Publications

A preliminary assessment of the article deduplication algorithm used for the OpenAIRE Research Graph. Kleanthis Vichos, Michele De Bonis, Ilias Kanellos, Serafeim Chatzopoulos, Claudio Atzori, Natalia Manola, Paolo Manghi, Thanasis Vergoulis. IRCDL 2022, 2022 

BIP! Scholar: A Service to Facilitate Fair Researcher Assessment. Thanasis Vergoulis, Serafeim Chatzopoulos, Kleanthis Vichos, Ilias Kanellos, Andrea Mannocci, Natalia Manola, Paolo Manghi. JCDL 2022, 2022 

A Cloud-Native NGS Data Processing and Annotation Platform. Giannis Mouchakis, Babis Kostopoulos, Stasinos Konstantopoulos, Ilias Kanellos, Anargiros Tzerefos, Thanasis Vergoulis, Thodoris Dalamagas. Poly/DMAH@VLDB 2021: 121-132, 2021

Simplifying Impact Prediction for Scientific Articles. Thanasis Vergoulis, Ilias Kanellos, Giorgos Giannopoulos, Theodore Dalamagas. EDBT/ICDT Workshops 2021, 2021 

Simplifying p-value calculation for the unbiased microRNAenrichment analysis, using ML-techniques. Konstantinos Zagganas, Maria Lioli, Thanasis Vergoulis, Theodore Dalamagas. EDBT/ICDT Workshops 2021, 2021 

Ranking Papers by their Short-Term Scientific Impact. Ilias Kanellos, Thanasis Vergoulis, Dimitris Sacharidis, Theodore Dalamagas, Yannis Vassiliou. ICDE 2021: 1997-2002, 2021

VeTo-web: A Recommendation Tool for the Expansion of Sets of Scholars. Serafeim Chatzopoulos, Thanasis Vergoulis, Theodore Dalamagas, Christos Tryfonopoulos. JCDL 2021: 334-335, 2021

SCHeMa: Scheduling Scientific Containers on a Cluster of Heterogeneous Machines. Thanasis Vergoulis, Konstantinos Zagganas, Loukas Kavouras, Martin Reczko, Stelios Sartzetakis, Theodore Dalamagas. SSDBM 2021: 243-247, 2021 

Visualising Scientific Topic Evolution. Panagiotis Deligiannis, Thanasis Vergoulis, Serafeim Chatzopoulos, Christos Tryfonopoulos. WWW (Companion Volume) 2021: 468-472, 2021

BIP! DB: A Dataset of Impact Measures for Scientific Publications. Thanasis Vergoulis, Ilias Kanellos, Claudio Atzori, Andrea Mannocci, Serafeim Chatzopoulos, Sandro La Bruzzo, Natalia Manola, Paolo Manghi. WWW (Companion Volume) 2021: 456-460, 2021 

SciNeM: A Scalable Data Science Tool for Heterogeneous Network Mining. Serafeim Chatzopoulos, Thanasis Vergoulis, Panagiotis Deligiannis, Dimitrios Skoutas, Theodore Dalamagas, Christos Tryfonopoulos. EDBT, 2021 

Databases and Information Systems in the AI Era: Contributions from ADBIS, TPDL and EDA 2020 Workshops and Doctoral Consortium. Ladjel Bellatreche, Fadila Bentayeb, Mária Bieliková, Omar Boussaid, Barbara Catania, Paolo Ceravolo, Elena Demidova, Mírian Halfeld Ferrari, María Teresa Gómez López, Carmem S. Hara, Slavica Kordic, Ivan Lukovic, Andrea Mannocci, Paolo Manghi, Franc. ADBIS/TPDL/EDA Workshops 2020: 3-20, 2020 

ArtSim: Improved estimation of current impact for recent articles. Serafeim Chatzopoulos, Thanasis Vergoulis, Ilias Kanellos, Theodore Dalamagas, Christos Tryfonopoulos. AIMinScience 2020, 2020 

VeTo: Expert Set Expansion in Academia. Thanasis Vergoulis, Serafeim Chatzopoulos, Theodore Dalamagas, Christos Tryfonopoulos. TPDL 2020, 2020 

Efficient Calculation of Empirical P-values for AssociationTesting of Binary Classifications. Kostis Zagganas, Thanasis Vergoulis, Spiros Skiadopoulos, Theodore Dalamagas. SSDBM 2020, 2020 

