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Publications

by vgkamas on 19/12/2011

 

At this section a list of publications at proceedings of international conferences, journals and other events is presented. Part of  the research presented at the following publications has done, by exploiting the  HellasGrid/EGI grid infrastructure.

 

 

Journals

  1. I. Kanaris, V. Mylonakis, A. Chatziioannou, I. Maglogiannis, and J.Soldatos, “HECTOR: Enabling Microarray Experiments over the Hellenic Grid Infrastructure”, J. Grid Comput., vol. 7, no. 3, pp. 1–22, Aug. 20
  2. A. Chatziioannou, I. Kanaris, C. Doukas, P. Moulos, F.N. Kolisis and I. Maglogiannis, GRISSOM Platform: Enabling distributed Processing and Management of Biological Data through fusion of Grid and Web Technologies, IEEE TRANSACTIONS ON INFORMATION TECHNOLOGY IN BIOMEDICINE, 2011 15 (1), art. no. 5638146, pp. 83-92.
  3. K.Moutselos, I.Kanaris, A.Chatziioannou, I. Maglogiannis, F.N. Kolisis, KEGGconverter: a tool for the in-silico modelling of metabolic networks of the KEGG Pathways database (BMC Bioinformatics 10:324), 2009. (featured article of the volume, characterized as Highly Accessed).
  4. V.C. Papadimitriou, Y.G. Lazarou, R.K. Talukdar, J.B. Burkholder, J. “Atmospheric Chemistry of CF3CF=CH2 and (Z)-CF3CF=CHF: Cl and NO3 Rate Coefficients, Cl Reaction Product Yields, and Thermochemical Calculations”  Phys. Chem A2011, 115, 167 – 181.
  5. D.Achlioptas, R.M. D’Souza and J. Spencer, Explosive Percolation in Random Networks, Science 323,p. 1453 ,(2009)
  6. R.A. da Costa, S.N.Dorogovtsev, A.V.Goltsev, and J.F.F.Mendes, Explosive Percolation” Transition is Actually Continuous, Physical Review Letters 105(25),255701,(2010)
  7. P.Grassberger, C. Christensen, G. Bizhani, S-W Son, and M. Paczuski, Explosive Percolation is Continuous, but with Unusual Finite Size Behavior, Phys Rev Lett. 106(22), (2011)
  8. O. Riordan and L. Warnke, Explosive percolation is continuous, Science 333 (2011)
  9. R.M. Ziff, Explosive growth in biased dynamic percolation on two-dimensional regular lattice networks, Physical Review Letters 103(4),45701,(2009)
  10. F. Radicchi and S. Fortunato, Explosive Percolation: A numerical analysis, Physical Review E 81(3),036110,(2010)
  11. N.A.M. Araújo and H.J.Hermann, Explosive Percolation via Control of the Largest Cluster, Physical Review Letters 105(3),035701,(2010)
  12. L. Tsetseris, “Stability and dynamics of carbon and nitrogen dopants in anatase TiO2”, Physical Review B 81, 165205 (2010).
  13. L. Tsetseris, “Configurations, electronic properties, and diffusion of carbon and nitrogen dopants in rutile TiO2”,  Physical Review B 84, 165201 (2011).
  14. L. Tsetseris, “Stability of Group-V Endohedral Fullerenes”, Journal of Physical Chemistry C 115, 3528 (2011).
  15. G. Volonakis, L. Tsetseris, and S. Logothetidis, “Electronic and structural properties of TiB2: Bulk, surface, and nanoscale effects”, Materials Science and Engineering B 176, 484 (2011).
  16. N. Kalfagiannis, G. Volonakis, L. Tsetseris, and S. Logothetidis, “Excess of boron in TiB2 superhard thin films: a combined experimental and ab initio study”, Journal of Physics D 44, 385402 (2011).
