Publications

2017

John Justine Villar, 
Adrian Roy Valdez,
 David Setiadi, 
Béla Fiser, 
Béla
 Viskolcz, 
Imre G. Csizmadia
 and 
Anita Rágyanszki
Canadian Journal of Chemistry, 2017. DOI: 10.1139/cjc-2017-0124 (in press)

Jerome Cary Beltran, Catalina Montes, John Justine Villar and 
Adrian Roy Valdez
Philippine Science Letters 10(1)2017. pp. 50-57

Computational Modeling and Analysis of Backbone-Sidechain Interactions in Selected Amino Acid Diamide 5D Conformational Potential Energy Surfaces
John Justine Villar, 
Adrian Roy Valdez,
 David Setiadi, 
Béla Fiser, 
Béla
 Viskolcz, 
Imre G. Csizmadia
 and 
Anita Rágyanszki
Proc. 7th Visegrad Symposium on Structural Systems Biology (VSSSB 2017), 21-24 June 2017, Nove Hrady, Czech Republic

Dimension Reduction in Conformational Analysis: 
Mathematical Modeling of Amino Acid Diamide Potential Energy Surfaces
John Justine Villar, Anita Ragyánszki, Adrian Roy Valdez, David Setiadi, Belá Viskolcz and Imre G. Csizmadia
Proc. Kemometria és Molekulamodellezés Munkabizottsága-QSAR és Modellezési Szakcsoportja Szimposia (KeMoMo-QSAR 2017), 1-2 June 2017, Szeged, Hungary

Exploring Nonlinear Temporal Dynamics of Photocatalytic Hydrogen Production using Agent-Based Simulations
Roy Vincent Canseco, Vena Pearl Bongolan
Proc. 2017 Mathematical Society of the Philippines Annual Convention, 
29-31 May 2017,
 Legazpi City, Philippines

On Extending the Original Minority Game with Tokens and Non-Binary Actions

Catalina Montes, 
Adrian Roy Valdez
Proc. 2017 Mathematical Society of the Philippines Annual Convention, 
29-31 May 2017,
 Legazpi City, Philippines

Resilient Sensor Placement in Water Distribution Networks using Multi-objective Evolutionary Algorithms
Isabelle Tingzon
Proc. 2017 Mathematical Society of the Philippines Annual Convention, 
29-31 May 2017,
 Legazpi City, Philippines

A Shockwave-Inducing Car-Following Model 
Kevin Oliver Fernandez, Kirzten Cassielle Marquez 
Proc. 2017 Mathematical Society of the Philippines Annual Convention, 
29-31 May 2017,
 Legazpi City, Philippines 
(Poster Presentation)

Design Development of a 3D Agent-Based Model for Photocatalytic Hydrogen Production Reactor
Alexis Julia C. Canaria, Jann Kevin C. Rayco, Roy Vincent L. Canseco
Proc. 2017 Mathematical Society of the Philippines Annual Convention, 
29-31 May 2017,
 Legazpi City, Philippines 
(Poster Presentation)

A Spatio-temporal Data Analysis Framework for Communicable Diseases
Abigail Althea Antonio, Jacob Angelo Torres, Adrian Roy Valdez
Proc. 2017 Mathematical Society of the Philippines Annual Convention, 
29-31 May 2017,
 Legazpi City, Philippines 
(Poster Presentation)

An Enhanced Agent-based Model of the Photocatalytic Hydrogen Production Reaction
Roy Vincent L. Canseco, Rizalinda de Leon, Vena Pearl Bongolan, Jose Yap IV.
Advanced Modeling and Control of Chemical and Biochemical Processes (Book Chapter). Dr. Sudip Chakraborty, Dr. Shadi Wajih Hasan, Prof. Stefano Curcio, Eds., Springer 



2016

A Mathematical Model for Analytical Fitting of Amino Acid Diamide Conformational Potential 
Energy Surfaces
John Justine Villar, Anita Rágyanszki, David Setiadi, Béla Viskolcz, 
Imre G. Csizmadia
 and 
Adrian Roy Valdez 
Proceedings of 9th International Conference on Environmental and Computer Science, 24-26 September 2016, Toronto, Canada

Post-disaster Regeneration of Mangroves
Vena Pearl Boñgolan, Severino Salmo III, J. Stephen Mariano and Franklin David Ang
Proceedings of the Asia Oceania Geosciences Society 13th Annual Meeting, 31 July - 5 August 2016, Beijing, China

