-Fadrosh, Emil

Journal:

Year:

2019

Language:

english

File:

PDF, 2.29 MB

english, 2019

10

Diversity, evolution, and classification of virophages uncovered through global metagenomics

Paez-Espino, David, Zhou, Jinglie, Roux, Simon, Nayfach, Stephen, Pavlopoulos, Georgios A., Schulz, Frederik, McMahon, Katherine D., Walsh, David, Woyke, Tanja, Ivanova, Natalia N., Eloe-Fadrosh, Emil

Journal:

Year:

2019

File:

PDF, 2.29 MB

2019

11

In the midst of the perfect storm: Swift public health actions needed in order to increase societal safety during the COVID-19 pandemic

Emmanouil, Pikoulis, Karl, Puchner, Eleni, Riza, Eleni, Kakalou, Elias, Pavlopoulos, Constantinos, Tsiamis, Vassileios, Tokakis, Georgios, Boustras, Agis, Terzidis, Vasiliki, Karamagioli

Journal:

Year:

2020

File:

PDF, 238 KB

2020

12

A survey of visualization tools for biological network analysis

Georgios A Pavlopoulos, Anna-Lynn Wegener, Reinhard Schneider

Journal:

Year:

2008

Language:

english

File:

PDF, 836 KB

english, 2008

13

A reference guide for tree analysis and visualization

Georgios A Pavlopoulos, Theodoros G Soldatos, Adriano Barbosa-Silva, Reinhard Schneider

Journal:

Year:

2010

Language:

english

File:

PDF, 720 KB

english, 2010

14

Using graph theory to analyze biological networks

Georgios A Pavlopoulos, Maria Secrier, Charalampos N Moschopoulos, Theodoros G Soldatos, Sophia Kossida, Jan Aerts, Reinhard Schneider, Pantelis G Bagos

Journal:

Year:

2011

Language:

english

File:

PDF, 2.22 MB

english, 2011

15

GIBA: a clustering tool for detecting protein complexes

Charalampos N Moschopoulos, Georgios A Pavlopoulos, Reinhard Schneider, Spiridon D Likothanassis, Sophia Kossida

Journal:

BMC Bioinformatics

Year:

2009

Language:

english

File:

PDF, 1.11 MB

english, 2009

16

LAITOR - Literature Assistant for Identification of Terms co-Occurrences and Relationships

Adriano Barbosa-Silva, Theodoros G Soldatos, Ivan LF Magalhães, Georgios A Pavlopoulos, Jean-Fred Fontaine, Miguel A Andrade-Navarro, Reinhard Schneider, J Miguel Ortega

Journal:

BMC Bioinformatics

Year:

2010

Language:

english

File:

PDF, 381 KB

english, 2010

17

Arena3D: visualization of biological networks in 3D

Georgios A Pavlopoulos, Seán I O'Donoghue, Venkata P Satagopam, Theodoros G Soldatos, Evangelos Pafilis, Reinhard Schneider

Journal:

BMC Systems Biology

Year:

2008

Language:

english

File:

PDF, 1.18 MB

english, 2008

18

Medusa: A tool for exploring and clustering biological networks

Georgios A Pavlopoulos, Sean D Hooper, Alejandro Sifrim, Reinhard Schneider, Jan Aerts

Journal:

BMC Research Notes

Year:

2011

Language:

english

File:

PDF, 312 KB

english, 2011

19

Arena3D: visualizing time-driven phenotypic differences in biological systems

Maria Secrier, Georgios A Pavlopoulos, Jan Aerts, Reinhard Schneider

Journal:

BMC Bioinformatics

Year:

2012

Language:

english

File:

PDF, 722 KB

english, 2012

20

Caipirini: using gene sets to rank literature

Theodoros G Soldatos, Seán I O’Donoghue, Venkata P Satagopam, Adriano Barbosa-Silva, Georgios A Pavlopoulos, Ana Carolina Wanderley-Nogueira, Nina Mota Soares-Cavalcanti, Reinhard Schneider

Journal:

Year:

2012

Language:

english

File:

PDF, 367 KB

english, 2012

21

Which clustering algorithm is better for predicting protein complexes?

