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Scientific Publications

 
Sourav S BHOWMICK

TENET: A Machine Learning-based System for Target Characterization in Signaling Networks. Huey-Eng Chua, Sourav S Bhowmick, Lisa Tucker-Kellogg, C Forbes Dewey, Jr. In Proceedings of 16th IEEE International Conference on Data Mining (IEEE ICDM 2016), IEEE CS, Barcelona, Spain, December 2016.​ [PDF]​

TAPESTRY: Network-centric Target Prioritization in Disease-related Signaling Networks. Huey-Eng Chua, Sourav S Bhowmick, Zheng Jie, L Tucker-Kellogg. In Proceedings of 7th ACM Conference on Bioinformatics, Computational Biology and Health Informatics (ACM BCB 2016), ACM Press, Seattle, USA, October 2016.​​ [PDF​]

TENET: Topological Feature-based Target Characterization in Signaling Networks Huey Eng Chua, Sourav S Bhowmick, Lisa Tucker-Kellogg, C F Dewey,  Jr. Bioinformatics, 31(20), Oxford Univ Press, Oct 2015. [PD​F​]

Computational Cell Fate Modelling for Discovery of Rewiring in Apoptotic Network for Enhanced Cancer Drug Sensitivity. Shital K Mishra, Sourav S Bhowmick, Huey Eng Chua, Fan Zhang, Jie Zheng. BMC Systems Biology, 9:S4, Biomedcentral, January 2015. [PDF]

Conformity-aware Inuence Maximization in Online Social Networks. Hui Li, Sourav S Bhowmick, Aixin Sun, J Cui. The VLDB Journal, 24(1), Springer-Verlag, January 2015. [PDF​]

DiffNet: Automatic Differential Functional Summarization of dE-MAP Networks. Boon-Siew Seah, Sourav S Bhowmick, C F Dewey, Jr. Methods, 69, Elsevier Science, October 2014 (Invited paper). [PDF]

DualAligner: A Dual Alignment-based Strategy to Align Protein Interaction Networks. Boon-Siew Seah, Sourav S Bhowmick, C F Dewey, Jr. Bioinformatics, 30(18), Oxford Univ Press, September 2014. [PDF​]

One Feature Doesnt Fit All: Characterizing Topological Features of Targets in Signaling Networks. Huey-Eng Chua, Sourav S Bhowmick, L Tucker-Kellogg. In Proceedings of 5th ACM Conference on Bioinformatics, Computational Biology and Health Informatics (ACM BCB 2014), ACM Press, Newport Beach, California, USA, Sept 2014. [PDF]

In Search of Infuential Event Organizers in Online Social Networks. Kaiyu Feng, Gao Cong, Sourav S Bhowmick, Shuai Ma. In Proceedings of 40th ACM SIGMOD International Conference on Management of Data (ACM SIGMOD 2014), ACM Press, Snowbird, Utah, USA, 2014 [PDF]

Bhowmick, Sourav S, and Huey-Eng Chua. 2014. “INGOT: Towards Network-Driven in Silico Combination Therapy.” 2014 International Conference on Big Data and Smart Computing (BIGCOMP),  January. IEEE, 34–39 (Invited paper). [PDF].

Li, Hui, Sourav S Bhowmick, and Aixin Sun. 2013. “CINEMA : Conformity-Aware Greedy Algorithm for Influence Maximization in Online Social Networks.” Proceedings of the 16th International Conference on Extending Database Technology Pages 323-334 [PDF].

Chua, Huey-Eng, Sourav S. Bhowmick, Lisa Tucker-Kellogg, Qing Zhao, C. Forbes Dewey, and Hanry Yu. 2012. “In Silico Identification of endo16 Regulators in the Sea Urchin Endomesoderm Gene Regulatory Network.” Proceedings of the 2nd ACM SIGHIT Symposium on International Health Informatics - IHI ’12. New York, New York, USA: ACM Press, 131. [PDF].

Huey Eng Chua, Sourav S. Bhowmick, Lisa Tucker-Kellogg, and C. Forbes Dewey, Jr. 2012. "STEROID: in silico heuristic target combination identification for disease-related signaling networks". In Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine (BCB '12). ACM, New York, NY, USA, 4-11. [PDF].

Seah, Boon-Siew, Sourav S Bhowmick, and C Forbes Dewey. 2012. “FACETS: Multi-Faceted Functional Decomposition of Protein Interaction Networks.” Bioinformatics (Oxford, England) 28 (20): 2624–31. [PDF].