  17. G. Volonakis, L. Tsetseris, and S. Logothetidis, “Impurity-related vibrational modes in a pentacene crystal”,  European Physical Journal: Applied Physics 55, 23903 (2011).
  18. E. Golias, L. Tsetseris, A. Dimoulas, and S. T. Pantelides, “Ge volatilization products in high-k gate dielectrics”,  Microelectronic Engineering 88, 427 (2011).
  19. E. Golias, L. Tsetseris, and A. Dimoulas, “Ge-related impurities in high-k oxides: Carrier traps and interaction with native defects”, Microelectronic Engineering 88, 1432 (2011).
  20. Fotis E. Psomopoulos and Pericles A. Mitkas, “Bioinformatics Algorithm Development for Grid Environments”, Journal of Systems & Software, vol. 83, No 7. (2010), pp. 1249-1257.
  21. Skarlatoudis A.A., C.B. Papazachos and N. Theodoulidis, (2011b). Site response study of the city of Thessaloniki (N. Greece), for the 04/07/1978 (M5.1) aftershock, using a 3D Finite-Difference wave propagation method, accepted for publication in Bull. Seism. Soc. Am.
  22. V. Daskalakis, M. Giatromanolakis, M. Porrini, S. C. Farantos, and O. Gervasi, Computer Physics, Chapter: Grid computing multiple shooting algorithms for extended phase space sampling and long time propagation in Molecular Dynamics, Nova Science Publishing Co., 2011.
  23. M. Porrini, V. Daskalakis, and S. C. Farantos, Thermodynamic Perturbation Calculations on Cytochrome c Oxidases interacting with small ligands, Phys. Chem. Chem. Phys., submitted, 2011.
  24. Massimiliano Porrini, Vangelis Daskalakis, S. C. Farantos, and Constantinos Varotsis, Heme Cavity Dynamics of Photodissociated CO from ba3-Cytochrome c Oxidase: the Role of Ring-D Propionate, J. Phys. Chem. B, 113(35):12129-12135, 2009.
  25. D. Kalles, and I. Fykouras. “Examples as Interaction: On Humans Teaching a Computer to Play a Game”, International Journal on Artificial Intelligence Tools, 2010.
  26. Huszar P., K. Juda-Rezler, T. Halenka, H. Chervenkov, D. Syrakov, B. C. Krueger, P. Zanis, D. Melas, E. Katragkou, M. Reizer, W. Trapp, M. Belda, Potential climate change impacts on ozone and PM levels over Central and Eastern Europe from high resolution simulations, Climate Research (in press), 2011
  27. Κatragkou E., P. Zanis, I. Kioutsioukis, I. Tegoulias, D. Melas, B.C. Krüger, E. Coppola, Future climate change impacts on summer surface ozone from regional climate-air quality simulations over Europe, J Geophys Res (in press), 2011
  28. P. K. Gkonis, G. V. Tsoulos and D. I. Kaklamani, “An adaptive beam-shaping strategy for WCDMA multicellular networks with non-uniform traffic requirements”, Journal of Communications (JCM), vol. 3, issue 4, pp. 16-25, September 2008.
  29. P. K. Gkonis, T. E. Athanaileas, G. V. Tsoulos, G. E. Athanasiadou, and D. I. Kaklamani, “Adaptive beam-centric admission control for WCDMA multicell/multiservice scenarios with non-uniform traffic”, Journal of Wireless Personal Communications (Kluwer), December 2009.
  30. P. K. Gkonis, G. V. Tsoulos and D. I. Kaklamani, “Performance evaluation of MIMO-WCDMA cellular networks in multiuser frequency selective fading environments”, Wireless Communications and Mobile Computing (Wiley), article first published online: 18/01/2011, DOI:10.1002/wcm.1096.