Charalampos N Moschopoulos, Georgios A Pavlopoulos, Ernesto Iacucci, Jan Aerts, Spiridon Likothanassis, Reinhard Schneider, Sophia Kossida

Journal:

BMC Research Notes

Year:

2011

Language:

english

File:

PDF, 259 KB

english, 2011

22

Human gene correlation analysis (HGCA): A tool for the identification of transcriptionally co-expressed genes

Ioannis Michalopoulos, Georgios A Pavlopoulos, Apostolos Malatras, Alexandros Karelas, Myrto-Areti Kostadima, Reinhard Schneider, Sophia Kossida

Journal:

BMC Research Notes

Year:

2012

Language:

english

File:

PDF, 483 KB

english, 2012

23

Unraveling genomic variation from next generation sequencing data

Georgios A Pavlopoulos, Anastasis Oulas, Ernesto Iacucci…

Journal:

Year:

2013

Language:

english

File:

PDF, 809 KB

english, 2013

24

Calculation of Intraocular Lens Power After Radial Keratotomy With Computerized Videokeratography

CELIKKOL, LEYLA, PAVLOPOULOS, GEORGIOS, WEINSTEIN, BARRY, CELIKKOL, GURKAN, FELDMAN, SANDY T.

Journal:

American Journal of Ophthalmology

Year:

1995

Language:

english

File:

PDF, 3.79 MB

english, 1995

25

[IEEE 2008 8th IEEE International Conference on Bioinformatics and BioEngineering (BIBE) - Athens, Greece (2008.10.8-2008.10.10)] 2008 8th IEEE International Conference on BioInformatics and BioEngineering - An enhanced Markov clustering method for detecting protein complexes

Moschopoulos, Charalampos N., Pavlopoulos, Georgios A., Likothanassis, Spiridon D., Kossida, Sofia

Year:

2008

Language:

english

File:

PDF, 103 KB

english, 2008

26

[IEEE 2013 IEEE 13th International Conference on Bioinformatics and Bioengineering (BIBE) - Chania, Greece (2013.11.10-2013.11.13)] 13th IEEE International Conference on BioInformatics and BioEngineering - OnTheFly 2.0: A tool for automatic annotation of files and biological information extraction

Pafilis, Evangelos, Pavlopoulos, Georgios A., Satagopam, Venkata P., Papanikolaou, Nikolas, Horn, Heiko, Arvanitidis, Christos, Jensen, Lars Juhl, Schneider, Reinhard, Iliopoulos, Ioannis

Year:

2013

Language:

english

File:

PDF, 665 KB

english, 2013

27

Protein–protein interaction predictions using text mining methods

Papanikolaou, Nikolas, Pavlopoulos, Georgios A., Theodosiou, Theodosios, Iliopoulos, Ioannis

Journal:

Year:

2015

Language:

english

File:

PDF, 622 KB

english, 2015

28

[IEEE 2012 IEEE 12th International Conference on Bioinformatics & Bioengineering (BIBE) - Larnaca, Cyprus (2012.11.11-2012.11.13)] 2012 IEEE 12th International Conference on Bioinformatics & Bioengineering (BIBE) - Visualizing high dimensional datasets using parallel coordinates: Application to gene prioritization

Boogaerts, Thomas, Tranchevent, Leon-Charles, Pavlopoulos, Georgios A., Aerts, Jan, Vandewalle, Joos

Year:

2012

Language:

english

File:

PDF, 1.11 MB

english, 2012

29

The Effect of Artificial Tears on Computer-assisted Corneal Topography in Normal Eyes and After Penetrating Keratoplasty

PAVLOPOULOS, GEORGIOS P., HORN, JEFFREY, FELDMAN, SANDY T.

Journal:

American Journal of Ophthalmology

Year:

1995

Language:

english

File:

PDF, 5.69 MB

english, 1995

30

Analyzing Protein-Protein Interaction Networks with Web Tools

N. Moschopoulos, Charalampos, A. Pavlopoulos, Georgios, Likothanassis, Spiridon, Kossida, Sophia

Journal:

Current Bioinformatics

Year:

2011

Language:

english

File:

PDF, 793 KB

english, 2011

31

Network analysis of genes and their association with diseases

Kontou, Panagiota I., Pavlopoulou, Athanasia, Dimou, Niki L., Pavlopoulos, Georgios A., Bagos, Pantelis G.

Journal:

Year:

2016

Language:

english

File:

PDF, 3.25 MB

english, 2016

32

Rubeola Keratitis

Pavlopoulos, Georgios P, Giannakos, Georgios I, Theodosiadis, Panagiotis G, Moschos, Marilita M, Iliakis, Evangelos K, Theodosiadis, Georgios P

Journal:

Year:

2008

Language:

english

File:

PDF, 2.75 MB

english, 2008

33

The Effect of Tears on Corneal Topography in Normal Eyes and After Penetrating Keratoplasty

Pavlopoulos, Georgios, Feldman, Sandy T.

Journal:

Year:

1993

File:

PDF, 103 KB

1993

34

Data and programs in support of network analysis of genes and their association with diseases

Kontou, Panagiota I., Pavlopoulou, Athanasia, Dimou, Niki L., Pavlopoulos, Georgios A., Bagos, Pantelis G.