Seah, Boon-Siew, Sourav S Bhowmick, C Forbes Dewey, and Hanry Yu. 2012. “FUSE: A Profit Maximization Approach for Functional Summarization of Biological Networks.” BMC Bioinformatics 13 Suppl 3 (Suppl 3). BioMed Central Ltd: S10. [PDF].

Seah, Sourav S. Bhowmick, Boon-siew, C F Dewey. 2012. “FUSE : A System for Data-Driven Multi-Level Functional Summarization of Protein Interaction Networks.” International Health Informatics Symposium (2nd : 2012 : Miami, USA) [PDF].

Chua, Huey-eng, Yingqi Wang, Sourav S. Bhowmick, C F Dewey. 2012. “PANI : An Interactive Data-Driven Tool for Target Prioritization in Signaling Networks.” Proceedings of the 2nd ACM SIGHIT International Health Informatics Symposium, Publisher: ACM, pp.851-854. [PDF].

Hui Li, Sourav S. Bhowmick, and Aixin Sun. 2011. "CASINO: towards conformity-aware social influence analysis in online social networks." In Proceedings of the 20th ACM international conference on Information and knowledge management (CIKM '11), Bettina Berendt, Arjen de Vries, Wenfei Fan, Craig Macdonald, Iadh Ounis, and Ian Ruthven (Eds.). ACM, New York, NY, USA, 1007-1012. [PDF].

Boon-Siew Seah, Sourav S. Bhowmick, C. F. Dewey, Jr, and Hanry Yu. 2011. "Fuse: towards multi-level functional summarization of protein interaction networks." In Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine (BCB '11). ACM, New York, NY, USA, 2-11. [PDF].

Huey-Eng Chua, Qing Zhao, Sourav S. Bhowmick, C. F. Dewey, Jr, Lisa Tucker-Kellogg, and Hanry Yu. 2011. "Pani: a novel algorithm for fast discovery of putative target nodes in signaling networks." In Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine (BCB '11). ACM, New York, NY, USA, 284-288. [PDF].​​


Siew Ann CHEONG

B. K. Teh, Y. W. Goo, T. W. Lian, W. G. Ong, W. T. Choi, M. Damodaran, and S. A. Cheong, "The Chinese Correction of February 2007: How financial hierarchies change in a market crash", Physica A, vol. 424, pp. 225-241, Apr 2015 [Link​]

J. N. Leaw, R. P. Ang, V. S. Huan, W. T. Chan, S. A. Cheong, "Re-examining of Moffitt’s theory of delinquency through agent based modeling", PLoS ONE, vol. 10, no. 6, e0126752, 10 Jun 2015. [Link​]

B. K. Teh and S. A. Cheong, "Cluster fusion-fission dynamics in the Singapore stock exchange", European Physical Journal B, vol. 88, no. 10, 263, 19 Oct 2015.​ [Link]

A. Nanetti, A. Cattaneo, S. A. Cheong, and C.-Y. Lin, "Maps as knowledge aggregators: from Renaissance Italy Fra Mauro to web search engines", The Cartographic Journal, vol. 52, no. 2, 159-167, May 2015.​ [ Link ]

A. Nanetti and S. A. Cheong, "The world as seen from Venice (1205-1533) as a case study of scalable web-based automatic narratives for interactive global histories", Asian Review of World Histories, vol. 4, no. 1, pp. 3-34, January 2016. [ Link ]

S. A. Cheong, A. Nanetti, and M. Filippov, "Digital maps and automatic narratives for interactive global histories", Asian Review of World Histories, vol. 4, no. 1, pp. 83-123, January 2016. [ Link ]

A. Nanetti, C.-Y. Lin, and S. A. Cheong, "Provenance and validation from the humanities to automatic acquisition of semantic knowledge and machine reading for news and historical sources indexing/summary", Asian Review of World Histories, vol. 4, no. 1, pp. 125-132, January 2016. [ Link ]

Cheong, Siew Ann, Teck Liang Tan, Chien-Chih Chen, Wu-Lung Chang, Zheng Liu, Lock Yue Chew, Peter M A Sloot, and Neil F Johnson. 2014. “Short-Term Forecasting of Taiwanese Earthquakes Using a Universal Model of Fusion-Fission Processes.” Scientific Reports 4 (January): 3624. [PDF].