  31. T. E. Athanaileas, P. K. Gkonis, G. E. Athanasiadou, G. V. Tsoulos and D. I. Kaklamani, “Implementation and evaluation of a web-based grid-enabled environment for WCDMA multibeam system simulations”, IEEE Antennas and Propagation Magazine, vol. 50, issue 3, pp. 195-204, June 2008.
  32. C. Simserides, A. Lipinska, K.N. Trohidou, T. Dietl, Reducing influence of antiferromagnetic interactions on ferromagnetic properties of p-(Cd,Mn)Te quantum wells, Physica E: Low-dimensional Systems and Nanostructures 42 (2010) 2694-2697
  33. A. Lipinska, C. Simserides, K. N. Trohidou, M. Goryca, P. Kossacki, A. Majhofer, and T. Dietl, Ferromagnetic properties of p-(Cd,Mn)Te quantum wells: Interpretation of magneto-optical measurements by Monte Carlo simulations, Phys. Rev. B 79 (2009) 235322
  34. K. Christodoulopoulos, V. Gkamas, E. Varvarigos, “Statistical Analysis and Modeling of jobs in a Grid Environment”, Springer Journal of Grid Computing 6 (1), pp. 77-101.
  35. F. Georgatos , V. Gkamas , A. Ilias , G. Kouretis , E. Varvarigos , “A Grid-enabled CPU scavenging architecture and a case study of its use in the Greek School Network”, Springer Journal of Grid Computing, 8 (1), pp 61-75.
  36. A.A. Skarlatoudis, C.B. Papazachos and N. Theodoulidis, Spatial distribution of site-effects and wave propagation properties in Thessaloniki (N. Greece) using a 3D Finite Difference method, Geoph. J. Int., 185, 485-513, (2011).
  37.  A.A. Skarlatoudis, C.B. Papazachos, N. Theodoulidis, J. Kristek and P. Moczo, Local site-effects for the city of Thessaloniki (N. Greece) using a 3D Finite-Difference method:  A case of complex dependence on source and model parameters, Geoph. J. Int., 182,  279-298, (2010).
  38. 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.
  39. Tzanis, G. Berberidis, C., and Vlahavas, I. (2012). StackTIS: A Stacked Generalization Approach for Effective Prediction of Translation Initiation Sites, Computers in Biology and Medicine, Elsevier, 42 (2012) 61–69.
  40. Lagouvardos K., E. Floros and V. Kotroni, 2010: A Grid-enabled Regional-scale Ensemble Forecasting System in the Mediterranean. Journal of Grid Computing, 8:181–197.
  41. Kotroni V., E.Floros, K. Lagouvardos, G. Pejanovic, L. Ilic, and M. Zivkovic, 2010: Multi-model multi-analysis ensemble weather forecasting on the Grid for the South Eastern Mediterranean Region, Earth Science Informatics, 3, 209-218.
  42. F. E. Psomopoulos, P. A. Mitkas, C. S. Krinas, and I. N.Demetropoulos, “A grid-enabled algorithm yields figure-eight molecular knot,” Molecular Simulation, vol. 35, no. 9, pp. 725–736, 2009.
  43. I. Kantemiris, P. Karaiskos, G. Lymperopoulou, G. Koukourakis, A. Angelopoulos, “Dose averaged LET distribution of Z=1 up to Z=6 ion beams”, Radiother. Oncol. 96, S536, 2010 9.
  44. I. Kantemiris, P. Karaiskos, P. Papagiannis, A. Angelopoulos, “Dose and dose averaged LET comparison of 1H, 4He, 6Li, 8Be, 10B, 12C, 14N, and 16O ion beams forming a spread-out Bragg peak”, Med. Phys. 38 (12), 2011
  45. A. Luehr, J. Toftegaard, I. Kantemiris, N. Bassler, “Stopping power: the generic library libdedx and a study of clinically relevant stopping-power ratios for different ions”, International Journal of Radiation Biology, January 2012, Vol. 88, No. 1-2 : pp. 209-212

