Publications
Summary: 5 Thesis, 13 Journals, 1 Editorial, 2 Book chapters, 4 Papers in Conference Proceedings and 21 Abstracts in Conference Proceedings.
First author: 9 Papers (5 Journals, 2 Book Chapters, 2 Papers in Conference Proceedings)
Citations: 760 citations – h-index: 9 according to (Google Scholar)
Notes: Two journal articles [J.10] and [J.12] rank in the top 1% by citations (Highly Cited) for 2019 for the field Biology and Biochemistry in Web of Science.
Thesis
- [T.5] Kavakiotis I. , “Methods for Biosignal Analysis and Modelling for the Investigation of the Effect of Metal-Ions in Compound Action Potential in Nervous Tissue”. M.Sc. Thesis. School of Medicine, Aristotle University of Thessaloniki, 2020 (in Greek)
- [T.4] Kavakiotis I. “Machine Learning and Knowledge Discovery from Biological Data”. PhD Thesis. School of Informatics, Aristotle University of Thessaloniki, 2016 (in Greek)
- [T.3] Kavakiotis I. “Bioinformatics tool development for applications in population genetics”. M.Sc. Thesis. School of Biology, Aristotle University of Thessaloniki, 2015 (in Greek)
- [T.2] Kavakiotis I. “Data Mining Methods for Polyadenylation Site Prediction in Biological Data”. M.Sc. Thesis. School of Informatics, Aristotle University of Thessaloniki, 2010 (in Greek)
- [T.1] Kavakiotis I.“Polyadenylation Site Prediction” B.Sc. Thesis. School of Informatics, Aristotle University of Thessaloniki, 2008 (in Greek)
Editorials
- [E.1] ECCB 2018 Steering Committee, Hatzigeorgiou AG., Bagos P., Benos PV., Nikolaou C., Moreau Y., Kavakiotis I. (2018). "ECCB 2018: The 17th European Conference on Computational Biology", Bioinformatics, Sep 1;34(17):i595-8.[article]
Book Chapters
- [BC.2] Kavakiotis I. , Tzanis G., Vlahavas I.,(2014) "Polyadenylation site prediction using PolyA-iEP method", Polyadenylation Method and Protocols, Joanna Rorbach and Agnieszka Bobrowicz (Eds.), Springer, Methods In Molecular Biology, 2014;1125:131-40. doi: 10.1007/978-1-62703-971-0_11 [book] [pubmed]
- [BC.1] Kavakiotis I., Tzanis G., Vlahavas I. (2014) "Mining Frequent Patterns and Association Rules from Biological Data" Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data, M. Elloumi, A. Y. Zomaya (Eds.), Wiley Book Series on Bioinformatics: Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) (2014) [book]
Journals
(* indicate papers (#2) that rank in the top 1% by citations (Highly Cited) for 2019 for the field Biology and Biochemistry in Web of Science)
- [J.13] Tsave O., Kavakiotis I., Kantelis K., Mavridopoulos S., Nicopolitidis P., Papadimitriou G., Vlahavas I., Salifoglou A. (2019) The anatomy of bacteria-inspired nanonetworks: Molecular nanomachines in message dissemination. Nano Communication Networks (IF (2019) – 2.621) [article]
- [J.12*] Karagkouni D., Paraskevopoulou MD., ChatzopoulosS., Vlachos IS., Tastsoglou S., Kanellos I., Papadimitriou D., Kavakiotis I., Maniou S., Skoufos G., (...), Hatzigeorgiou A. (2017) DIANA-TarBasev8: a decade-long collection of experimentally supported miRNA–gene interactions. Nucleic Acids Research.,doi:10.1093/nar/gkx1141. (IF (2017) - 11.561) – (Highly cited) [article]
- [J.11] Kavakiotis I., Samaras P., Triantafyllidis A., Vlahavas I. (2017) FIFS: A data mining method for informative marker selection in high dimensional population genomic data. Computers in Biology and Medicine. 90: 146-154 (2017) (IF (2017) - 2.115) [article]
- [J.10*] Kavakiotis, I., Tsave, O., Salifoglou, A., Maglaveras, N., Vlahavas, I., Chouvarda, I. (2017). Machine Learning and Knowledge Discovery Methods in Diabetes Research. Computational and Structural Biotechnology Journal, Volume 15, 2017, Pages 104–116. (IF (2017) - 4.148) – (Highly cited) [article] [pubmed]