Zhou, J., G. Xiao, S. A. Cheong, X. Fu, L. Wong, S. Ma, and T. H. Cheng. 2012. “Epidemic Reemergence in Adaptive Complex Networks.” Physical Review E 85 (3): 036107. [PDF].​

Wong, Jian Cheng, Heng Lian, and Siew Ann Cheong. 2009. “Detecting Macroeconomic Phases in the Dow Jones Industrial Average Time Series.” Physica A: Statistical Mechanics and Its Applications 388 (21). Elsevier B.V. 4635–45. [PDF].

Lai, S.K., Yu-Ting Lin, P.J. Hsu, and S.A. Cheong. 2011. “Dynamical Study of Metallic Clusters Using the Statistical Method of Time Series Clustering.” Computer Physics Communications 182 (4): 1013–26. [PDF].
 
Zhang, Yiting, Gladys Hui Ting Lee, Jian Cheng Wong, Jun Liang Kok, Manamohan Prusty, and Siew Ann Cheong. 2011. “Will the US Economy Recover in 2010? A Minimal Spanning Tree Study.” Physica A: Statistical Mechanics and Its Applications 390 (11): 2020–50. [PDF​].

Hadidjojo, Jeremy, and Siew Ann Cheong. 2011. “Equal Graph Partitioning on Estimated Infection Network as an Effective Epidemic Mitigation Measure.” PloS One 6 (7): e22124. [PDF].​

Lye, Ribin, James Peng Lung Tan, and Siew Ann Cheong. 2012. “Understanding Agent-Based Models of Financial Markets: A Bottom–up Approach Based on Order Parameters and Phase Diagrams.” Physica A: Statistical Mechanics and Its Applications 391 (22): 5521–31. [PDF].

Chong, You Quan, Bin Wang, Gladys Li Yue Tan, and Siew Ann Cheong. 2014. “Diversified Firms on Dynamical Supply Chain Cope with Financial Crisis Better.” International Journal of Production Economics 150 (April): 239–45. [PDF].

Tan, James Peng Lung, and Siew Ann Cheong. 2014. “Critical Slowing down Associated with Regime Shifts in the US Housing Market.” The European Physical Journal B 87 (2): 38. [PDF].
 
Viswanathan, Vaisagh, Chong Eu Lee, Michael Harold Lees, Siew Ann Cheong, and Peter M. A. Sloot. 2014. “Quantitative Comparison between Crowd Models for Evacuation Planning and Evaluation.” The European Physical Journal B 87 (2): 27. [PDF].


Lock Yue ​CHEW
 
Chew, Lock Yue. 2012. “Deterministic Smoluchowski-Feynman Ratchets Driven by Chaotic Noise.” Physical Review E 85 (1): 016212. [PDF].
 
Chung, N N, L Y Chew, and C H Lai. 2013. “Influence of Network Structure on Cooperative Dynamics in Coupled Socio-Ecological Systems” EPL (Europhysics Letters) 104 (2): 28003. [PDF].​
 
Chung, N N, L Y Chew, and C H Lai. 2013. “Spectral Analysis on Explosive Percolation” EPL (Europhysics Letters) 101 (2): 66003. [PDF].

Chung, N N, L Y Chew, J Zhou, and C H Lai. 2012. “Impact of Edge Removal on the Centrality Betweenness of the Best Spreaders” EPL (Europhysics Letters) 98 (2): 58004. [
PDF].​
 
Zhao, Li Na, Yuguang Mu, and Lock Yue Chew. 2013. “Heme Prevents Amyloid Beta Peptide Aggregation through Hydrophobic Interaction Based on Molecular Dynamics Simulation.” Physical Chemistry Chemical Physics : PCCP 15 (33): 14098–106. [PDF].

 
Georgios CHRISTOPOULOS
 
Christopoulos, George, and Ying-yi Hong. 2013. “Turning Two Uninvited Guests Into Prominent Speakers: Toward a Dynamic Culture Neuroscience.” Psychological Inquiry 24 (1): 20–25 [PDF].
  
Christopoulos GI, Tobler PN, Bossaerts P, Dolan RK, Schultz W. 2010. "Neural correlates of value, risk and risk aversion contributing to decision making under risk." Journal of Neuroscience, 29(40), 12574-12583 [PDF].

Justin DAUWELS

Nishant Sinha, Justin Dauwels, Marcus Kaiser, Sydney Cash, M Brandon Westover, Yujiang Wang, Peter Neal Taylor. “Predicting neurosurgical outcomes in focal epilepsy patients using computational modelling". Accepted in Brain (IF: 10.1), Manuscript ID: BRAIN-2016-00662.