BIP! Finder: Facilitating scientific literature search by exploiting impact-based ranking. Thanasis Vergoulis, Serafeim Chatzopoulos, Ilias Kanellos, Panagiotis Deligiannis, Christos Tryfonopoulos, Theodore Dalamagas. CIKM 2019, 2019 

A study on the readability of scientific publications. Thanasis Vergoulis, Ilias Kanellos, Anargiros Tzerefos, Serafeim Chatzopoulos, Theodore Dalamagas, Spiros Skiadopoulos. TPDL 2019, 2019 

SciTo trends: visualising scientific topic trends. Serafeim Chatzopoulos, Panagiotis Deligiannis, Thanasis Vergoulis, Ilias Kanellos, Christos Tryfonopoulos, Theodore Dalamagas. TPDL 2019, 2019 

MirPub v2: Towards Ranking and Refining miRNA Publication Search Results. Ilias Kanellos, Vasiliki Vlachokyriakou, Thanasis Vergoulis, Georgios Georgakilas, Yannis Vassiliou, Artemis K. Hatzigeorgiou, Theodore Dalamagas. TPDL 15, 2015 

TarMiner: automatic extraction of miRNA targets from literature. Rodothea-Myrsini Tsoupidi, Ilias Kanellos, Thanasis Vergoulis, Ioannis S Vlachos, Artemis G Hatzigeorgiou, Theodore Dalamagas. SSDBM 2015, article No 12, 2015 

Publishing Diachronic Life Science Linked Data. Katerina Gkirtzou, Thanasis Vergoulis, Artemis Hatzigeorgiou, Timos Sellis, Theodore Dalamagas. SWAT4LS 2014, 2014 

MR-microT: A MapReduce-based MicroRNA Target Prediction Method. Ilias Kanellos, Thanasis Vergoulis, Dimitris Sacharidis, Theodore Dalamagas, Artemis Hatzigeorgiou, Stelios Sartzetakis, Timos Sellis. SSDBM ’14, Article No. 47, 2014 

TARCLOUD: A Cloud-Based Platform to Support miRNA Target Prediction. Thanasis Vergoulis, Michail Alexakis, Theodore Dalamagas, Manolis Maragkakis, Artemis G. Hatzigeorgiou, Timos Sellis. SSDBM 2012: 628-633, 2012

VeTo+: improved expert set expansion in academia. Serafeim Chatzopoulos, Thanasis Vergoulis, Theodore Dalamagas, Christos Tryfonopoulos. Int. J. Digit. Libr. 23(1): 57-75, 2022

Further improvements on estimating the popularity of recently published papers. Serafeim Chatzopoulos, Thanasis Vergoulis, Ilias Kanellos, Theodore Dalamagas, Christos Tryfonopoulos. Quant. Sci. Stud. 2(4): 1529-1550, 2021 

New trends in scientific knowledge graphs and research impact assessment. Paolo Manghi, Andrea Mannocci, Francesco Osborne, Dimitris Sacharidis, Angelo A. Salatino, Thanasis Vergoulis. Quant. Sci. Stud. 2(4): 1296-1300, 2021 

BIP4COVID19: Releasing impact measures for articles relevant to COVID-19. Thanasis Vergoulis, Ilias Kanellos, Serafeim Chatzopoulos, Danae Pla Karidi, Theodore Dalamagas. Quant. Sci. Stud. 2(4): 1447-1465, 2021 

SPHINX: A System for Metapath-based Entity Exploration in Heterogeneous Information Networks. Serafeim Chatzopoulos, Kostas Patroumpas, Alexandros Zeakis, Thanasis Vergoulis, Dimitrios Skoutas. Proc. VLDB Endow. 13(12): 2913-2916, 2020 

Impact-Based Ranking of Scientific Publications: A Survey and Experimental Evaluation. Ilias Kanellos, Thanasis Vergoulis, Dimitris Sacharidis, Theodore Dalamagas, Yannis Vassiliou. TKDE, DOI: 10.1109/TKDE.2019.2941206 (early access), 2019 

DIANA-TarBase v8: a decade-long collection of experimentally supported miRNA–gene interactions. Karagkouni D, Paraskevopoulou MD, Chatzopoulos S, Vlachos IS, Tastsoglou S, Kanellos I, Papadimitriou D, Kavakiotis I, Maniou S, Skoufos G, Vergoulis T, Dalamagas T, Hatzigeorgiou AG. Nucleic Acids Research, gkx1141, https://doi.org/10.1093/nar/gkx1141. Epub 201 November 16, 2017 

