Tsoka, Sophia: search on Z-Library

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1

DyCoNet: A Gephi Plugin for Community Detection in Dynamic Complex Networks

Kauffman, Julie, Kittas, Aristotelis, Bennett, Laura, Tsoka, Sophia, Ben-Jacob, Eshel

Journal:

Year:

2014

Language:

english

File:

PDF, 3.82 MB

english, 2014

2

Mathematical Programming for Piecewise Linear Regression Analysis

Yang, Lingjian, Liu, Songsong, Tsoka, Sophia, Papageorgiou, Lazaros G.

Journal:

Expert Systems with Applications

Year:

2015

Language:

english

File:

PDF, 7.35 MB

english, 2015

3

Automated metabolic reconstruction for Methanococcus jannaschii

Tsoka, Sophia, Simon, David, Ouzounis, Christos A.

Journal:

Year:

2004

Language:

english

File:

PDF, 2.09 MB

english, 2004

4

Network-Based Data Integration for Selecting Candidate Virulence Associated Proteins in the Cereal Infecting Fungus Fusarium graminearum

Lysenko, Artem, Urban, Martin, Bennett, Laura, Tsoka, Sophia, Janowska-Sejda, Elzbieta, Rawlings, Chris J., Hammond-Kosack, Kim E., Saqi, Mansoor, Lee, Yin-Won

Journal:

Year:

2013

Language:

english

File:

PDF, 595 KB

english, 2013

5

DETECTION OF DISJOINT AND OVERLAPPING MODULES IN WEIGHTED COMPLEX NETWORKS

BENNETT, LAURA, LIU, SONGSONG, PAPAGEORGIOU, LAZAROS G., TSOKA, SOPHIA

Journal:

Advances in Complex Systems

Year:

2012

Language:

english

File:

PDF, 508 KB

english, 2012

6

Pathway activity inference for multiclass disease classification through a mathematical programming optimisation framework

Yang, Lingjian, Ainali, Chrysanthi, Tsoka, Sophia, Papageorgiou, Lazaros G

Journal:

BMC Bioinformatics

Year:

2014

Language:

english

File:

PDF, 1.26 MB

english, 2014

7

Functional and Topological Properties in Hepatocellular Carcinoma Transcriptome

Drozdov, Ignat, Bornschein, Jan, Wex, Thomas, Valeyev, Najl V., Tsoka, Sophia, Malfertheiner, Peter, Hoshida, Yujin

Journal:

Year:

2012

Language:

english

File:

PDF, 548 KB

english, 2012

8

CytoASP: a Cytoscape app for qualitative consistency reasoning, prediction and repair in biological networks

Kittas, Aristotelis, Barozet, Amélie, Sereshti, Jekaterina, Grabe, Niels, Tsoka, Sophia

Journal:

BMC Systems Biology

Year:

2015

Language:

english

File:

PDF, 1.30 MB

english, 2015

9

Dissecting Leishmania infantum Energy Metabolism - A Systems Perspective

Subramanian, Abhishek, Jhawar, Jitesh, Sarkar, Ram Rup, Tsoka, Sophia

Journal:

Year:

2015

Language:

english

File:

PDF, 4.13 MB

english, 2015

10

Metabolic homeostasis is maintained in myocardial hibernation by adaptive changes in the transcriptome and proteome

Manuel Mayr, Dalit May, Oren Gordon, Basetti Madhu, Dan Gilon, Xiaoke Yin, Qiuru Xing, Ignat Drozdov, Chrysanthi Ainali, Sophia Tsoka, Qingbo Xu, John Griffiths, Anton Horrevoets, Eli Keshet

Journal:

Journal of Molecular and Cellular Cardiology

Year:

2011

Language:

english

File:

PDF, 1.08 MB

english, 2011

11

PHI-Nets: A Network Resource for Ascomycete Fungal Pathogens to Annotate and Identify Putative Virulence Interacting Proteins and siRNA Targets

Janowska-Sejda, Elzbieta I., Lysenko, Artem, Urban, Martin, Rawlings, Chris, Tsoka, Sophia, Hammond-Kosack, Kim E.

Journal:

Frontiers in Microbiology

Year:

2019

File:

PDF, 2.10 MB

2019

12

Functional Genomics Assistant (FUGA): a toolbox for the analysis of complex biological networks

Ignat Drozdov, Christos A Ouzounis, Ajay M Shah, Sophia Tsoka

Journal:

BMC Research Notes

Year:

2011

Language:

english

File:

PDF, 306 KB

english, 2011

13

Community Structure Detection for Overlapping Modules through Mathematical Programming in Protein Interaction Networks

Bennett, Laura, Kittas, Aristotelis, Liu, Songsong, Papageorgiou, Lazaros G., Tsoka, Sophia, Zhu, Dongxiao

Journal:

Year:

2014

Language:

english

File:

PDF, 1.61 MB

english, 2014

14

Detection of Composite Communities in Multiplex Biological Networks

Bennett, Laura, Kittas, Aristotelis, Muirhead, Gareth, Papageorgiou, Lazaros G., Tsoka, Sophia

Journal:

Scientific Reports

Year:

2015

Language:

english

File:

PDF, 1.99 MB

english, 2015

15

Selective Flocculation and Precipitation for the Improvement of Virus-Like Particle Recovery from Yeast Homogenate

Sophia Tsoka, Ohla C. Ciniawskyj, Owen R. T. Thomas, Nigel J. Titchener-Hooker, Michael Hoare

Journal:

Biotechnology Progress

Year:

2000

Language:

english

File:

PDF, 139 KB

english, 2000

16

A mathematical programming approach for sequential clustering of dynamic networks

Silva, Jonathan C., Bennett, Laura, Papageorgiou, Lazaros G., Tsoka, Sophia

Journal:

The European Physical Journal B / Condensed Matter and Complex Systems

Year:

2016

Language:

english

File:

PDF, 2.50 MB

english, 2016

17

MINLP Models for the Synthesis of Optimal Peptide Tags and Downstream Protein Processing

Evangelos Simeonidis, Jose M. Pinto, M. Elena Lienqueo, Sophia Tsoka, Lazaros G. Papageorgiou

Journal:

Biotechnology Progress

Year:

2005

Language:

english

File:

PDF, 257 KB

english, 2005

18

PHI-Nets: A Network Resource for Ascomycete Fungal Pathogens to Annotate and Identify Putative Virulence Interacting Proteins and siRNA Targets

Janowska-Sejda, Elzbieta I., Lysenko, Artem, Urban, Martin, Rawlings, Chris, Tsoka, Sophia, Hammond-Kosack, Kim E.

Journal:

Frontiers in Microbiology

Year:

2019

Language:

english

File:

PDF, 2.10 MB

english, 2019

19

Genome sequences and great expectations

Ioannis Iliopoulos, Sophia Tsoka, Miguel A Andrade, Paul Janssen…

Journal:

Year:

2001

Language:

english

File:

PDF, 76 KB

english, 2001

20

Promoter Complexity and Tissue-Specific Expression of Stress Response Components in Mytilus galloprovincialis, a Sessile Marine Invertebrate Species

Pantzartzi, Chrysa, Drosopoulou, Elena, Yiangou, Minas, Drozdov, Ignat, Tsoka, Sophia, Ouzounis, Christos A., Scouras, Zacharias G., Bourne, Philip E.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 478 KB

english, 2010

21

Computational methodologies for genome evolution and functional association

Journal:

Computers & Chemical Engineering

Year:

2007

Language:

english

File:

PDF, 629 KB

english, 2007

22

Stratification of co-evolving genomic groups using ranked phylogenetic profiles

Shiri Freilich, Leon Goldovsky, Assaf Gottlieb, Eric Blanc, Sophia Tsoka, Christos A Ouzounis

Journal:

BMC Bioinformatics

Year:

2009

Language:

english

File:

PDF, 670 KB

english, 2009

23

Prediction of protein interactions: metabolic enzymes are frequently involved in gene fusion

Tsoka, Sophia, Ouzounis, Christos A.

Journal:

Nature Genetics

Year:

2000

Language:

english

File:

PDF, 396 KB

english, 2000

24

A regression tree approach using mathematical programming

Yang, Lingjian, Liu, Songsong, Tsoka, Sophia, Papageorgiou, Lazaros G.

Journal:

Expert Systems with Applications

Year:

2017

Language:

english

File:

PDF, 1.92 MB

english, 2017

25

Link Prediction Methods and Their Accuracy for Different Social Networks and Network Metrics

Gao, Fei, Musial, Katarzyna, Cooper, Colin, Tsoka, Sophia

Journal:

Scientific Programming

Year:

2015

Language:

english

File:

PDF, 2.80 MB

english, 2015

26

Microbial and transcriptional differences elucidate atopic dermatitis heterogeneity across skin sites

Ottman, Noora, BarrientosâSomarribas, Mauricio, Fyhrquist, Nanna, Alexander, Helen, Wisgrill, Lukas, Olah, Peter, Tsoka, Sophia, Greco, Dario, LeviâSchaffer, Francesca, Soumelis, Vassili, SchrÃ¶de

Journal:

Year:

2020

File:

PDF, 17.46 MB

2020

27

Reproducibility in genome sequence annotation: the Plasmodium falciparum chromosome 2 case

Sophia Tsoka, Vasilis Promponas, Christos A. Ouzounis

Journal:

Year:

1999

Language:

english

File:

PDF, 107 KB

english, 1999

28

Mo1547 Racgap1 is Involved in Wnt-Dependent Signalling in Gastric Adenocarcinoma

Bornschein, Jan, Selgrad, Michael, Nielitz, Jessica, Drozdov, Ignat, Vergara, Hernando Martinez, Tsoka, Sophia, Kuester, Doerthe, Wex, Thomas, Malfertheiner, Peter