Peter Neal Taylor, Jijju Thomas, Nishant Sinha, Justin Dauwels, Marcus Kaiser, Thomas Thesen and Justin Ruths. “Optimal control based seizure abatement using patient derived connectivity", Frontiers in Neuroscience (IF: 3.398), volume 9, 2015. doi: 10.3389/fnins.
 
Helena GAO, H. H.

Gao, H. H. & Holland, J. H. 2013. "Language Niche." In F. Shi and G. Peng (Eds.), Eastward Flows the Great River – Essays on Contemporary Linguistics and Language Studies. Hong Kong: City University of Hong Kong Press [PDF].
  
Gao, H. H., & Holland, H. J. 2008. "Agent-Based Models of Levels of Consciousness." SFI Working Papers. DOI: SFI-WP 08-12-048, Santa Fe Institute. U.S.A. [PDF].
 

Jing HAN
 
Han, J., Li, M., Guo, L. 2006. "Soft Control on Collective Behavior of a Group of Autonomous Agents by a Shill Agent." Journal of Systems Science and Complexity, 2006(19):54-62. [PDF].
 
Han, J. 2005. "Local and global evaluation functions for computational evolution." Complex Systems, 15(4), 307-348. [PDF].
 
Han, Jing, and Lin Wang. 2013. “Nondestructive Intervention to Multi-Agent Systems through an Intelligent Agent.” PloS One 8 (5): e61542. [PDF].
 
Han Jing , Jiming Liu , Cai Qingsheng. 1999. “From Alife Agents to a Kingdom of N Queens”, in Jiming Liu and Ning Zhong (Eds.), Intelligent Agent Technology: Systems, Methodologies, and Tools, page 110-120, The World Scientific Publishing Co. Pte, Ltd., Nov. 1999. [PDF].​

Wang, Xin, Jing Han, and Huawei Han. 2011. “Special Agents Can Promote Cooperation in the Population.” PloS One 6 (12): e29182. [PDF].
 
Liu, Jiming, Han Jing, and Y.Y. Tang. 2002. “Multi-Agent Oriented Constraint Satisfaction.” Artificial Intelligence 136 (1): 101–44. [PDF].


J Stephen LANSING
 
J Stephen Lansing, (with E. G. Guillot, M. K. Tumonggor, H. Sudoyo, and M. P. Cox). 2013. “Climate Change Influenced Female Population Sizes through Time across the Indonesian Archipelago “ Human Biology, 85(1-3):135-52 [PDF].

Tumonggor, Meryanne K, Tatiana M Karafet, Brian Hallmark, J Stephen Lansing, Herawati Sudoyo, Michael F Hammer, and Murray P Cox. 2013. “The Indonesian Archipelago: An Ancient Genetic Highway Linking Asia and the Pacific.” Journal of Human Genetics 58 (3). Nature Publishing Group: 165–73. [PDF].

Tumonggor, Meryanne K, Tatiana M Karafet, Sean Downey, J Stephen Lansing, Peter Norquest, Herawati Sudoyo, Michael F Hammer, and Murray P Cox. 2014. “Isolation, Contact and Social Behavior Shaped Genetic Diversity in West Timor.” Journal of Human Genetics 59 (9). Nature Publishing Group: 494–503. [PDF].
 
Cox, Murray P, Michael G Nelson, Meryanne K Tumonggor, J Stephen Lansing, François-X Ricaut, and Herawati Sudoyo. 2012. “A Small Cohort of Island Southeast Asian Women Founded Madagascar.” Proceedings. Biological Sciences / The Royal Society 279 (1739): 2761–68. [PDF].
 
Karafet, Tatiana M, Brian Hallmark, Murray P Cox, Herawati Sudoyo, Sean Downey, J Stephen Lansing, and Michael F Hammer. 2010. “Major East-West Division Underlies Y Chromosome Stratification across Indonesia.” Molecular Biology and Evolution 27 (8): 1833–44. [PDF].​


Julien LESCAR 

Qian X, Hamid FM, El Sahili A, Darwis DA, Wong YH, Bhushan S, Makeyev EV, Lescar J.
J Biol Chem. 2016 Apr 22;291(17):9295-309. doi: 10.1074/jbc.M115.685933. Epub 2016 Feb 23.PMID:26907693 [Link]​

Zhao Y, Soh TS, Lim SP, Chung KY, Swaminathan K, Vasudevan SG, Shi PY, Lescar J, Luo D.