BUFET: boosting the unbiased miRNA functional enrichment analysis using bitsets.. Konstantinos Zagganas, Thanasis Vergoulis, Maria D. Paraskevopoulou, Ioannis S. Vlachos, Spiros Skiadopoulos, Theodore Dalamagas. BMC Bioinformatics. 2017 Sep 6;18(1):399, 2017 

DIANA-mirExTra v2.0: Uncovering microRNAs and transcription factors with crucial roles in NGS expression data. Ioannis S. Vlachos, Thanasis Vergoulis, Maria D. Paraskevopoulou, Filopoimin Lykokanellos, Georgios Georgakilas, Penny Georgiou, Serafeim Chatzopoulos, Dimitra Karagkouni, Foteini Christodoulou, Theodore Dalamagas, Artemis G Hatzigeorgiou. Nucl. Acids Res. , 2016 

DIANA-miRGen v3.0: accurate characterization of microRNA promoters and their regulators. Georgios Georgakilas, Ioannis S. Vlachos, Konstantinos Zagganas, Thanasis Vergoulis, Maria D. Paraskevopoulou, Ilias Kanellos, Panayiotis Tsanakas, Dimitris Dellis, Athanasios Fevgas, Theodore Dalamagas, Artemis G. Hatzigeorgiou. Nucl. Acids Res. 44 (D1): D190-D195, 2016 

DIANA-LncBase v2: indexing microRNA targets on non-coding transcripts. Maria D. Paraskevopoulou, Ioannis S. Vlachos, Dimitra Karagkouni, Georgios Georgakilas, Ilias Kanellos, Thanasis Vergoulis, Konstantinos Zagganas, Panayiotis Tsanakas, Evangelos Floros, Theodore Dalamagas, and Artemis Hatzigeorgiou. Nucl. Acids Res. 44 (D1): D231-D238, 2016 

DIANA-miRPath v3.0: deciphering microRNA function with experimental support. Vlachos IS, Zagganas K, Paraskevopoulou MD, Georgakilas G, Karagkouni D, Vergoulis T, Dalamagas T, Hatzigeorgiou AG. Nucleic Acids Res. 2015 Jul 1;43(W1):W460-6. doi: 10.1093/nar/gkv403. Epub 2015 May 14, 2015 

DIANA-TarBase v7.0: indexing more than half a million experimentally supported miRNA:mRNA interactions. Ioannis S. Vlachos, Maria D. Paraskevopoulou, Dimitra Karagkouni, Georgios Georgakilas, Thanasis Vergoulis, Ilias Kanellos, Ioannis-Laertis Anastasopoulos, Sofia Maniou, Konstantina Karathanou, Despina Kalfakakou, Athanasios Fevgas, Theodore Dalamaga. Nucl. Acids Res. 43 (D1): D153-D159, 2015 

mirPub: a database for searching microRNA publications. Thanasis Vergoulis, Ilias Kanellos, Nikos Kostoulas, Georgios Georgakilas, Timos Sellis, Artemis Hatzigeorgiou, Theodore Dalamagas. Bioinformatics 31 (9): 1502-1504, 2014 

DIANA-LncBase: experimentally verified and computationally predicted microRNA targets on long non-coding RNAs. Paraskevopoulou MD, Georgakilas G, Kostoulas N, Reczko M, Maragkakis M, Dalamagas T, Hatzigeorgiou AG . Nucleic Acids Research 41(Database Issue):D239-D245, 2013 

DIANA-microT web server v5.0: service integration into miRNA functional analysis workflows. Maria D. Paraskevopoulou, Georgios Georgakilas, Nikos Kostoulas, Ioannis S. Vlachos, Thanasis Vergoulis, Martin Reczko, Christos Filippidis, Theodore Dalamagas and A.G. Hatzigeorgiou. Nucl. Acids Res. 41(W1):W169-W173, 2013 

DIANA miRPath v.2.0: investigating the combinatorial effect of microRNAs in pathways. I. S. Vlachos, N. Kostoulas, T. Vergoulis, G. Georgakilas, M. Reczko, M. Maragkakis, M. D. Paraskevopoulou, K. Prionidis, T. Dalamagas, A. G. Hatzigeorgiou. Nucl. Acids Res. 40(W1): W498-W504, 2012 

Approximate Regional Sequence Matching for Genomic Databases. T. Vergoulis, T. Dalamagas, D. Sacharidis, T. Sellis. Volume 21, Issue 6, pp 779-795, 2012 

