# Publications

**ARTICLES**

2023

**Modelling Network Effects of Biological Control: The Case of the Philippine Coconut Scale Insect Outbreak.**

B.J. Almarinez, D. Amalin, K. Aviso, H. Cabezas, __A. Lao__, R. Tan.

*BioControl, 1-14*

**Activation of T-cells and activity of macrophages among smokers with leptospirosis: a synergistic dynamics in the impairment of human immune system.**

D.E. Sumalapao, __A. Lao__, A. Adriano, J.C. So, N. Gloriani.

*Accepted for publication: Brazilian Archives of Biology and Technology.*

**P-Graph Approach to Modeling Sustainable Ecological Networks.**

M.B. Merlin, __A. Lao__

*Book Chapter, Elsevier*

2022

**Mathematical Modeling of Fluconazole Resistance in the Ergosterol Pathway of Candida albicans.**

P. Yu, L. Moron-Espiritu, __A. Lao__

*Msystems, e00691-22.*

**Reaction Network Analysis of Metabolic Insulin Signaling.**

P. Lubenia, E. Mendoza, __A. Lao__.

*Bulletin of Mathematical Biologythis link is disabled, 2022, 84(11), 129.*

**Maintaining the Resilience and Productivity of Co-culture Systems in the Face of Environmental Change.**

__A. Lao__, K. Aviso, H. Cabezas, R. Tan.

*Nature Sustainability 5 (9), 749-752.*

**Concentration Robustness in LP Kinetic Systems.**

__A. Lao__, P. Lubenia, D. Magpantay, E. Mendoza.

*MATCH Communication in Mathematical and Computer Chemistry, 88, 29-66.*

**Modelling the Effects of Medium-Chain Triglycerides on Cerebral Ketone Body Metabolism.**

A. Espina, E. Mendoza, __A. Lao__

*Frontiers in Systems Biology, 2.*

**Stochastic Process Algebra Model of Amyloidogenic Processing in Alzheimer’s Disease.**

__A. Lao__, M.A. Dela Cruz, G.J. Tenio, P. Sy, E. Mendoza.

*In Towards Intelligent Systems Modeling and Simulation, 249-263. Springer, Cham.*

2021

**Modelling vicious networks with P-graph causality maps.**

R. Tan, K. Aviso, __A. Lao__, M. Promentilla.

*Clean technologies and environmental policy 24 (1), 173-184.*

**P-graph causality maps.**

R. Tan, K. Aviso, __A. Lao__, M. Promentilla.

*Process Integration and Optimization for Sustainability 5 (3), 319-334.*

2020

**Cytotoxic Activity of Raphanus sativus Linn. on Selected Cancer Cell Lines and Mechanistic Pathways Predicted through Mathematical Modeling.**

__A. Lao__, J.M.C. Edra, K.D. Talag, D.S. Tan, G. Oyong, M. Noel, M.L. Enriquez, M.C. Tan.

*In International Workshop on Complex Systems Modelling & Simulation, pp. 175-196. Springer, Singapore, 2019.*

**CRNet Translator: Building GMA, S-System Models and Chemical Reaction Networks of Disease and Metabolic Pathways.**

K. Fields, N. Fortun, G.A. Solano, __A. Lao__.

*In 2020 11th International Conference on Information, Intelligence, Systems and Applications (IISA), IEEE.*

**PlaPhy-SMD: A Database System of Plants and their Phytochemicals Integrated with Small-Molecule Drugs and their Condition and Gene Associations with Clustering and Product Ingredient Matching.**

JM Recario, G.A. Solano, __A. Lao__.

*In 2020 11th International Conference on Information, Intelligence, Systems and Applications (IISA), IEEE.*

**P-graph Causality Maps.**

R.G. Tan, K. Aviso, __A. Lao__, M. Promentilla.

*Process Integration and Optimization for Sustainability.*

**A Deterministic Compartmental Modeling Framework for Disease Transmission.**

K.J. Villasin, E. Rodriguez, and __A. Lao__.

*In Computational Methods in Synthetic Biology, Second Edition.*

**Prevention of H5N6 outbreaks in the Philippines using optimal control.**

A. Lucido, R. Smith?, __A. Lao__.

*Philippine Science Letters.*

**Analysis of the co-authorship network of Filipino researchers in deep learning.**

__A. Lao__, U. Chua, B.P. Samson.

*Philippine Science Letters.*

**Extraction and graph representation of disease-disease associations from biomedical journals using support vector machines.**

A. Laron, D.S. Tan, N.R. Lim-Cheng, M. Baclig, L. Cornista, M.L. Daroy, __A. Lao__, and R. Batista-Navarro.

*Manuscript submitted for publication.*

**Structural Properties of an S-system Model of Mycobacterium tuberculosis Gene Regulation.**

H. Farinas, E. Mendoza,

__A. Lao__.

*Philippine Journal of Science, 149(3), 539-563.*

**Socio-ecological network structures from process graphs.**

__A. Lao__, H. Cabezas, A. Orosz, F. Friedler, R. Tan.

*PLoS ONE.*

**Constrained Supply Chain Scheduling Model Using Sequential Quadratic Programming Algorithm.**

D.E. Sumalapao, L.E. Bagwan, __A. Lao__.