Ultradiscretization of the Burger's Equation for Landslide Modeling
Lee Javellana and Vena Pearl Boñgolan
Proceedings of the Asia Oceania Geosciences Society 13th Annual Meeting, 31 July - 5 August 2016, Beijing, China

Storm Surge Simulation in the Philippine Archipelago Using 3D ADCIRC + SWAN
Joshua Frankie Rayo, Guenevere Kay Gutierrez, Ace Talibong, Dustin Edric Ricio and Vena Pearl Boñgolan
Proceedings of the 
Asia Oceania Geosciences Society 13th Annual Meeting, 31 July - 5 August 2016, Beijing, China

Effects of Time-Correlated Stochastic Boundary Conditions in Storm Surge Modeling
Dustin Edric Ricio and Vena Pearl Boñgolan
Proceedings of the 
Asia Oceania Geosciences Society 13th Annual Meeting, 31 July - 5 August 2016, Beijing, China

Mathematical Representation of 20 Amino Acid Diamide Relaxed Conformational Potential Energy Surfaces
John Justine Villar, Anita Rágyanszki, Adrian Roy Valdez, David Setiadi, Béla Viskolcz and Imre G. Csizmadia
Proceedings of the 6th Visegrad Symposium on Structural Systems Biology, 19-21 June 2016, Warsaw, Poland

3D Printing Time Optimization Through Projection-Assisted Parameter Search (PAPS)
Niña Kamille Quiazon, Sarah Samonte and Vena Pearl Bongolan
Proceedings of the Mathematical Society of the Philippines Annual Convention 2016, 30-31 May 2016, Cebu City, Philippines

Off-lattice Protein Structure Prediction on 3D Hydrophobic-Polar Side-Chain Model using Parallel Simulated Annealing
Gerald Roy Campañano, Francis Jonathan Lopez, Rowel Ventura, John Justine Villar and Adrian Roy Valdez
Proceedings of the Mathematical Society of the Philippines Annual Convention 2016, 30-31 May 2016, Cebu City, Philippines (accepted)

Analysis of Models for Analytical Fitting of Conformational Potential Energy Surfaces
John Justine Villar, Anita Rágynszki, Adrian Roy Valdez, David Setiadi, Béla Viskolcz and Imre G. Csizmadia
Proc. Kemometria és Molekulamodellezés Munkabizottsága-QSAR és Modellezési Szakcsoportja Szimposia (KeMoMo-QSAR 2016), 12-13 May 2016, Miskolc, Hungary



2015

A Scenario and Sensitivity Analysis for Flooding Vulnerability Using Genetic Algorithms
V.P. Bongolan, O. Terranova, E.N. Apostol, J.K Cruz
Proceedings of the 
Asia Oceania Geosciences Society
 12th Annual Meeting, 2-7 August 2015, Singapore

On Incorporating Core-Attachment Scheme for Protein Complex Detection on Weighted Protein-Protein Interaction Networks
Jerome Cary Beltran, Catalina Montes, John Justine Villar, Jaymar Soriano, and Adrian Roy Valdez
Proceedings of the 2015 Mathematical Society of the Philippines Annual Convention, 18 - 19 May 2015, Laoag City, Philippines

Storm Surge Modeling in the Philippines Using ADCIRC+SWAN through Parallel Computing
Tricia Mae Esguerra, Ryan Anthony Jacinto, Joshua Frankie Rayo, Dustin Edric Ricio, and Vena Pearl Bongolan
Proceedings of the 2015 Mathematical Society of the Philippines Annual Convention, 18 - 19 May 2015, Laoag City, Philippines

On Protein Structure Prediction using the Hydrophobic-Polar Model on a Tetrahedral Lattice
Ryan Paul Gozum, Kristoffer Marion Mendoza, John Justine Villar, Jaymar Soriano, and Adrian Roy Valdez
Proceedings of the 2015 Mathematical Society of the Philippines Annual Convention, 18 - 19 May 2015, Laoag City, Philippines

Modeling and Simulation of Filipino Driving
Elemar Teje and Adrian Roy Valdez
Proceedings of the 2015 Mathematical Society of the Philippines Annual Convention, 18 - 19 May 2015, Laoag City, Philippines

Portfolio Optimization in a Regime Switching Model
Adrian Roy Valdez and Tiziano Vargiolu
Proceedings of the 2015 Mathematical Society of the Philippines Annual Convention, 18 - 19 May 2015, Laoag City, Philippines

