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ORCIDStavros J. Hamodrakas
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- affiliation: National and Kapodistrian University of Athens, Greece
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Journal Articles
- 2021
[j33]Ahmed F. Roumia
, Konstantinos D. Tsirigos, Margarita C. Theodoropoulou, Ioannis A. Tamposis, Stavros J. Hamodrakas, Pantelis G. Bagos:
OMPdb: A Global Hub of Beta-Barrel Outer Membrane Proteins. Frontiers Bioinform. 1 (2021)- [j32]Panagiota I. Kontou, Athanasia Pavlopoulou, Niki L. Dimou, Margarita C. Theodoropoulou, Georgia Braliou, Georgios N. Tsaousis, Georgios A. Pavlopoulos, Stavros J. Hamodrakas, Pantelis G. Bagos:
The human GPCR signal transduction network. Netw. Model. Anal. Health Informatics Bioinform. 10(1): 3 (2021) - 2019
- [j31]Kostas A. Triantaphyllopoulos, Fotis A. Baltoumas, Stavros J. Hamodrakas:
Structural characterization and molecular dynamics simulations of the caprine and bovine solute carrier family 11 A1 (SLC11A1). J. Comput. Aided Mol. Des. 33(2): 265-285 (2019) - [j30]Fotis A. Baltoumas, Stavros J. Hamodrakas, Vassiliki A. Iconomidou:
The gram-negative outer membrane modeler: Automated building of lipopolysaccharide-rich bacterial outer membranes in four force fields. J. Comput. Chem. 40(18): 1727-1734 (2019) - 2016
- [j29]Nikolaos N. Louros, Fotis A. Baltoumas, Stavros J. Hamodrakas, Vassiliki A. Iconomidou:
A β-solenoid model of the Pmel17 repeat domain: insights to the formation of functional amyloid fibrils. J. Comput. Aided Mol. Des. 30(2): 153-164 (2016) - [j28]Fotis A. Baltoumas, Margarita C. Theodoropoulou, Stavros J. Hamodrakas:
Molecular dynamics simulations and structure-based network analysis reveal structural and functional aspects of G-protein coupled receptor dimer interactions. J. Comput. Aided Mol. Des. 30(6): 489-512 (2016) - 2013
- [j27]Foivos Gypas, Georgios N. Tsaousis, Stavros J. Hamodrakas:
mpMoRFsDB: a database of molecular recognition features in membrane proteins. Bioinform. 29(19): 2517-2518 (2013) - 2011
- [j26]Konstantinos D. Tsirigos, Pantelis G. Bagos, Stavros J. Hamodrakas:
OMPdb: a database of β-barrel outer membrane proteins from Gram-negative bacteria. Nucleic Acids Res. 39(Database-Issue): 324-331 (2011) - 2010
- [j25]Venkata P. Satagopam, Margarita C. Theodoropoulou, Christos K. Stampolakis, Georgios A. Pavlopoulos, Nikolaos Papandreou, Pantelis G. Bagos, Reinhard Schneider, Stavros J. Hamodrakas:
GPCRs, G-proteins, effectors and their interactions: human-gpDB, a database employing visualization tools and data integration techniques. Database J. Biol. Databases Curation 2010 (2010) - [j24]Georgios N. Tsaousis, Konstantinos D. Tsirigos, Xanthi D. Andrianou, Theodore D. Liakopoulos, Pantelis G. Bagos, Stavros J. Hamodrakas:
ExTopoDB: a database of experimentally derived topological models of transmembrane proteins. Bioinform. 26(19): 2490-2492 (2010) - 2009
- [j23]Pantelis G. Bagos, Georgios N. Tsaousis, Stavros J. Hamodrakas:
How Many 3D Structures Do We Need to Train a Predictor? Genom. Proteom. Bioinform. 7(3): 128-137 (2009) - 2008
- [j22]Margarita C. Theodoropoulou, Pantelis G. Bagos, Ioannis C. Spyropoulos, Stavros J. Hamodrakas:
gpDB: a database of GPCRs, G-proteins, effectors and their interactions. Bioinform. 24(12): 1471-1472 (2008) - [j21]Zoi I. Litou, Pantelis G. Bagos, Konstantinos D. Tsirigos, Theodore D. Liakopoulos, Stavros J. Hamodrakas:
Prediction of Cell Wall Sorting Signals in Gram-Positive bacteria with a Hidden Markov Model: Application to Complete genomes. J. Bioinform. Comput. Biol. 6(2): 387-401 (2008) - 2006
- [j20]Pantelis G. Bagos, Theodore D. Liakopoulos, Stavros J. Hamodrakas:
Algorithms for incorporating prior topological information in HMMs: application to transmembrane proteins. BMC Bioinform. 7: 189 (2006) - [j19]Evangelia Petsalaki, Pantelis G. Bagos, Zoi I. Litou, Stavros J. Hamodrakas:
PredSL: A Tool for the N-terminal Sequence-based Prediction of Protein Subcellular Localization. Genom. Proteom. Bioinform. 4(1): 48-55 (2006) - 2005
- [j18]Nikolaos G. Sgourakis, Pantelis G. Bagos, Stavros J. Hamodrakas:
Prediction of the coupling specificity of GPCRs to four families of G-proteins using hidden Markov models and artificial neural networks. Bioinform. 21(22): 4101-4106 (2005) - [j17]Pantelis G. Bagos, Theodore Liakopoulos, Stavros J. Hamodrakas:
Evaluation of methods for predicting the topology of beta-barrel outer membrane proteins and a consensus prediction method. BMC Bioinform. 6: 7 (2005) - [j16]Evangelia Petsalakis, Pantelis G. Bagos, Zoi I. Litou, Stavros J. Hamodrakas:
N-terminal sequence-based prediction of subcellular location. BMC Bioinform. 6(S-3) (2005) - [j15]Nikolaos G. Sgourakis, Pantelis G. Bagos, Panagiotis K. Papasaikas, Stavros J. Hamodrakas:
A method for the prediction of GPCRs coupling specificity to G-proteins using refined profile Hidden Markov Models. BMC Bioinform. 6: 104 (2005) - 2004
- [j14]Ioannis C. Spyropoulos, Theodore Liakopoulos, Pantelis G. Bagos, Stavros J. Hamodrakas:
TMRPres2D: high quality visual representation of transmembrane protein models. Bioinform. 20(17): 3258-3260 (2004) - [j13]Pantelis G. Bagos, Theodore Liakopoulos, Ioannis C. Spyropoulos, Stavros J. Hamodrakas:
A Hidden Markov Model method, capable of predicting and discriminating beta-barrel outer membrane proteins. BMC Bioinform. 5: 29 (2004) - [j12]Christiana K. Magkrioti, Ioannis C. Spyropoulos, Vassiliki A. Iconomidou, Judith H. Willis, Stavros J. Hamodrakas:
cuticleDB: a relational database of Arthropod cuticular proteins. BMC Bioinform. 5: 138 (2004) - [j11]Antigoni L. Elefsinioti, Pantelis G. Bagos, Ioannis C. Spyropoulos, Stavros J. Hamodrakas:
A database for G proteins and their interaction with GPCRs. BMC Bioinform. 5: 208 (2004) - [j10]Evanthia E. Pashou, Zoi I. Litou, Theodore Liakopoulos, Stavros J. Hamodrakas:
waveTM: Wavelet-based transmembrane segment prediction. Silico Biol. 4(2): 127-131 (2004) - [j9]Panagiotis K. Papasaikas, Pantelis G. Bagos, Zoi I. Litou, Vasilis J. Promponas, Stavros J. Hamodrakas:
PRED-GPCR: GPCR recognition and family classification server. Nucleic Acids Res. 32(Web-Server-Issue): 380-382 (2004) - [j8]Pantelis G. Bagos, Theodore Liakopoulos, Ioannis C. Spyropoulos, Stavros J. Hamodrakas:
PRED-TMBB: a web server for predicting the topology of ?barrel outer membrane proteins. Nucleic Acids Res. 32(Web-Server-Issue): 400-404 (2004) - 2003
- [j7]Ioannis Iliopoulos, Sophia Tsoka, Miguel A. Andrade, Anton J. Enright, Mark Carroll, Patrick Poullet, Vasilis J. Promponas, Theodore Liakopoulos, Giorgos Palaios, Claude Pasquier, Stavros J. Hamodrakas, Javier Tamames, Asutosh T. Yagnik, Anna Tramontano, Damien Devos, Christian Blaschke, Alfonso Valencia, David Brett, David M. A. Martin, Christophe Leroy, Isidore Rigoutsos, Chris Sander, Christos A. Ouzounis:
Evaluation of annotation strategies using an entire genome sequence. Bioinform. 19(6): 717-726 (2003) - [j6]Georgios S. Vernikos, Christos G. Gkogkas, Vasilis J. Promponas, Stavros J. Hamodrakas:
GeneViTo: Visualizing gene-product functional and structural features in genomic datasets. BMC Bioinform. 4: 53 (2003) - 2000
- [j5]Vasilis J. Promponas, Anton J. Enright, Sophia Tsoka, David P. Kreil, Christophe Leroy, Stavros J. Hamodrakas, Chris Sander, Christos A. Ouzounis:
CAST: an iterative algorithm for the complexity analysis of sequence tracts. Bioinform. 16(10): 915-922 (2000) - 1998
- [j4]C. M. Pasquier, Vasilis J. Promponas, N. J. Varvayannis, Stavros J. Hamodrakas:
A web server to locate periodicities in a sequence. Bioinform. 14(8): 749-750 (1998) - [j3]Vasilis J. Promponas, G. A. Palaios, C. M. Pasquier, J. S. Hamodrakas, Stavros J. Hamodrakas:
CoPreTHi: A Web tool which combines transmembrane protein segment prediction methods. Silico Biol. 1(3): 159-162 (1998) - 1995
- [j2]Anastassis Perrakis, C. Constantinides, A. Athanasiades, Stavros J. Hamodrakas:
PBM: a software package to create, display and manipulate interactively models of small molecules and proteins on IBM-compatible PCs. Comput. Appl. Biosci. 11(2): 141-145 (1995) - 1988
- [j1]Stavros J. Hamodrakas:
A protein secondary structure prediction scheme for the IBM PC and compatibles. Comput. Appl. Biosci. 4(4): 473-477 (1988)
Conference and Workshop Papers
- 2012
- [c2]Danai K. Fimereli, Konstantinos D. Tsirigos, Zoi I. Litou, Theodore D. Liakopoulos, Pantelis G. Bagos, Stavros J. Hamodrakas:
CW-PRED: A HMM-Based Method for the Classification of Cell Wall-Anchored Proteins of Gram-Positive Bacteria. SETN 2012: 285-290 - 2004
- [c1]Pantelis G. Bagos, Theodore Liakopoulos, Stavros J. Hamodrakas:
Faster Gradient Descent Training of Hidden Markov Models, Using Individual Learning Rate Adaptation. ICGI 2004: 40-52
Coauthor Index
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