Conferences

  1. I. Maglogiannis,  A. Chatzioannou,  J. Soldatos,  V. Mylonakis,  J. Kanaris,  “An Application Platform Enabling High Performance Grid Processing of Microarray Experiments”, In Proc. 20th IEEE Conf on Computer Based Medical Systems CBMS2007 pp. 477-482, Maribor Slovenia
  2. A. Chatziioannou, I. Kanaris, I. Maglogiannis, C. Doukas, P. Moulos, E. Pilalis and F. Kolisis : “GRISSOM web based Grid portal: Exploiting the power of Grid infrastructure for the interpretation and storage of DNA microarray experiments” In Proc of  9th IEEE International Special Topic Conference on Information Technology in Biomedicine (ITAB 2009) Larnaka Cyprus
  3. Fotis E. Psomopoulos and Pericles A. Mitkas: “Sizing Up: Bioinformatics in a Grid Context”, 3rd Conference of the Hellenic Society For Computational Biology and Bioinformatics – HSCBB ’08, 30-31 October 2008, Thessaloniki, Greece.
  4. Helen Polychroniadou, Fotis E. Psomopoulos and Pericles A. Mitkas: “g-Class: A Divide and Conquer Application for Grid Protein Classification”, Proceedings of the 2nd ADMKD 2006: Workshop on Data Mining and Knowledge Discovery (in conjunction with ADBIS’2006: The 10th East-European Conference on Advances in Databases and Information Systems), 3-7 September 2006, Thessaloniki, Greece, pp. 121-132.
  5. Christos N. Gkekas, Fotis E. Psomopoulos and Pericles A. Mitkas, “A parallel data mining methodology for protein function prediction utilizing finite state automata”, presented at the 2nd Electrical and Computer Engineering Student Conference, April 2008, Athens, Greece.
  6. Skarlatoudis A.A., C.B. Papazachos, P. Moczo, J. Kristek and N. Theodoulidis, (2008b). Ground motions simulations for the city of Thessaloniki, Greece, using a 3-D Finite-Difference wave propagation method, European Geosciences Union (EGU) General Assembly, Vienna, Austria and 31st European General Assembly of the European Seismological Commission, Chania, Greece.
  7. D. Kalles and P. Kanellopoulos. “A Minimax Tutor for Learning to Play a Board Game”, Workshop on Artificial Intelligence in Games, a workshop of the 18th European Conference on Artificial Intelligence, 2008.
  8. D. Kalles and P. Kanellopoulos. “A Pendulum Effect in Co-evolutionary Learning in Games”, European Workshop in Reinforcement Learning, 2011.
  9. P. Gkonis, T. Athanaileas, G. Tsoulos and D. Kaklamani, “Performance of WCDMA in a multicellular network for different multiuser detection strategies”, Proceedings of the 7th International Conference on Intelligent Transport Systems Telecommunications (ITST 2007), Sofia Antipolis, France, June 2007, pp. 195-200.
  10. P. Gkonis, G. Tsoulos and D. Kaklamani, “An adaptive admission control strategy for WCDMA multicellular networks with non-uniform traffic”, Proceedings of the IEEE 66th Vehicular Technical Conference (VTC 2007), Baltimore, USA, 1-3 October 2007, pp. 989-993.
  11. P. K. Gkonis, G. V. Tsoulos and D. I. Kaklamani, “Performance evaluation of an adaptive sectorization strategy for WCDMA cellular networks with hotspot areas”, Proceedings of the 10th European Conference on Wireless Technology (ECWT 2007), European Microwave Week 2007 (EuMW 2007), Munich, Germany, 8-10 October 2007, pp. 86-89.