Proc Natl Acad Sci U S A. 2015 Dec 1;112(48):14834-9. doi: 10.1073/pnas.1514978112. Epub 2015 Nov 17.PMID:26578813 [Link]​

Luo D, Vasudevan SG, Lescar J. Antiviral Res. 2015 Jun;118:148-58. doi: 10.1016/j.antiviral.2015.03.014. Epub 2015 Apr 2. Review. PMID:25842996 [Link]​


Christopher MONTEROLA 

J Pang and C Monterola Dendritic growth model of multilevel marketing Communications in Nonlinear Science and Numerical Simulation, accepted June 2016 keywords: dendritic networks, multilevel marketing, balancing factor, Pareto principle

N Hu, EF Legara, GG Hung, KK Lee, and C Monterola Impacts of land use and amenities on public transport use, urban planning and design Land Use Policy 57, pp. 356–367, 2016 
keywords: land-use, transport, urban planning, urban design, LUTM

B Yang, X Xinhua, ZF Pang, C Monterola Cluster Statistics and Quasisoliton Dynamics in Microscopic Optimal Velocity Models Physical Review E 93: 042212, 2016
keywords: optimal velocity model, traffic, quasi-soliton dynamics

HY Xu, G  Li, EF Legara, SH  Kuo, D Zhao and C Monterola Generalized cross entropy method for estimating joint distribution from incomplete information Physica453  Pages 162–172,  July 2016
keywords: Maximum entropy, Minimum discrimination information, Joint distribution, KL

C Monterola, EF Legara, P Di, KK Lee, GG Hung Non-invasive procedure to probe the route choices of commuters in rail transit systems Proceedings of ICCS accepted: March 2016

Yang Bo, Verma A , Cheah L , Monterola C (2015) “Self-organized traffic flow at the lightless intersection: algorithms, policies and simulations of the environmental impact.Clean Technologies and Environmental Policy pp1-13 [PDF]​

Andrea NANETTI 

Nanetti, Andrea, Siew Ann Cheong, and Mikhail Filippov. 2013. “Interactive Global Histories: For a New Information Environment to Increase the Understanding of Historical Processes.” 2013 International Conference on Culture and Computing 2013 (September). IEEE: 104–10. [PDF].

 
Lin QIU 
 
Chiu, C.-Y. and Qiu, L. 2014. "Communication and culture: A complexity theory approach." Asian Journal of Social Psychology, 17: 108–111. [PDF].

 
Justin RUTHS 
 
Ruths, Justin, Peter Neal, and Taylor Justin. 2010. “Optimal Control of an Epileptic Neural Population Model.” Cortex 2 (C5), C8. [PDF].​

Peter M A SLOOT 

 
Rick Quax; Omri Har-shemesh and P.M.A. Sloot: Quantifying Synergistic Information Using Intermediate Stochastic Variables​, Entropy 201719(2), 85; doi:10.3390/e19020085 [PDF​]

P.M.A. Sloot: Big Nonsense: the end of scientific thinking is near' in 43 Visions for Complexity, Ed. S. Thurner, World Scientific Publishing Co. Pte. Ltd, ISBN 978-981-3206-84-7, 2017.  

V.A. Traag; R. Quax and P.M.A. Sloot: Modelling the distance impedance of protest attendance, Physica A: Statistical Mechanics and its Applications, 2016.

O. Har Shemesh; R. Quax; A.G. Hoekstra and P.M.A. Sloot: Information geometric analysis of phase transitions in complex patterns: the case of the Gray-Scott reaction-diffusion model, Journal of Statistical Mechanics : Theory and Experiment, 2016.  [PDF​]​

C.S.L. de Graaf; B.D. Kandhai and P.M.A. Sloot: Efficient Estimation of Sensitivities for Counterparty Credit Risk with the Finite Difference Monte-Carlo Method, Journal of Computational Finance, 2016. [PDF]

C. Donald Combs; S.R. Barham and P.M.A. Sloot: Systems Biology and Health Systems Complexity in;, The Digital Patient: Advancing Healthcare, Research, and Education, 2016. 

O. Har-Shemesh; R. Quax; Borja Miñano; A.G. Hoekstra and P.M.A. Sloot: Nonparametric estimation of Fisher information from real data, Physical Review E, 2016. 