A Hybrid Method for Detecting Protein Complexes in Weighted Protein-Protein Interaction Networks
Jerome Cary Beltran, Catalina Montes, John Justine Villar, Jaymar Soriano, and Adrian Roy Valdez
Proceedings of the 8th Research Workshop on Modeling, Simulation and Scientific Computing in the Philippines (MODEL 2015), 19 – 20 January 2015, Manila, Philippines

A Scenario Analysis for Flooding Vulnerability using Genetic Algorithm
Vena Pearl Boñgolan, Oreste Terranova, Edward Nataniel Apostol, and Joshua Kevin Cruz
Proceedings of the 8th Research Workshop on Modeling, Simulation and Scientific Computing in the Philippines (MODEL 2015), 19 – 20 January 2015, Manila, Philippines

Calibration of a Rule-Based Computational Model of Photocatalytic Hydrogen Production using Cadmium Sulfide Catalyst with Sulfide and Sulfite Reagents
Roy Vincent L. Canseco, Vena Pearl Bongolan, Hyacinth Mae G. Tambago, and Rizalinda L. De Leon
Proceedings of the 8th Research Workshop on Modeling, Simulation and Scientific Computing in the Philippines (MODEL 2015), 19 – 20 January 2015, Manila, Philippines

A Branch-Bound Method for the 3D HP Protein Folding Model over a Tetrahedral Lattice
Ryan Paul Gozum, Kristoffer Marion Mendoza, John Justine Villar, Jaymar Soriano, and Adrian Roy Valdez
Proceedings of the 8th Research Workshop on Modeling, Simulation and Scientific Computing in the Philippines (MODEL 2015), 19 – 20 January 2015, Manila, Philippines

Ultradiscrete Landslides
Lee Javellana and Vena Pearl Boñgolan
Proceedings of the 8th Research Workshop on Modeling, Simulation and Scientific Computing in the Philippines (MODEL 2015), 19 – 20 January 2015, Manila, Philippines

Storm Surge Modeling in the Philippines Using ADCIRC+SWAN through Parallel Computing
Dustin Edric Ricio, Tricia Mae Esguerra, Ryan Anthony Jacinto, Joshua Frankie Rayo, Pablo Manalastas, and Vena Pearl Bongolan
Proceedings of the 8th Research Workshop on Modeling, Simulation and Scientific Computing in the Philippines (MODEL 2015), 19 – 20 January 2015, Manila, Philippines

Discrimination of Class Aves Families Using Codon Counts From Unaligned COI Sequences
Jaymar Soriano, Adrian Roy Valdez, and Ian Kendrick Fontanilla
Proceedings of the 8th Research Workshop on Modeling, Simulation and Scientific Computing in the Philippines (MODEL 2015), 19 – 20 January 2015, Manila, Philippines

Modeling and Simulation of Filipino Driving
Elemar Teje, Alvin Abala, Christopher Rosario, Harvey Ian Arbas, and Adrian Roy Valdez
Proceedings of the 8th Research Workshop on Modeling, Simulation and Scientific Computing in the Philippines (MODEL 2015), 19 – 20 January 2015, Manila, Philippines

Analysis of Signalized Intersections with Varied Traffic Conditions
Joshua Martin Villano, Mark Paolo Navata, Jaymar Soriano, and Adrian Roy Valdez
Proceedings of the 8th Research Workshop on Modeling, Simulation and Scientific Computing in the Philippines (MODEL 2015), 19 – 20 January 2015, Manila, Philippines



2014

Phase Portraits of Superficial Flows in Risk Mitigation

V.P. Bongolan, G. Iovine, R. Rongo, W. Spataro, D. D'Ambrosio, G. Spingola
presented at AOGS 11th Annual Meeting, 28 July - 01 August 2014, Royton Sapporo Hotel, Japan

(co-convenor of session IG01). Under a Faculty Research Dissemination Grant of ERDT.

“Daluyong cen Layos”: a Surge and Flood Early Warning System for the Philippines
Vena Pearl Bongolan
presented at ICT Asia, June 4-6 2014, LIPI, Jakarta
Sponsored by the Embassies of France, Manila and Jakarta.