  12. P. Gkonis, G. Tsoulos and D. I. Kaklamani, “Performance of WCDMA networks with space-time block coding and multiuser detection”, Proceedings of the 2nd European Conference on Antennas and Propagation (EuCAP 2007), Edinburgh, UK, 11-16 November 2007
  13. P. Gkonis, G. Tsoulos and D. I. Kaklamani, “Capacity of WCDMA multicellular networks under different radio resource management strategies”, Proceedings of the IEEE International Symposium on Wireless Pervasive Computing (ISWPC08), Santorini, Greece, 7-9 May 2008, pp. 60-64.
  14. D. Karakasilis, F. Georgatos, L. Lambrinos, T. Alexopoulos, “Application of Live Video Streaming over GRID and Cloud Infrastructures“,  IEEE 11th International Conference on Computer and Information Technology (CIT), Pafos, Cyprus 2011
  15. K. Christodoulopoulos, V. Gkamas, E. Varvarigos, “Delay Components of Job Processing in a Grid: Statistical Analysis and Modelling”, 3rd International Conference on Networking and Services, ICNS, pp. 23-31, June 2007.
  16. M. Oikonomakos, K. Christodoulopoulos, E. Varvarigos, Profiling Computation Jobs in Grid Systems, Proc. 7th IEEE International Symposium on Cluster Computing and the Grid (CCGrid 2007), Rio, Brazil, May 2007, pp. 197-204.
  17. A.A. Skarlatoudis  and C.B. Papazachos, “Implementation of a non-splitting formulation of perfect matching layer in a 3D – 4th order staggered-grid velocity-stress finite-difference scheme”, Bull. Geol. Soc of Greece, in the proceedings of 12th International Congress, Patras, Greece, (2010).
  18. Skarlatoudis A.A., C.B. Papazachos, P. Moczo, J. Kristek, N. Theodoulidis and P. Apostolidis, (2007). Evaluation of ground motions simulations for the city of Thessaloniki, Greece using the FD method: the role of site effects and focal mechanism at short epicentral distances, European Geosciences Union (EGU) General Assembly, Vienna, Austria.
  19. Tzanis, G., Berberidis, C., and Vlahavas, I. (2006). A Novel Data Mining Approach for the Accurate Prediction of Translation Initiation Sites, In Proceedings of the 7th International Symposium on Biological and Medical Data Analysis, Thessaloniki, Greece, 92-103.
  20. Tzanis, G. Berberidis, C., and Vlahavas, I. (2007). MANTIS: A Data Mining Methodology for Effective Translation Initiation Site Prediction. In Proceedings of the 29th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, IEEE, Lyon, France, 6343-6347.
  21. Tzanis, G. and Vlahavas, I. (2007). Accurate Classification of SAGE Data Based on Frequent Patterns of Gene Expression. In Proceedings of the 19th IEEE International Conference on Tools with Artificial Intelligence (ICTAI 2007), Patras, Greece, 96-100.
  22. Tzanis, G., Kavakiotis, I., Vlahavas, I. (2008). Polyadenylation Site Prediction Using Interesting Emerging Patterns, In Proceedings of the 8th IEEE International Conference on Bioinformatics and Bioengineering, IEEE, Athens, Greece, 1-7.
  23. I. Kantemiris, “Dosimetry of antiproton beam with VIP polymer Gel and MRI”, 8th Workshop on Biological Effects of Antiprotons and Recent Advances in Particle Beam Cancer Therapy, Varenna, June 13-17, 2011.