- [J.09] Xochelli A., Baliakas P., Kavakiotis I., Agathangelidis A., Sutton LA., Minga E., (...), Stamatopoulos K.(2017). Chronic lymphocytic leukemia with mutated IGHV4-34 receptors: shared and distinct immunogenetic features and clinical outcomes. Clinical Cancer Research. 2017 May 23. pii: clincanres.3100.2016. doi: 10.1158/1078-0432.CCR-16-3100. [Epub ahead of print] (IF (2017) – 10.199) [article]
- [J.08] Mavridopoulos S., Nicopolitidis P., Tsave O., Kavakiotis I., Salifoglou A. (2017) Using bacterial concentration as means of dissipating information through chemotaxis. Nano Communication Networks. http://doi.org/10.1016/j.nancom.2017.04.002 (IF (2017) - 2.070) [article]
- [J.07] Kantelis K., Papadimitriou G., Nikopolitidis P., Kavakiotis I., Tsave O., Salifoglou A. (2017). Fick’s Law Model Revisited: A New Approach to Modeling Multiple Sources Message Dissemination in Bacterial Communication Nanosystems. IEEE Transactions on Molecular, Biological and Multi-Scale Communications.Volume: PP, Issue: 99. 20 June 2017. doi: 10.1109/TMBMC.2017.2717402 [article]
- [J.06] Kavakiotis, I., Xochelli, A., Agathangelidis, A., Tsoumakas, G., Maglaveras, N., Stamatopoulos, K., Hadzidimitriou, A., Vlahavas, I., Chouvarda, I. (2016) Integrating Multiple Immunogenetic Data Sources For Feature Extraction and Mining Mutation Patterns: The Case of Chronic Lymphocytic Leukemia Shared Mutations BMC Bioinformatics 2016 Jun 6;17 Suppl 5:173. doi: 10.1186/s12859-016-1044-3. (IF (2016) - 2.448) [article]
- [J.05] Kavakiotis I., Triantafyllidis A., Ntelidou D, Alexandri P, Megens HJ, Crooijmans RP, Groenen MA, Tsoumakas G, Vlahavas I. (2015)
"TRES: Identification of Discriminatory and Informative SNPs from Population Genomic Data.", Journal of Heredity
Wiley,2015 2015 Sep-Oct;106(5):672-6. doi: 10.1093/jhered/esv044. Epub 2015 Jul 2 (IF (2015) - 2.075)
[article]
- [J.04] Xochelli, A., Agathangelidis, A., Kavakiotis, I., Minga, E., Sutton, L.A., Baliakas, P., (...) Stamatopoulos, K.(2014) "Immunoglobulin Heavy Variable (IGHV) Genes and Alleles: New Entities, New Names and Implications for Research and Prognostication in Chronic Lymphocytic Leukemia", ImmunogeneticsSpringer, Springer, 2015 Jan;67(1):61-6. doi: 10.1007/s00251-014-0812-3. Epub 2014 Nov 12 (IF (2014) - 2.227) [article]
- [J.03] Kavakiotis I., Triantafyllidis A., Samaras P., Voulgaridis A., Karaiskou N., Konstantinidis E., Vlahavas I. (2014) "Pattern discovery for microsatellite genome analysis", Computers in Biology and Medicine, Edward John Ciaccio (Ed.), Elsevier, Vol. 46, pp. 71-78 , 2014. (IF (2014) - 1.240)[article]
- [J.02] Karaiskou N., Tsakogiannis A., Gkagkavouzis K., Operator of Parnitha National Park., Papika S., Latsoudis P., Kavakiotis I., Pantis J., Abatzopoulos TJ., Triantaphyllidis C., Triantafyllidis A. (2014) "Greece: A Balkan Subrefuge for a Remnant Red Deer (Cervus Elaphus) Population", Journal of Heredity,Wiley, 2014 May-Jun;105(3):334-44. doi: 10.1093/jhered/esu007. Epub 2014 Feb 20. (IF (2014)- 2.088) [article]
- [J.01] Tzanis G., Kavakiotis I., Vlahavas I. (2011) "PolyA-iEP: A Data Mining Method for the Effective Prediction of Polyadenylation Sites", Expert Systems with Applications, Elsevier, 38(10): 12398-12408, 2011. (IF (2011) - 2.203) [article]
Peer-reviewed Articles in Conference Proceedings
- [PC.04] Tsave O., Kavakiotis I., Vlahavas I., Salifoglou A. (2018). Adipose Tissue as a Biomarker in Data Mining Predictive Models of Metabolic Pathophysiologies. In: Maglaveras N., Chouvarda I., de Carvalho P. (eds) Precision Medicine Powered by pHealth and Connected Health. IFMBE Proceedings, vol 66. Springer, Singapore [article]
- [PC.03] Kavakiotis I., Triantafyllidis A., Tsoumakas G., Vlahavas I., (2016) "Ensemble Feature Selection using Rank Aggregation Methods for Population Genomic Data." ACM Proceedings of the 9th Hellenic Conference on Artificial Intelligence, 22, 2016
