Browsing by Author "Promponas, Vasilis J."

Now showing items 1-20 of 35

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      2nd combined working group and management committee meeting of urine and kidney proteomics COST action 29-30 March 2009, Nafplio, Greece 

      Vlahou, Antonia; Allmaier, G.; Attwood, T.; Bongcam-Rudloff, E.; Charonis, Aristidis S.; Frokiaer, J.; Mischak, H.; Schanstra, J.; Spasovski, G.; Aasberg, A.; Allory, Y.; Arthur, J.; Attwood, T.; Banks, R.; Baumann, M.; Benigni, A.; Bezerianos, Anastasios; Campistol, J. M.; Candiano, G.; Capasso, G.; Carpentier, S.; Dadlez, M.; Constantinou-Deltas, Constantinos D.; Dijilianov, D.; De Zeeuw, D.; Decramer, S.; Dihazi, H.; Domon, B.; Endlich, N.; d'Alche-Buc, F.; D'Haese, P.; Edelman, A.; Egido, J.; El Nahas, M.; Farinazzo, A.; Fernandez-Llama, P.; Feldt-Rasmussen, B.; Frokiaer, J.; Gansevoort, R.; Garbis, S.; Garin, J.; Ghiggeri, G. M.; Gimenez, I.; Granier, C.; Goumenos, Dimitrios S.; Haylor, J. L.; Hilario, M.; Holthofer, H.; Kalousis, Alexandros; Kaski, S.; Knepper, M.; Korneti, P.; Kossida, Sophia A.; Langham, R.; Loftheim, H.; Lopez-Novoa, J.; Luider, T.; Magni, F.; Malats, N.; Martin, J. L.; Mayrhofer, C.; Monsarrat, B.; Mueller, G.; Nielsen, S.; Norling, M.; O'Connell, S.; Ortiz, A.; Perunicic-Pekovic, G.; Planelles, G.; Polenakovic, M.; Promponas, Vasilis J.; Rasic-Milutinovic, Z.; Rehulka, P.; Peter, K.; Righetti, P. G.; Ronco, P.; Ryan, M.; Sánchez-Carbayo, M.; Schanstra, J.; Semmes, J.; Sheehan, D.; Stenman, U. -H; Stodkilde-Jorgensen, L.; Tasic, V.; Theodorescu, D.; Thongboonkerd, V.; Toncheva, D.; Tsillibari, E.; Tsiotis, Georgios; Unwin, R.; Vanholder, R.; Vassilev, D.; Vickers, M. E.; Verhulst, A.; Vilasi, Annalisa; Vlahakos, D.; Vonk, R.; Wright, P. C.; Yamamoto, Tadashi; Yutaka, Y.; Zielenkiewicz, P. (2009)
      EuroKUP (Urine and Kidney Proteomics
    • Article  

      Biological applications of time series frequency domain clustering 

      Fokianos, Konstantinos; Promponas, Vasilis J. (2012)
      Clustering methods are used routinely to form groups of objects with similar characteristics. Collections of time series datasets appear in several biological applications. Some of these applications require grouping the ...
    • Article  

      BioTextQuest+: A knowledge integration platform for literature mining and concept discovery 

      Papanikolaou, Nikolas; Pavlopoulos, Georgios A.; Pafilis, Evangelos; Theodosiou, Theodosios G.; Schneider, R.; Satagopam, V. P.; Ouzounis, Christos A.; Eliopoulos, Aristides G.; Promponas, Vasilis J.; Iliopoulos, Ioannis Crete (2014)
      The iterative process of finding relevant information in biomedical literature and performing bioinformatics analyses might result in an endless loop for an inexperienced user, considering the exponential growth of scientific ...
    • Article  

      BioTextQuest+: a knowledge integration platform for literature mining and concept discovery 

      Papanikolaou, Nikolas; Pavlopoulos, Georgios A.; Pafilis, Evangelos; Theodosiou, Theodosios G.; Schneider, Reinhard; Satagopam, Venkata P.; Ouzounis, Christos A.; Eliopoulos, Aristides G.; Promponas, Vasilis J.; Iliopoulos, Ioannis Crete (2015)
    • Conference Object  

      Clockwork Recurrent Neural Networks for fast and accurate protein secondary structure prediction 