P.A.C. Duijn and P.M.A. Sloot. 2015 From Data to Disruption, Digital Investigation Vol 15 pg 39-45 [ Article ] 

S. Mei; N. Zarrabi; M.H. Lees and P.M.A. Sloot. 2015. Complex agent networks: An emerging approach for modeling complex systems, Applied Soft Computing/ Vol 37, Pg 311- 321 [ Article

A.L. Pyayt; D.V. Shevchenko; A.P. Kozionov; I.I. Mokhov; B. Lang; V.V. Krzhizhanovskaya and P.M.A. Sloot. 2015. Combining Data-driven Methods with Finite Element Analysis for Flood Early Warning Systems, in International Conference On Computational Science, ICCS 2015: Computational Science at the Gates of Nature, Elsevier [ PDF ]

​V.R. Melnikov; V.V. Krzhizhanovskaya; A.V. Boukhanovsky and P.M.A. Sloot. 2015 Data-driven modeling of transportation systems and traffic data analysis during a major power outage in the Netherlands, in 4th International Young Scientist Conference on Computational Science, Elsevier [ PDF ]

E. Merelli; M. Rucco; P.M.A. Sloot and L. Tesei: Topological Characterization of Complex Systems: Using Persistent Entropy, Entropy, 2015. [ PDF ]

S. Mei; B. Chen; Y. Zhu; M.H. Lees; A.V. Boukhanovsky and P.M.A. Sloot. 2015. Simulating city-level airborne infectious diseases, Computers, Environment and Urban Systems, 2015. [ PDF ]

V.V. Krzhizhanovskaya; A.V. Dukhanov; A. Bilyatdinova; A.V. Boukhanovsky and P.M.A. Sloot. 2015. Russian-Dutch double-degree Master’s programme in computational science in the age of global education, Journal of Computational Science [ PDF ] 

S. Koziel; L. Leifsson; M. Lees; V.V. Krzhizhanovskaya; J. Dongarra and P.M.A. Sloot. 2015 Computational Science at the Gates of Nature, preface for ICCS 2015, in International Conference On Computational Science, ICCS 2015: Computational Science at the Gates of Nature, Elsevier, [ PDF ]

V. Viswanathan; M.H. Lees and P.M.A. Sloot. 2015 The influence of memory on indoor environment exploration: A numerical study, Behavior Research Methods [ PDF ]

N. Melnikova; D. Jordan; V. Krzhizhanovskaya and P. Sloot. 2015 Numerical prediction of the IJkDijk trial embankment failure, Proceedings of the Institution of Civil Engineers. Geotechnical Engineering [ Article ]

A.V. Boukhanovsky; V.A Ilyin; V.V. Krzhizhanovskaya; G.A. Athanassoulis; A.A. Klimentov and P.M.A. Sloot. 2015 Young Researchers Advancing Computational Science: Perspectives of the Young Scientists Conference 2015, in 4th International Young Scientist Conference on Computational Science, Elsevier. [ PDF 

Wei Duan; Rick Quax; Michael Lees; Xiaogang Qiu and Peter M A Sloot 2014 Topology dependent epidemic spreading velocity in weighted networks, Journal of Statistical Mechanics: Theory and Experiment, vol. 2014, nr 12 pp.P12020.2014. [ Article ]

​​D. Abramson; M.H. Lees; V.V. Krzhizhanovskaya; J.J. Dongarra and P.M.A. Sloot. 2014. Proceedings of the International Conference on Computational Science, ICCS 2014, 2520 pages. 2014. ISSN 1877-0509.  ​​[ PDF ]

D. Abramson; M.H. Lees; V.V. Krzhizhanovskaya; J.J. Dongarra and P.M.A. Sloot. 2014. Big Data Meets Computational Science, Preface for ICCS 2014, Procedia Computer Science, (2014 International Conference on Computational Science) vol. 29, pp. 1 - 7. [ PDF ]

A. Bilyatdinova; A.V. Dukhanov; K.O. Bochenina; V.V. Krzhizhanovskaya; A.V. Boukhanovsky and P.M.A. Sloot 2014 Dutch-Russian Double Degree Master's Program Curricula in Computational Science and High Performance Computing, in Frontiers in Education Conference (FIE), IEEE [http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=7044195 ]

Q.-C. Bui; P.M.A. Sloot; E.M. van Mulligen and J.A. Kors. 2014 A novel feature-based approach to extract drug-drug interactions from biomedical text, Bioinformatics [ PDF ]

S.A. Cheong; T.L. Tan; C.-C. Chen; W.-L. Chang; Z. Liu; L.Y. Chew; P.M.A. Sloot and N.F. Johnson. 2014 Short-Term Forecasting of Taiwanese Earthquakes Using a Universal Model of Fusion-Fission Processes, Sci. Rep., vol. 4, pp. 3624+7. Nature Publishing Group/Macmillan [ Report ]