Other

  1. C. Doukas, I. Maglogiannis, A. Chatziioannou, “Certification and Security Issues in Biomedical Grid Portals: The GRISSOM Case Study”, “Certification and Security in Health-Related web applications: Concepts and Solutions” IGI Press (to appear).
  2.  J. Soldatos, I. Maglogiannis, A. Chatzioannou, V. Mylonakis, J. Kanaris, ‘Application Architecture for High Performance Microarray Experiments over the Hellas-Grid Infrastructure’, EGEE User Forum, Manchester, United Kingdom, May 9-11, 2007.
  3. A. Chatziioanou, I. Maglogiannis, I. Kanaris, C. Doukas, E. Pilalis, P. Moulos, F. Kolisis, “GRISSOM: A Web based portal and repository for interpretation and storage of DNA microarray experiments”, presented at 4th EGEE User Forum/OGF 25 and OGF Europe’s 2nd International Event, 2-6 March 2009, Catania, Italy.
  4. Christos N. Gkekas, Fotis E. Psomopoulos and Pericles A. Mitkas, “A parallel data mining application for Gene Ontology term prediction”, 3d EGEE User Forum, Polydome Conference Centre, 11-14 February 2008, Clermont-Ferrand, France.
  5. T. Athanaileas, P. Gkonis, G. Tsoulos and D. Kaklamani, “An adaptive framework for WCDMA system analysis in the EGEE grid infrastructure”, Book of abstracts of the 20th Open Grid Forum, Enabling Grids for E-Science (OGF20/EGEE), Manchester, UK, 9-11 May 2007, p. 112.
  6. P. Gkonis, G.Tsoulos and D. Kaklamani, “Performance evaluation of a beam-centric adaptive admission control for WCDMA cellular networks with smart antennas”, Proceedings of the 16th IST Mobile & Wireless Communications Summit, Budapest, Hungary, 1–5 July 2007 (5 pages).
  7. Fotis E. Psomopoulos and Pericles A. Mitkas, “Data Mining in Proteomics using Grid Computing”, Handbook of Research on Computational Grid Technologies for Life Sciences, Biomedicine and Healthcare, Editor: Mario Cannataro, Laboratory of Bioinformatics, University Magna Graecia of Catanzaro, 88100 Catanzaro, Italy, 2009, (chapter 13, pp. 245-267), UK: IGI Global.
  8. A.A. Skarlatoudis , Korosoglou, P., Kanellopoulos, C. and Papazachos C.B, (2008a). Interaction of a 3D finite-difference application for computing synthetic waveforms with the HellasGrid infrastructure, 1st HellasGrid User Forum, Athens, Greece, 3rd EGEE User Forum, Clermont-Ferrand, France.
  9. V. Tziampazlis, ”Three-dimensional Simulations of Rotational Modes in Relativistic Stars“, M.Sc Thesis, Physics Department, Aristotle University of Thessaloniki, Supervisor: Assistant Professor Nikolaos Stergioulas
  10. Kotroni V., E. Floros, K. Lagouvardos, G. Pejanovic, L. Ilic, M. Zivkovic , “Regional scale multi-model and multi-analysis ensemble weather forecasting on the Grid“, SEE-GRID-SCI User Forum 2009, 9-10 December 2009, Istanbul, pp. 35-42.
  11. Floros, E., V. Kotroni, K. Lagouvardos, G. Pejanovic, L. Ilic, M. Zivkovic, “Weather multi-model and multi-analysis ensemble forecasting on the Grid”, 4th EGEE User Forum, March 4, 2009. Catania, ITALY.
  12. F. Tzima, F. E. Psomopoulos, and P. A. Mitkas, “An investigation of the effect of clustering-based initialization on learning classifier systems’ effectiveness: leveraging the grid infrastructure,” in 5th EGEE User Forum, (Uppsala, Sweden), pp. 111–112, Uppsala University, April 2010.
  13. F. E. Psomopoulos and P. A. Mitkas, “Badge: Bioinformatics algorithm development for grid environments,” in Local Proceedings of PCI 2009, 13th Panhellenic Conference on Informatics, (Corfu, Greece), pp. 93–107, September 2009.
  14. C. N. Gkekas, F. E. Psomopoulos, and P. A. Mitkas, “Exploiting parallel data mining processing for protein annotation,” in Proceedings of the “Students Eureka” 2008, 2nd Panhellenic Scientific Student Conference on Computer Science, (Samos, Greece), pp. 242–252, August 2008.
  15. F. E. Psomopoulos, P. A. Mitkas, C. S. Krinas, and I. Demetropoulos, “G-molknot: A grid enabled systematic algorithm to produce open molecular knots,” in 1st HellasGrid User Forum, Biomed Apps, (School of Physics, Amphitheatre Aristotle of the National and Kapodistrian University of Athens, Ilissia Campus, Athens, Greece), January 2008.
  16. K. Chatzidimitriou, F. E. Psomopoulos, and P. A. Mitkas, “Grid-enabled parameter initialization for high performance machine learning tasks,” in 5th EGEE User Forum, (Uppsala University, Uppsala, Sweden), pp. 113–114, April 2010.
  17. C. N. Gkekas, F. E. Psomopoulos, and P. A. Mitkas, “Modeling gene ontology terms using finite state automata,” in Hellenic Bioinformatics and Medical Informatics Meeting, (Biomedical Research Foundation, Academy of Athens, Greece), October 2007.
Publications