      Dimitriou, P.; Agathocleous, Michalis; Christodoulou, Chris; Promponas, Vasilis J. (University of Cyprus, 2018)
    • Article  

      Clustering of biological time series by cepstral coefficients based distances 

      Savvides, A.; Promponas, Vasilis J.; Fokianos, Konstantinos (2008)
      Clustering of stationary time series has become an important tool in many scientific applications, like medicine, finance, etc. Time series clustering methods are based on the calculation of suitable similarity measures ...
    • Article  

      A comparative study on filtering protein secondary structure prediction 

      Kountouris, P.; Agathocleous, Michalis; Promponas, Vasilis J.; Christodoulou, Georgia; Hadjicostas, S.; Vassiliades, Vassilis; Christodoulou, Chris C. (2012)
      Filtering of Protein Secondary Structure Prediction (PSSP) aims to provide physicochemically realistic results, while it usually improves the predictive performance. We performed a comparative study on this challenging ...
    • Article  

      Disentangling the complexity of low complexity proteins 

      Mier, Pablo; Paladin, Lisanna; Tamana, Stella; Petrosian, Sophia; Hajdu-Soltész, Borbála; Urbanek, Annika; Gruca, Aleksandra; Plewczynski, Dariusz; Grynberg, Marcin; Bernadó, Pau; Gáspári, Zoltán; Ouzounis, Christos A.; Promponas, Vasilis J.; Kajava, Andrey V.; Hancock, John M.; Tosatto, Silvio C. E.; Dosztanyi, Zsuzsanna; Andrade-Navarro, Miguel A. (2020)
      AbstractThere are multiple definitions for low complexity regions (LCRs) in protein sequences, with all of them broadly considering LCRs as regions with fewer a
    • Article  

      DisProt: intrinsic protein disorder annotation in 2020 

      Hatos, András; Hajdu-Soltész, Borbála; Monzon, Alexander M.; Palopoli, Nicolas; Álvarez, Lucía; Aykac-Fas, Burcu; Bassot, Claudio; Benítez, Guillermo I.; Bevilacqua, Martina; Chasapi, Anastasia; Chemes, Lucia; Davey, Norman E.; Davidović, Radoslav; Dunker, A. Keith; Elofsson, Arne; Gobeill, Julien; Foutel, Nicolás S. González; Sudha, Govindarajan; Guharoy, Mainak; Horvath, Tamas; Iglesias, Valentin; Kajava, Andrey V.; Kovacs, Orsolya P.; Lamb, John; Lambrughi, Matteo; Lazar, Tamas; Leclercq, Jeremy Y.; Leonardi, Emanuela; Macedo-Ribeiro, Sandra; Macossay-Castillo, Mauricio; Maiani, Emiliano; Manso, José A.; Marino-Buslje, Cristina; Martínez-Pérez, Elizabeth; Mészáros, Bálint; Mičetić, Ivan; Minervini, Giovanni; Murvai, Nikoletta; Necci, Marco; Ouzounis, Christos A.; Pajkos, Mátyás; Paladin, Lisanna; Pancsa, Rita; Papaleo, Elena; Parisi, Gustavo; Pasche, Emilie; Barbosa Pereira, Pedro J.; Promponas, Vasilis J.; Pujols, Jordi; Quaglia, Federica; Ruch, Patrick; Salvatore, Marco; Schad, Eva; Szabo, Beata; Szaniszló, Tamás; Tamana, Stella; Tantos, Agnes; Veljkovic, Nevena; Ventura, Salvador; Vranken, Wim; Dosztányi, Zsuzsanna; Tompa, Peter; Tosatto, Silvio C. E.; Piovesan, Damiano (2020)
      The Database of Protein Disorder (DisProt, URL: https://disprot.org) provides manually curated annotations of intrinsically disordered proteins from the literature. Here we report recent developments with DisProt (version ...
    • Article  

      Editorial intelligent biomedical systems 

      Kyriacou, Efthyvoulos C.; Promponas, Vasilis J.; Maglogiannis, I.; Schizas, Christos N.; Pattichis, Constantinos S. (2014)
    • Article  

      Erratum: BioTextQuest+: a knowledge integration platform for literature mining and concept discovery (Bioinformatics (2014) 30:22 (3249-3256) DOI: 10.1093/bioinformatics/btu524) 