P.A.C. Duijn; V. Kashirin and P.M.A. Sloot: The Relative Ineffectiveness of Criminal Network Disruption, Sci. Rep., vol. 4, pp. 4238+15. Nature Publishing Group/Macmillan, 2014. ISSN 2045-2322. (DOI: 10.1038/srep04238) [ 18 ]

A.V. Dukhanov; V.V. Krzhizhanovskaya; A. Bilyatdinova; A.V. Boukhanovsky and P.M.A. Sloot: Double-degree Master's Program in Computational Science: Experiences of ITMO University and University of Amsterdam, Procedia Computer Science, (2014 International Conference on Computational Science) vol. 29, pp. 1433 - 1445. 2014. ISSN 1877-0509. (DOI: 10.1016/j.procs.2014.05.130) [ PDF ]

C.D. Erdbrink; V.V. Krzhizhanovskaya and P.M.A. Sloot: Reducing cross-flow vibrations of underflow gates: experiments and numerical studies, Journal of Fluids and Structures, 2014.  [ PDF ]

C.D. Erdbrink; V.V. Krzhizhanovskaya and P.M.A. Sloot. 2014. Evolutionary Design of Numerical Methods: Generating Finite Difference and Integration Schemes by Differential Evolution, IEEE Transactions on Evolutionary Computation [ PDF ]

N.B. Melnikova; D. Jordan; V.V. Krzhizhanovskaya and P.M.A. Sloot 2014 Slope Instability of the Earthen Levee in Boston, UK: Numerical Simulation and Sensor Data Analysis, Computers and Geotechnics, 2014. [ PDF ]

N.B. Melnikova; D. Jordan; V.V. Krzhizhanovskaya and P.M.A. Sloot: Experimental Collapse of the IJkDijk: Numerical Prediction of Failure Mode and Posterior Sensor Data Analysis, Canadian Geotechnical Journal, 2014. 

A.L. Pyayt; A.P. Kozionov; I.I. Mokhov; B. Lang; R.J. Meijer; V.V. Krzhizhanovskaya and P.M.A. Sloot 2014 Time-frequency Methods for Structural Health Monitoring, Sensors, vol. 14, nr 3 pp. 5147-5173. March 2014. ISSN 1424-8220. [ PDF​ ]

D. Roy; M.H. Lees; B. Palavalli; K. Pfeffer and P.M.A. Sloot 2014 The emergence of slums: A contemporary view on simulation models, Environmental Modelling & Software, vol. 59, nr 0 pp. 76-90.  

V. Viswanthan; C.E. Lee; M.H. Lees; S.A. Cheong and P.M.A. Sloot. 2014 Quantitative Comparison Between Crowd Models for Evacuation Planning and Evaluation, The European Physical Journal B. Condensed Matter Physics, vol. 87, nr 2 pp. 1-11. [ Article ]

V. Alexandrov; M. Lees; V. Krzhizhanovskaya; J. Dongarra and P.M.A. Sloot. 2013. Proceedings of the International Conference on Computational Science, ICCS 2013, 2650 pages. 2013. ISSN 1877-0509.  [ PDF ]

V. Alexandrov; M. Lees; V. Krzhizhanovskaya; J. Dongarra and P.M.A. Sloot: Computation at the Frontiers of Science, Preface for ICCS 2013, Procedia Computer Science, 2013. ISSN 1877-0509. [ PDF ]

I. Bartha; M. Assel; P.M.A. Sloot; M. Zazzi; C. Torti; E. Schülter; A. De Luca; A. Sönnerborg; A.B. Abecasis; K. van Laethem; A. Rosi; J. Svärd; R. Paredes; D.A. van de Vijver; A.-M. Vandamme and V. Müller. 2013 Superinfection with drug-resistant HIV is rare and does not contribute substantially to therapy failure in a large European cohort, BMC Infectious Diseases, vol. 13, 2013. [ Article ]

L.B. Carey; D. van Dijk; P. M.A. Sloot; J. A Kaandorp and E. Segal 2013 Promoter sequence determines the relationship between expression level and noise, Plos Biol., vol. 11, nr 4 pp. e1001528+15. 2013. (DOI: 10.1371/journal.pbio.1001528)

A. Czaplicka.; J.A. Hołyst and P.M.A. Sloot 2013 Noise enhances information transfer in hierarchical networks, Nature Scientific Reports, vol. 3 (DOI: 10.1038/srep01223)  [ Article ]