Probabilistic Lava-Flow Risk Mapping of Mt. Etna
Vena Pearl Bongolan, Valeria Lupiano,Donato D’Ambrosio, Rocco Rongo, William Spataro & Giulio Iovine
Done at the University of Calabria under a Visiting Research grant from the ERDT Consortium of the Department of Science and Technology, Republic of the Philippines.

Vena Pearl Boñgolan, Donato D’Ambrosio, Giulio Iovine, Rocco Rongo, William Spataro, Giuseppe Spingola
Done at the University of Calabria under a Visiting Research grant from the ERDT Consortium of the Department of Science and Technology, Republic of the Philippines.

Robust Design via NSGA-II using Latin Hypercube Sampling Applied to Structural Beams
Jaymar Soriano, Laurent Dumas
Journal of Emerging Trends in Computing and Information Science, March 2014.



2013

John Justine Villar and Adrian Roy Valdez
Theory and Practice of ComputationPICT Vol 7, Springer Japan, 2013pp. 107 - 115.

Vena Pearl Bongolan, Valeria Lupiano, Donato D’Ambrosio, Rocco Rongo, William Spataro, and Giulio Iovine 
European Geosciences Union General Assembly, April 7-12, 2013, Vienna

Vena Pearl Bongolan, Florencio Ballesteros, Karessa Alexandra Baritua, and Marie Junne Santos 
European Geosciences Union General Assembly, April 7-12, 2013, Vienna

Jaymar Soriano, Ric Sapasap, Ted Chua, Nathan Santi, Ian Fontanilla and Adrian Roy Valdez
International Conference of Artificial Intelligence in Computer Science. Langkawi, Malaysia. November 2013.

Jaymar Soriano, Ryan Rondon, Angelo Meneses, Melissa Cardenas, Sandra Lim-Yap and Adrian Roy Valdez
International Conference of Artificial Intelligence in Computer Science. Langkawi, Malaysia. November 2013.



2012

Canseco, Roy Vincent L.; Bongolan, Vena Pearl
TENCON 2012 - 2012 IEEE Region 10 Conference , vol., no., pp.1-5, 19-22 Nov. 2012
doi: 10.1109/TENCON.2012.6412278

Canseco, R. V. L., Bongolan, P. V., Tolod, K. R., & De Leon, R. L. (2012).
Proceedings of 19th Regional Symposium of Chemical Engineering.



2011
Karessa Alexandra O. Baritua, Marie Junne Santos and Vena Pearl Bongolan
Oral presentation at Model 2011, Oct. 20-22, Silliman University, Dumaguete, Philippines. 

Scalar Transport in an Oscillatory Velocity Field Evolving Under Boundary Noise
V.P. Bongolan, J. Duan, and G. Skountrianos
Nanjing Normal University, P.R. China, June 20-22, 2011, with a travel grant from DOST through the ERDT Consortium.

Joyce Anne Banting, Aina Marie Olaes, Vena Pearl Bongolan, Charlymagne R. Aquino, and Florencio Ballesteros, Jr.
a poster presentation at  the 11th Philippine Computing Science Congress (PCSC 2011), 4-5 March, Ateneo de Naga University, Philippines.

Marie Julliene Camille Sapuay, Fitz Patrick Galanida, Vena Pearl Bongolan
an oral presentation at  the 3rd AUN/SEED-Net Regional Conference on Global Environment,  21-22 February, 2011, Kuala Lumpur.



2010

A.P. Mendoza, A.R.L. Valdez, C.P. Arceo

an oral presentation at the 2010 International Conference on Computer Software and Modeling (ICCSM 2010) in Manila, Philippines, 4-5 December , 2010


Simulated Annealing in Optimizing Flooding Vulnerability and Cost
Aina Olaes, Joyce Banting, Vena Pearl Bongolan, Charlymagne R. Aquino, and Florencio Ballesteros, Jr.
an oral presentation at the 3rd Asean Civil and 3rd Asean Environmental Engineering Conferences,  Manila,  11-12 November,  2010.

A Genetic Algorithms Approach to Flood Disaster Management and Risk Assessment

Joyce Banting, Aina Olaes, Vena Pearl Bongolan, Charlymagne R. Aquino, and Florencio Ballesteros, Jr.
an oral presentation at the 8th National Conference on IT Education (NCITE 2010) Boracay, Philippines, 20-23 October 2010.

A.P. Mendoza, A.R.L. Valdez, C.P. Arceo

an oral presentation at the 8th National Conference on IT Education (NCITE 2010) Boracay Island, Malay, Aklan, 20-23 October 2010.