Journal:

Year:

2016

Language:

english

File:

PDF, 230 KB

english, 2016

35

DrugQuest - a text mining workflow for drug association discovery

Papanikolaou, Nikolas, Pavlopoulos, Georgios A., Theodosiou, Theodosios, Vizirianakis, Ioannis S., Iliopoulos, Ioannis

Journal:

BMC Bioinformatics

Year:

2016

Language:

english

File:

PDF, 3.02 MB

english, 2016

36

ProteoSign: an end-user online differential proteomics statistical analysis platform

Efstathiou, Georgios, Antonakis, Andreas N., Pavlopoulos, Georgios A., Theodosiou, Theodosios, Divanach, Peter, Trudgian, David C., Thomas, Benjamin, Papanikolaou, Nikolas, Aivaliotis, Michalis, Acuto

Journal:

Nucleic Acids Research

Year:

2017

Language:

english

File:

PDF, 923 KB

english, 2017

37

Nontargeted virus sequence discovery pipeline and virus clustering for metagenomic data

Paez-Espino, David, Pavlopoulos, Georgios A, Ivanova, Natalia N, Kyrpides, Nikos C

Journal:

Nature Protocols

Year:

2017

Language:

english

File:

PDF, 2.17 MB

english, 2017

38

HipMCL: a high-performance parallel implementation of the Markov clustering algorithm for large-scale networks

Azad, Ariful, Pavlopoulos, Georgios A, Ouzounis, Christos A, Kyrpides, Nikos C, Buluç, Aydin

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 381 KB

english, 2018

39

Bipartite Graphs in Systems Biology and Medicine: a survey of methods and applications

Pavlopoulos, Georgios A, Kontou, Panagiota I, Pavlopoulou, Athanasia, Bouyioukos, Costas, Markou, Evripides, Bagos, Pantelis G

Journal:

Year:

2018

Language:

english

File:

PDF, 3.50 MB

english, 2018

40

NAP: The Network Analysis Profiler, a web tool for easier topological analysis and comparison of medium-scale biological networks

Theodosiou, Theodosios, Efstathiou, Georgios, Papanikolaou, Nikolas, Kyrpides, Nikos C., Bagos, Pantelis G., Iliopoulos, Ioannis, Pavlopoulos, Georgios A.

Journal:

BMC Research Notes

Year:

2017

Language:

english

File:

PDF, 3.12 MB

english, 2017

41

Empirical Comparison of Visualization Tools for Larger-Scale Network Analysis

Pavlopoulos, Georgios A., Paez-Espino, David, Kyrpides, Nikos C., Iliopoulos, Ioannis

Journal:

Advances in Bioinformatics

Year:

2017

Language:

english

File:

PDF, 2.31 MB

english, 2017

42

Large-Scale Analyses of Human Microbiomes Reveal Thousands of Small, Novel Genes

Sberro, Hila, Fremin, Brayon J., Zlitni, Soumaya, Edfors, Fredrik, Greenfield, Nicholas, Snyder, Michael P., Pavlopoulos, Georgios A., Kyrpides, Nikos C., Bhatt, Ami S.

Journal:

Year:

2019

Language:

english

File:

PDF, 4.80 MB

english, 2019

43

A Guide to Conquer the Biological Network Era Using Graph Theory

Koutrouli, Mikaela, Karatzas, Evangelos, Paez-Espino, David, Pavlopoulos, Georgios A.

Journal:

Frontiers in Bioengineering and Biotechnology

Year:

2020

File:

PDF, 5.31 MB

2020

44

Structure determination of the HgcAB complex using metagenome sequence data: insights into microbial mercury methylation

Cooper, Connor J., Zheng, Kaiyuan, Rush, Katherine W., Johs, Alexander, Sanders, Brian C., Pavlopoulos, Georgios A., Kyrpides, Nikos C., Podar, Mircea, Ovchinnikov, Sergey, Ragsdale, Stephen W., Parks

Journal:

Communications Biology

Year:

2020

File:

PDF, 2.39 MB

2020

45

Prediction of Soil Loss in a Reservoir Watershed Using an Erosion Model and Modern Technological Tools: A Case Study of Marathon Lake, Attica in Greece

Xanthakis, Michail, Pavlopoulos, Kosmas, Kapsimalis, Vasilios, Apostolopoulos, Georgios, Xanthopoulos, Gavriil, Stefanidis, Panagiotis, Evelpidou, Niki

Journal:

Environmental Sciences Proceedings

Year:

2020

File:

PDF, 825 KB

2020