- [PC.02] Kavakiotis I., Triantafyllidis A., Tsoumakas G., Vlahavas I., (2014) "Feature Evaluation Metrics for Population Genomic Data", Proceedings of 8th Hellenic Conference on Artificial Intelligence (SETN 2014), A. Likas, K. Blekas and D. Kalles (Eds.), Springer, Artificial intelligence: Methods and Applications, LNCS, 8445, pp. 436-441, Ioannina, Greece, May 15-17, 2014, 2014 [article]
- [PC.01] Tzanis G., Kavakiotis I., Vlahavas I. (2008) "Polyadenylation Site Prediction Using Interesting Emerging Pattern", 8th IEEE International Conference on Bioinformatics and Bioengineering, IEEE, Athens, Greece, 2008: 1-7. [article]
Conferences
- [C.21] Kavakiotis I., Alexiou A., Tastsoglou S., Vlachos I., Hatzigeorgiou A. (2020) "DIANA-miTED: A miRNA Tissue-Expression Database." ISMB2020: Intelligent Systems for Molecular Biology. Montreal Canada, July 12 -16, 2020. (Virtual)
- [C.20] Alexiou A., Zisis D., Kavakiotis I., Koussounadis A., Karagkouni D. and Hatzigeorgiou A.G. (2019) "DIANA-mAP: Analyzing miRNA from raw NGS data to quantification." Proceedings of the Conference of the Hellenic Society for Computational Biology and Bioinformatics HSCBB19. FORTH/ICE-HT Conference Center, Patras, Greece, 8-10 December 2019
- [C.19] Perdikopanis N., Giannakakis A., Kavakiotis I. and Hatzigeorgiou A.G. (2019) "Accurate recognition of small coding ORFs ab initio." Proceedings of the Conference of the Hellenic Society for Computational Biology and Bioinformatics HSCBB19. FORTH/ICE-HT Conference Center, Patras, Greece, 8-10 December 2019
- [C.18] Perdikopanis N., Georgakilas GK., Grigoriadis D., Pierros V., Kavakiotis I., Alexiou P., Hatzigeorgiou A. (2019) "Indexing promoters for miRNAs using CAGE datasets." Proceedings of the Conference of the Hellenic Society for Computational Biology and Bioinformatics HSCBB19. FORTH/ICE-HT Conference Center, Patras, Greece, 8-10 December 2019
- [C.17] Tsave O., Kavakiotis I., Salifoglou A. and Chouvarda I. (2019) "Compound Action Pοtential Biosignal Analysis for the Assessment of Metal-Induced Neuropathologies." Panhellenic Conference on Biomedical Engineering. Athens, Greece. 9-10 May, 2019
- [C.16] Alexiou A., Zisis D., Kavakiotis I., Karagkouni D. and Hatzigeorgiou A.G. (2018) "Automated MicroRNA NGS Analysis Pipeline: From pre-process to quantification. " ECCB2018: 17th European Conference on Computational Biology. Athens, Greece, September 8-12, 2018
- [C.15] Perdikopanis N., Giannakakis A., Kavakiotis I. and Hatzigeorgiou A.G. (2018) "DIANA sORF: An algorithm for small coding ORFs identification." ECCB2018: 17th European Conference on Computational Biology. Athens, Greece, September 8-12, 2018
- [C.14] Karagkouni D., Paraskevopoulou M.D., Vlachos I.S., Tastsoglou S., Chatzopoulos S., Kavakiotis I., Vergoulis T., Dalamagas T. and Hatzigeorgiou A.G. (2018) "Indexing experimentally supported interactions of microRNAs with coding and non-coding transcripts." ECCB2018: 17th European Conference on Computational Biology.Athens, Greece, September 8-12, 2018
- [C.13] Kavakiotis I., Intzevidou I., Triantafyllidis A. and Vlahavas I. (2017). "Exploring Marker Selection in High Dimensional Population Genomic Data Through Social Choice and Voting Theory Methods." Proceedings of the Conference of the Hellenic Society for Computational Biology and Bioinformatics HSCBB17. Hellenic Pasteur Institute, Athens, Greece, 11-13 October 2017
- [C.12] Kavakiotis I., Bardos K., Triantafyllidis A. and Vlahavas I. (2017). "Experimental Comparison of Marker Evaluation Metrics for High Dimensional Population Genomic Data." Proceedings of the Conference of the Hellenic Society for Computational Biology and Bioinformatics HSCBB17. Hellenic Pasteur Institute, Athens, Greece, 11-13 October 2017