      Papanikolaou, Nikolas; Pavlopoulos, Georgios A.; Pafilis, Evangelos; Theodosiou, Theodosios G.; Schneider, R.; Satagopam, V. P.; Ouzounis, Christos A.; Eliopoulos, Aristides G.; Promponas, Vasilis J.; Iliopoulos, Ioannis Crete (2015)
    • Article  

      Establishment of computational biology in Greece and Cyprus: Past, present, and future 

      Chasapi, Anastasia; Aivaliotis, Michalis; Angelis, Lefteris; Chanalaris, Anastasios; Iliopoulos, Ioannis; Kappas, Ilias; Karapiperis, Christos; Kyrpides, Nikos C.; Pafilis, Evangelos; Panteris, Eleftherios; Topalis, Pantelis; Tsiamis, George; Vizirianakis, Ioannis S.; Vlassi, Metaxia; Promponas, Vasilis J.; Ouzounis, Christos A. (2019)
    • Article  

      Experimental evidence validating the computational inference of functional associations from gene fusion events: a critical survey 

      Promponas, Vasilis J.; Ouzounis, Christos A.; Iliopoulos, Ioannis Crete (2012)
    • Conference Object  

      Fast and accurate protein secondary structure prediction using Clockwork Recurrent Neural Networks 

      Dimitriou, P.; Agathocleous, Michalis; Christodoulou, Chris; Promponas, Vasilis J. (Hellenic Society for Computational Biology and Bioinformatics, 2018)
    • Article  

      A fragment of the alarmin prothymosin α as a novel biomarker in murine models of bacteria-induced sepsis 

      Samara, Pinelopi; Miriagou, Vivì; Zachariadis, Michael; Mavrofrydi, Olga; Promponas, Vasilis J.; Dedos, Skarlatos G.; Papazafiri, Panagiota; Kalbacher, H.; Voelter, W.; Tsitsilonis, Ourania E. (2017)
      Sepsis is a life-threatening condition that requires urgent care. Thus, the identification of specific and sensitive biomarkers for its early diagnosis and management are of clinical importance. The alarmin prothymosin ...
    • Article  

      Functional characterisation of long intergenic non-coding RNAs through genetic interaction profiling in Saccharomyces cerevisiae 

      Kyriakou, DImitris; Stavrou, Emmanouil; Demosthenous, Panayiota; Angelidou, Georgia; San Luis, B. -J; Boone, Charles M.; Promponas, Vasilis J.; Kirmizis, Antonis (2016)
      Background: Transcriptome studies have revealed that many eukaryotic genomes are pervasively transcribed producing numerous long non-coding RNAs (lncRNAs). However, only a few lncRNAs have been ascribed a cellular role ...
    • Article  

      Guest editorial: Computational solutions to large-scale data management and analysis in translational and personalized medicine 

      Tsiknakis, Manolis N.; Promponas, Vasilis J.; Graf, N.; Wang, M. D.; Wong, S. T. C.; Bourbakis, Nikolaos G.; Pattichis, Constantinos S. (2014)
    • Conference Object  

      A Hybrid Machine Learning Algorithm for Complex Sequential Data Classification, Using a Novel Data Representation Method 

      Dionysiou, A.; Agathocleous, Michalis; Christodoulou, Chris; Promponas, Vasilis J. (University of Cyprus, 2018)
    • Article  

      Hypothesis, analysis and synthesis, it's all Greek to me 

      Iliopoulos, Ioannis; Ananiadou, Sophia; Danchin, Antoine; Ioannidis, John PA; Katsikis, Peter D; Ouzounis, Christos A; Promponas, Vasilis J. (2019)
      The linguistic foundations of science and technology include many terms that have been borrowed from ancient languages. In the case of terms with origins in the Greek language, the modern meaning can often differ significantly ...
    • Article  

      iLIR database: A web resource for LIR motif-containing proteins in eukaryotes 

      Jacomin, A. -C; Samavedam, S.; Promponas, Vasilis J.; Nezis, I. P. (2016)
      Atg8-family proteins are the best-studied proteins of the core autophagic machinery. They are essential for the elongation and closure of the phagophore into a proper autophagosome. Moreover, Atg8-family proteins are ...