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ORCIDSophia Tsoka
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2020 – today
- 2024
[j23]Yutong Li
, Jonathan Cardoso-Silva, John M. Kelly, Michael J. Delves, Nicholas Furnham, Lazaros G. Papageorgiou, Sophia Tsoka:
Optimisation-based modelling for explainable lead discovery in malaria. Artif. Intell. Medicine 147: 102700 (2024)- 2023
- [j22]E. Amiri Souri, A. Chenoweth, S. N. Karagiannis, Sophia Tsoka:
Drug repurposing and prediction of multiple interaction types via graph embedding. BMC Bioinform. 24(1): 202 (2023) - [i2]Pedro Henrique da Costa Avelar, Min Wu, Sophia Tsoka:
Incorporating Prior Knowledge in Deep Learning Models via Pathway Activity Autoencoders. CoRR abs/2306.05813 (2023) - 2022
- [j21]E. Amiri Souri, Roman Laddach, S. N. Karagiannis, Lazaros G. Papageorgiou, Sophia Tsoka:
Novel drug-target interactions via link prediction and network embedding. BMC Bioinform. 23(1): 121 (2022) - [c5]Yutong Li, Xiaorui Xu, Sophia Tsoka:
A Matrix Factorization-Based Drug-Virus Link Prediction Method for SARS-CoV-2 Drug Prioritization. LOD (1) 2022: 35-47 - [c4]Pedro Henrique da Costa Avelar, Roman Laddach, Sophia Karagiannis, Min Wu, Sophia Tsoka:
Multi-omic Data Integration and Feature Selection for Survival-Based Patient Stratification via Supervised Concrete Autoencoders. LOD (2) 2022: 47-61 - [i1]Pedro Henrique da Costa Avelar, Roman Laddach, Sophia Karagiannis, Min Wu, Sophia Tsoka:
Multi-Omic Data Integration and Feature Selection for Survival-based Patient Stratification via Supervised Concrete Autoencoders. CoRR abs/2206.10699 (2022) - 2020
- [c3]Yongnan Chen, Konstantinos Theofilatos, Lazaros G. Papageorgiou, Sophia Tsoka:
Identification of Important Biological Pathways for Ischemic Stroke Prediction through a Mathematical Programming Optimisation Model-DIGS. ICBBT 2020: 25-31
2010 – 2019
- 2019
- [j20]Jonathan Cardoso-Silva, Lazaros G. Papageorgiou, Sophia Tsoka:
Network-based piecewise linear regression for QSAR modelling. J. Comput. Aided Mol. Des. 33(9): 831-844 (2019) - 2018
- [j19]Samuel R. Neaves, Sophia Tsoka, Louise A. C. Millard:
Reactome Pengine: a web-logic API to the Homo sapiens reactome. Bioinform. 34(16): 2856-2858 (2018) - 2017
- [j18]Lingjian Yang, Songsong Liu, Sophia Tsoka, Lazaros G. Papageorgiou:
A regression tree approach using mathematical programming. Expert Syst. Appl. 78: 347-357 (2017) - 2016
- [j17]Lingjian Yang, Jonathan Cardoso-Silva, Lazaros G. Papageorgiou, Sophia Tsoka:
Community Structure Detection for Directed Networks through Modularity Optimisation. Algorithms 9(4): 73 (2016) - [j16]Aristotelis Kittas, Laura Bennett, Henning Hermjakob, Sophia Tsoka:
Organizational principles of the Reactome human BioPAX model using graph theory methods. J. Complex Networks 4(4): 604-615 (2016) - [j15]Lingjian Yang, Songsong Liu, Sophia Tsoka, Lazaros G. Papageorgiou:
Mathematical programming for piecewise linear regression analysis. Expert Syst. Appl. 44: 156-167 (2016) - 2015
- [j14]Aristotelis Kittas, Amélie Barozet, Jekaterina Sereshti, Niels Grabe, Sophia Tsoka:
CytoASP: a Cytoscape app for qualitative consistency reasoning, prediction and repair in biological networks. BMC Syst. Biol. 9: 34 (2015) - [j13]Lingjian Yang, Songsong Liu, Sophia Tsoka, Lazaros G. Papageorgiou:
Sample re-weighting hyper box classifier for multi-class data classification. Comput. Ind. Eng. 85: 44-56 (2015) - [j12]Fei Gao, Katarzyna Musial, Colin Cooper, Sophia Tsoka:
Link Prediction Methods and Their Accuracy for Different Social Networks and Network Metrics. Sci. Program. 2015: 172879:1-172879:13 (2015) - [c2]Samuel R. Neaves, Louise A. C. Millard, Sophia Tsoka:
Using ILP to Identify Pathway Activation Patterns in Systems Biology. ILP 2015: 137-151 - 2014
- [j11]Lingjian Yang, Chrysanthi Ainali, Sophia Tsoka, Lazaros G. Papageorgiou:
Pathway activity inference for multiclass disease classification through a mathematical programming optimisation framework. BMC Bioinform. 15: 390 (2014) - 2012
- [j10]Laura Bennett, Songsong Liu, Lazaros G. Papageorgiou, Sophia Tsoka:
Detection of Disjoint and Overlapping Modules in Weighted Complex Networks. Adv. Complex Syst. 15(5) (2012) - [c1]Laura Bennett, Artem Lysenko, Lazaros G. Papageorgiou, Martin Urban, Kim E. Hammond-Kosack, Christopher J. Rawlings, Mansoor A. S. Saqi, Sophia Tsoka:
Detection of Multi-clustered Genes and Community Structure for the Plant Pathogenic Fungus Fusarium graminearum. CMSB 2012: 69-86 - 2010
- [j9]Gang Xu, Laura Bennett, Lazaros G. Papageorgiou, Sophia Tsoka:
Module detection in complex networks using integer optimisation. Algorithms Mol. Biol. 5: 36 (2010) - [j8]Chrysa Pantzartzi, Elena Drosopoulou, Minas Yiangou, Ignat Drozdov, Sophia Tsoka, Christos A. Ouzounis, Zacharias G. Scouras:
Promoter Complexity and Tissue-Specific Expression of Stress Response Components in Mytilus galloprovincialis, a Sessile Marine Invertebrate Species. PLoS Comput. Biol. 6(7) (2010) - [j7]Najl V. Valeyev, Christian Hundhausen, Yoshinori Umezawa, Nikolai V. Kotov, Gareth Williams, Alex Clop, Crysanthi Ainali, Christos A. Ouzounis, Sophia Tsoka, Frank O. Nestle:
A Systems Model for Immune Cell Interactions Unravels the Mechanism of Inflammation in Human Skin. PLoS Comput. Biol. 6(12) (2010)
2000 – 2009
- 2009
- [j6]Shiri Freilich, Leon Goldovsky, Assaf Gottlieb, Eric Blanc, Sophia Tsoka, Christos A. Ouzounis:
Stratification of co-evolving genomic groups using ranked phylogenetic profiles. BMC Bioinform. 10: 355 (2009) - 2007
- [j5]Sophia Tsoka:
Computational methodologies for genome evolution and functional association. Comput. Chem. Eng. 31(8): 943-949 (2007) - 2005
- [j4]Leon Goldovsky, Paul J. Janssen, Dag G. Ahrén, Benjamin Audit, Ildefonso Cases, Nikos Darzentas, Anton J. Enright, Núria López-Bigas, José M. Peregrín-Alvarez, Mike Smith, Sophia Tsoka, Victor Kunin, Christos A. Ouzounis:
CoGenT++: an extensive and extensible data environment for computational genomics. Bioinform. 21(19): 3806-3810 (2005) - 2003
- [j3]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) - 2002
- [j2]Walter R. Gilks, Benjamin Audit, Daniela De Angelis, Sophia Tsoka, Christos A. Ouzounis:
Modeling the percolation of annotation errors in a database of protein sequences. Bioinform. 18(12): 1641-1649 (2002) - 2000
- [j1]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)
Coauthor Index
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