Tarbase 6.0: Capturing the Exponential Growth of miRNA Targets with Experimental Support. T. Vergoulis, I. Vlachos, P. Alexiou, G. Georgakilas, M. Maragkakis, M. Reczko, S. Gerangelos, N. Koziris, T. Dalamagas, AG Hatzigeorgiou. Nucleic Acids Research, 40 (Database Issue), 2012 

DIANA-microT Web server upgrade supports Fly and Worm miRNA target prediction and bibliographic miRNA to disease association. M. Maragkakis, T. Vergoulis, P. Alexiou, M. Reczko, K. Plomaritou, M. Gousis, K. Kourtis, N. Koziris, T. Dalamagas, A. Hatzigeorgiou. Nucleic Acids Research, 39, 2011 

miRGen 2.0 a database of microRNA genomic information and regulation. P. Alexiou, T. Vergoulis, M. Gleditzsch, G. Prekas, T. Dalamagas, M. Megraw, I. Grosse, T. Sellis, A.G. Hatzigeorgiou. Nucleic Acid Research (NAR), 38, 2010 

Accurate microRNA target prediction correlates with protein repression levels. Manolis Maragkakis, Panagiotis Alexiou, Giorgio L Papadopoulos, Martin Reczko, Theodore Dalamagas, George Giannopoulos, George Goumas, Evangelos Koukis, Kornilios Kourtis, Victor A Simossis, Praveen Sethupathy, Thanasis Vergoulis, Nectarios Koziris, . BMC Bioinformatics, 10, 2009 

DIANA-microT web server: elucidating microRNA functions through target prediction. Maragkakis M, Reczko M, Simossis VA, Alexiou P, Papadopoulos GL, Dalamagas T, Giannopoulos G, Goumas G, Koukis E, Kourtis K, Vergoulis T, Koziris N, Sellis T, Tsanakas P, Hatzigeorgiou AG. Nucleic Acids Research (NAR) volume 37, 2009 

ATRAPOS: Evaluating Metapath Query Workloads in Real Time. Serafeim Chatzopoulos, Thanasis Vergoulis, Dimitrios Skoutas, Theodore Dalamagas, Christos Tryfonopoulos, Panagiotis Karras. CoRR abs/2201.04058, 2022 

BIP4COVID19: Releasing impact measures forarticles relevant to COVID-19. Thanasis Vergoulis, Ilias Kanellos, Serafeim Chatzopoulos, Danae Pla Karidi, Theodore Dalamagas. bioRxiv 2020.04.11.037093; doi: https://doi.org/10.1101/2020.04.11.037093, 2020 

Advanced search and data management services in Life Sciences. Thanasis Vergoulis. National Technical University of Athens, Greece, 2014 

Υλοποίηση μηχανισμού κατάταξης δημοσιεύσεων σχετικών με βιομόρια micro-RNA. Βασιλική Βλαχοκυριάκου. Department of Informatics and Telecommunications, National and Kapodistrian University of Athens, Greece, 2015 

Approximate string matching for spam management in email servers. Christos Kopsidas. Department of Informatics and Telecommunications, National and Kapodistrian University of Athens, Greece, 2012

Querying scientific databases, considering the historic evolution of data. Ilias Kanellos. Department of Computer Engineering and Informatics, National Technical University of Athens, Greece, 2012 

Term suggestion techniques for Scientific Databases. Petsios Theofilos. School of Electrical and Computer Engineering, NTUA, 2011 

Advanced Web Application for Management of Biosciences Data. Γιώργος Πρέκας. Σχολή Ηλεκτρολόγων Μηχανικών και Μηχανικών Υπολογιστών, ΕΜΠ, 2010 

Approximate Sequence Matching with MapReduce. Δανάη Κούτρα. Σχολή Ηλεκτρολόγων Μηχανικών και Μηχανικών Υπολογιστών, ΕΜΠ, 2010 

Implementation of suffix tree construction using Hadoop MapReduce. Alexandros Konstantinakis - Karmis. Σχολή Ηλεκτρολόγων Μηχανικών και Μηχανικών Υπολογιστών, ΕΜΠ, 2010 

DIANA 2.0: Advanced web application for the management of bioscience data. Γεωργία Φωτοπούλου. Σχολή Ηλεκτρολόγων Μηχανικών και Μηχανικών Υπολογιστών, ΕΜΠ, 2010