- [C.11] Karagkouni K., Tastsoglou S., Paraskevopoulou M., Vlachos I., Kavakiotis I., Papadimitriou D., Chatzopoulos S., Kanellos I., Skoufos G., Vergoulis T., Dalamagas T. and Hatzigeorgiou A. (2017) “Indexing experimentally verified interactions of microRNAs with coding and non-coding transcripts.” Proceedings of the Conference of the Hellenic Society for Computational Biology and Bioinformatics HSCBB17. Hellenic Pasteur Institute, Athens, Greece, 11-13 October 2017
- [C.10] Eid A., Kavakiotis I., Stalika E., Papaioannou P. and Chouvarda I.(2017) “Graphic methodologies for investigating diversity in next generation immunogenetic sequencing data”. Proceedings of the Conference of the Hellenic Society for Computational Biology and Bioinformatics HSCBB17. Hellenic Pasteur Institute, Athens, Greece, 11-13 October 2017
- [C.09] Tsave O., Kavakiotis I., Chouvarda I., Maglaveras N. and Salifoglou A. (2017) “Overview of Machine Learning and Data Mining in Diabetes Mellitus”. Proceedings of the Conference of the Hellenic Society for Computational Biology and Bioinformatics HSCBB17. Hellenic Pasteur Institute, Athens, Greece, 11-13 October 2017
- [C.08] Kavakiotis I., Kapoukranidou D. (2017) “Intelligent Decision Support Systems in Healthcare.” Proceedings of the 32nd North Greece Medical Conference. 30 March – 2 April 2017. Thessaloniki. Greece (in Greek)
- [C.07] Siametis A., Gkagkavouzis K., Kavakiotis I., Karaiskou N., Triantafyllidis A. (2016). "Genetic discrimination of wild and farmed European sea bass (Dicentrarchus labrax) in Greek waters." Proccedings of the 16th Hellenic Conference of Ichthyologists, 6-9 October 2016
- [C.06] Siametis, A., Gkagkavouzis, K.,Kavakiotis, I., Karaiskou, N., Triantafyllidis, A. and AQUATRACE consortium (2016). "Genetic analysis of greek wild and farmed sea bass(Dicentrarchus Labrax) Populations." Fourth International Symposium in Aquaculture GIA 2016, 22 – 22 April 2016, Athens, Greece
- [C.05] Gkagkavouzis K., Karaiskou N., Kavakiotis I., Triantafyllidis A. (2015) "First insights from genetic analysis of greek farmed populations of gilthead sea bream (S. AURATA) using single nucleotide polymorphisms (SNPs)." Proccedings of the 37th Scientific Conference of Hellenic Association for Biological Sciences. Volos, May 21-23, 2015. (in Greek)
- [C.04] Kavakiotis, I., Xochelli, A., Agathangelidis, A., Tsoumakas, G., Maglaveras, N., Stamatopoulos, K., Hadzidimitriou, A., Vlahavas, I., Chouvarda, I. (2014) "Integrating Multiple Immunogenetic Data Sources For Feature Extraction and Mining Mutation Patterns: The Case of Chronic Lymphocytic Leukemia Shared Mutations", Statistical Methods for Omics Data Integration and Analysis. Heraklion, Crete, Greece, November 10-12, 2014
- [C.03] Xochelli, A., Kavakiotis, I., Agathangelidis, A., Kienle, D., Davis, Z., Yan, X.L., (...) Stamatopoulos, K. (2014) "Charting Unique Signatures Of Somatic Hypermutation Amongst Chronic Lymphocytic Leukemia Patients Expressing IGHV4-34 Clonotypic B-Cell Receptors", 56th American Society of Hematology Annual Meeting and Exposition, San Fansisco, CA, December 6-9, 2014, Blood, 2014; 124 (21), 1969-1969.
- [C.02] Xochelli, A., Kavakiotis, I., Agathangelidis, A., Sutton, LA., Vlahavas, I.,, Anagnostopoulos, A., (…), Stamatopoulos K. (2014) "Charting Unique Signatures Of Somatic Hypermutation Amongst Chronic Lymphocytic Leukemia Patients Expressing IGHV4-34 Clonotypic B-Cell Receptors." 25ο Panhellenic Hematology Conference, Thessaloniki 13-15 November 2014. Abstract Volume: Haema 2014; 5(suppl.1):21 (abstract 7) (in Greek)
- [C.01] Xochelli, A., Agathangelidis, A., Kavakiotis, I., Minga, E., Sutton, L.A., Baliakas, P., (...) Stamatopoulos, K.(2014) "Immunoglobulin Heavy Variable (IGHV) Genes and Alleles New Entities, New Names and Implications for Research and Prognostication in CLL" Presented in 19th Congress of the European Hematology Association, Milan, Italy, June 12-15, 2014. Haematologica (online) 99 (S1), 49-49.