Journal:

Gastroenterology

Year:

2012

Language:

english

File:

PDF, 388 KB

english, 2012

29

Pathway-level disease data mining through hyper-box principles

Yang, Lingjian, Ainali, Chrysanthi, Kittas, Aristotelis, Nestle, Frank O., Papageorgiou, Lazaros G., Tsoka, Sophia

Journal:

Mathematical Biosciences

Year:

2015

Language:

english

File:

PDF, 1.35 MB

english, 2015

30

Protein coalitions in a core mammalian biochemical network linked by rapidly evolving proteins

Chrysanthi Ainali, Michelle Simon, Shiri Freilich, Octavio Espinosa, Lee Hazelwood, Sophia Tsoka, Christos A Ouzounis, John M Hancock

Journal:

BMC Evolutionary Biology

Year:

2011

Language:

english

File:

PDF, 1.64 MB

english, 2011

31

Sample re-weighting hyper box classifier for multi-class data classification

Yang, Lingjian, Liu, Songsong, Tsoka, Sophia, Papageorgiou, Lazaros G.

Journal:

Computers & Industrial Engineering

Year:

2015

Language:

english

File:

PDF, 2.39 MB

english, 2015

32

Genome-wide expression patterns in physiological cardiac hypertrophy

Ignat Drozdov, Sophia Tsoka, Christos A Ouzounis, Ajay M Shah

Journal:

Year:

2010

Language:

english

File:

PDF, 2.20 MB

english, 2010

33

A Systems Model for Immune Cell Interactions Unravels the Mechanism of Inflammation in Human Skin

Valeyev, Najl V., Hundhausen, Christian, Umezawa, Yoshinori, Kotov, Nikolay V., Williams, Gareth, Clop, Alex, Ainali, Crysanthi, Ouzounis, Christos, Tsoka, Sophia, Nestle, Frank O., Androulakis, Ioann

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 4.52 MB

english, 2010

34

Reactome Pengine: a web-logic API to the Homo sapiens reactome

Neaves, Samuel R, Tsoka, Sophia, Millard, Louise A C

Journal:

Year:

2018

Language:

english

File:

PDF, 415 KB

english, 2018

35

Community Structure Detection for Directed Networks through Modularity Optimisation

Yang, Lingjian, Silva, Jonathan, Papageorgiou, Lazaros, Tsoka, Sophia

Journal:

Year:

2016

Language:

english

File:

PDF, 259 KB

english, 2016

36

Percolation of annotation errors through hierarchically structured protein sequence databases

Walter R. Gilks, Benjamin Audit, Daniela de Angelis, Sophia Tsoka, Christos A. Ouzounis

Journal:

Mathematical Biosciences

Year:

2005

Language:

english

File:

PDF, 179 KB

english, 2005

37

Transcriptome classification reveals molecular subtypes in psoriasis

Ainali, Chrysanthi, Valeyev, Najl, Perera, Gayathri, Williams, Andrew, Gudjonsson, Johann E, Ouzounis, Christos A, Nestle, Frank O, Tsoka, Sophia

Journal:

Year:

2012

Language:

english

File:

PDF, 1.30 MB

english, 2012

38

Chondroitin Sulfate Proteoglycan 4 and Its Potential As an Antibody Immunotherapy Target across Different Tumor Types

Ilieva, Kristina M., Cheung, Anthony, Mele, Silvia, Chiaruttini, Giulia, Crescioli, Silvia, Griffin, Merope, Nakamura, Mano, Spicer, James F., Tsoka, Sophia, Lacy, Katie E., Tutt, Andrew N. J., Karagi

Journal:

Frontiers in Immunology

Year:

2018

Language:

english

File:

PDF, 1.78 MB

english, 2018

39

Robustness of the p53 network and biological hackers

Lewis Dartnell, Evangelos Simeonidis, Michael Hubank, Sophia Tsoka, I. David L. Bogle, Lazaros G. Papageorgiou

Journal:

Year:

2005

Language:

english

File:

PDF, 269 KB

english, 2005

40

Metabolic database systems for the analysis of genome-wide function

Sophia Tsoka, Christos A. Ouzounis

Journal:

Biotechnology and Bioengineering

Year:

2003

Language:

english

File:

PDF, 332 KB

english, 2003

41

Recent developments and future directions in computational genomics

Sophia Tsoka, Christos A Ouzounis

Journal:

Year:

2000

Language:

english

File:

PDF, 165 KB

english, 2000

42

Network-based piecewise linear regression for QSAR modelling

Cardoso-Silva, Jonathan, Papageorgiou, Lazaros G., Tsoka, Sophia

Journal:

Journal of Computer-Aided Molecular Design

Year:

2019

File:

PDF, 2.09 MB

2019

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