A. Czaplicka; J.A. Hołyst and P.M.A. Sloot. 2013 Stochastic resonance for information flows on hierarchical networks, The European Physical Journal - Special Topics, vol. 222, nr 6 pp. 1335-1345.  [ Article ]

L.J. Dijkstra; A.V. Yakushev; P.A.C. Duijn; A.V. Boukhanovsky and P.M.A. Sloot 2013 Inference of the Russian drug community from one of the largest social networks in the Russian Federation, Quality & Quantity, International Journal of Methodology, pp. 1-17. Springer Netherlands ISSN 0033-5177.  [ Article ]

Merelli, E.; Rucco, M.; Sloot, P.; Tesei, L. 2015 Topological Characterization of Complex Systems: Using Persistent Entropy. Entropy 17, 6872-6892. [PDF​]

Sloot, Peter M. A., George Kampis, and László Gulyás. 2013. “Advances in Dynamic Temporal Networks: Understanding the Temporal Dynamics of Complex Adaptive Networks.” The European Physical Journal Special Topics 222 (6): 1287–93. [PDF].

Sloot, Peter M.A., and Rick Quax. 2012. “Information Processing as a Paradigm to Model and Simulate Complex Systems.” Journal of Computational Science 3 (5): 247–49. [PDF].

Toth, Noemi, László Gulyás, Richard O. Legendi, Paul Duijn, Peter M. A. Sloot, and George Kampis. 2013. “The Importance of Centralities in Dark Network Value Chains.” The European Physical Journal Special Topics 222 (6): 1413–39. [PDF].

Duijn, Paul A C, Victor Kashirin, and Peter M A Sloot. 2014. “The Relative Ineffectiveness of Criminal Network Disruption.” Scientific Reports 4 (January): 4238. [PDF].
 
Mei, Shan, Yifan Zhu, Xiaogang Qiu, Xuan Zhou, Zhenghu Zu, A. V. Boukhanovsky, and P. M. A. Sloot. 2014. “Individual Decision Making Can Drive Epidemics: A Fuzzy Cognitive Map Study.” IEEE Transactions on Fuzzy Systems 22 (2): 264–73. [PDF].
 
Roy, Debraj, Michael Harold Lees, Bharath Palavalli, Karin Pfeffer, and Peter Sloot. 2014. “The Emergence of Slums: A Contemporary View on Simulation Models.” Environmental Modelling & Software 59 (2014). Elsevier Ltd: 76–90. [PDF].
 
Adamatzky, Andrew, Michael Lees, and Peter Sloot. 2013. “Bio-Development of Motorway Network in the Netherlands: A Slime Mould Approach.” Advances in Complex Systems 16 (02n03): 1250034. [PDF].

Czaplicka, Agnieszka, Janusz a Holyst, and Peter M A Sloot. 2013. “Noise Enhances Information Transfer in Hierarchical Networks.” Scientific Reports 3 (January): 1223. [PDF].

Quax, Rick, Andrea Apolloni, and Peter M. A. Sloot. 2013. “Towards Understanding the Behavior of Physical Systems Using Information Theory.” The European Physical Journal Special Topics 222 (6): 1389–1401. [PDF].
 
Quax, Rick, Drona Kandhai, and Peter M A Sloot. 2013. “Information Dissipation as an Early-Warning Signal for the Lehman Brothers Collapse in Financial Time Series.” Scientific Reports 3 (Idl): 1898. [PDF].
 
Zarrabi, Narges, Mattia C. F. Prosperi, Robbert G. Belleman, Simona Di Giambenedetto, Massimiliano Fabbiani, Andrea De Luca, and Peter M. A. Sloot. 2013. “Combining Social and Genetic Networks to Study HIV Transmission in Mixing Risk Groups.” The European Physical Journal Special Topics 222 (6): 1377–87. [PDF].
 
Mancini, Emiliano, Filippo Castiglione, Massimo Bernaschi, Andrea de Luca, and Peter M A Sloot. 2012. “HIV Reservoirs and Immune Surveillance Evasion Cause the Failure of Structured Treatment Interruptions: A Computational Study.” PloS One 7 (4): e36108. [PDF].
 
Mei, Shan, Rick Quax, David van de Vijver, Yifan Zhu, and P M A Sloot. 2011. “Increasing Risk Behaviour Can Outweigh the Benefits of Antiretroviral Drug Treatment on the HIV Incidence among Men-Having-Sex-with-Men in Amsterdam.” BMC Infectious Diseases 11 (1). BioMed Central Ltd: 118. [PDF].
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