*Journal of Sciences, Islamic Republic of Iran.*

**A Pancreatic Cancer Detection Support Tool Using Mass Spectrometry Data and Support Vector Machines.**

E. Briones, __A. Lao__, G.A. Solano.

*2020 International Conference on Artificial Intelligence and Signal Processing.*

2019

**Drowning Out Rumor: Dynamical Models of the Interaction between Spreaders of and Exposed to Truth and Rumor Spreading.**

M. Feria, M. Oliva, B.P. Samson, and __A. Lao__.

*Philippine Journal of Science 148 (4), 659-686.*

**Linear conjugacy of chemical kinetic systems.**

A. Nazareno, R.P. Eclarin, E. Mendoza and __A. Lao__.

*Mathematical Biosciences and Engineering, 16(6), 8322-8355.*

**Chemical Reaction Networks: Filipino contributions to their theory and its Applications.**

C.P. Arceo, E. Jose, __A. Lao__, and E. Mendoza.

*Philippine Journal of Science, 148(2), 249-261.*

**A Deficiency Zero Theorem for a class of power-law kinetic systems with non-reactant-determined interactions.**

N. Fortun, E. Mendoza, L. Razon and __A. Lao__.

*MATCH Communication in Mathematical and Computer Chemistry, 81, 621-638.*

**Pathway based Human Disease Clustering and Similarity Analysis Tool Using Frequent Structure Mining.**

D. Mendoza, __A. Lao__ and G.A. Solano.

*In 2018 9th International Conference on Information, Intelligence, Systems and Applications (IISA), IEEE.*

**Biological Network Analysis and Subnetwork Extraction Tool.**

D. Rodriguez, __A. Lao__ and G.A. Solano.

*In 2018 9th International Conference on Information, Intelligence, Systems and Applications (IISA), IEEE.*

2018

**Robustness in power-law kinetic systems with reactant-determined interactions.**

N. Fortun, __A. Lao__, L. Razon and E. Mendoza.

*In Japanese Conference on Discrete and Computational Geometry, Graphs, and Games, pp. 106-121. Springer, Cham, 2018.*

**A Deficiency-One Algorithm for power-law kinetic systems with reactant-determined interactions.**

N. Fortun, E. Mendoza, L. Razon and __A. Lao__.

*Journal of Mathematical Chemistry, 56,2929-2962.*

**Multistationarity in Earth’s Preindustrial Carbon Cycle Models.**

N. Fortun, E. Mendoza, L. Razon and __A. Lao__.

*Manila Journal of Science, 11, 81-96.*

**Transmission dynamics and control strategies assessment of avian influenza A (H5N6) in the Philippines.**

H. Lee and __A. Lao__.

*Infectious Disease Modelling, 3, 35-59.*

**Reactant subspaces and kinetics of chemical reaction networks.**

C.P. Arceo, E. Jose, __A. Lao__, and E. Mendoza.

*Journal of Mathematical Chemistry, 56(2), 395-422.*

**AuToDiDAC: Automated Tool for Disease Detection and Assessment for Cacao Black Pod Rot.**

D.S. Tan, R.N. Leong, A.F. Laguna, C.A. Ngo, __A. Lao__, D. Amalin, and D. Alvindia.

*Crop Protection, 103, 98-102.*

**Pathway-based human disease clustering tool using self-organizing maps.**

J. A. R. Sarmiento, __A. Lao__ and G.A. Solano.

*2017 8th International Conference on Information, Intelligence, Systems & Applications (IISA), (pp. 1-6). IEEE.*

2017

**Reaction networks and kinetics of biochemical systems.**

C.P. Arceo, E. Jose, __A. Lao__, and E. Mendoza.

*Mathematical Biosciences, 283, 13-29.*

**A dynamical analysis of Tuberculosis in the Philippines.**

K.J. Villasin, __A. Lao__, and E. Rodriguez.

*Philippine Science Letters, 10 (1), 29-37.*

2016

**Stability Analysis of the ODE Model Representation of Amyloidogenic Processing in Alzheimer’s Disease in the Presence of SORLA.**

H. Alcantara, __A. Lao__, and L.Ruivivar.

*Molecular BioSystems*

**A Framework for Measuring Infestation Level on Cacao Pods.**

DS Tan, RN Leong, AF Laguna, CA Ngo, __A. Lao__, D Amalin, and D Alvindia.

*In 2016 IEEE Region 10 Symposium (TENSYMP), 384-389.*

2012

**Multicompartmental modeling of SORLA’s influence on amyloidogenic processing in Alzheimer’s disease.**

__A. Lao__, V. Schmidt, Y. Schmitz, T.E. Willnow, and O. Wolkenhauer.

*BMC Systems Biology, 6(1):74.*

**Quantitative modeling of amyloidogenic processing and its influence by SORLA in Alzheimer’s disease.**

V. Schmidt, __A. Lao__, K. Baum, K. Rateitschak, Y. Schmitz, C. Munck Petersen, A. Nykjaer, J. Wolf, O. Wolkenhauer, and T.E. Willnow.

*The EMBO Journal, 31(1):187 - 200.*

2009

**Systems approaches in molecular and cell biology: making sense out of data and providing meaning to models.**

O. Wolkenhauer, __A. Lao__, S. Omholt, and H. Martens.

*Proceedings of SPIE, 7343(1): 734318-734318-11.*

**CONFERENCE PROCEEDINGS**

2020

**State Analysis of Three-node Network Motifs using Boolean Model.**

P Chan, R Manero, M Te and __A Lao__.

*De La Salle University Research Congress.*

2017

**Corpus Annotation of Biomedical Journals for a Machine Learning Approach to Automatic Relation Extraction.**

A Laron, DS Tan, NR Lim-Cheng, __A Lao__, and R Batista-Navarro.

*Proceedings of the 17th Philippine Computing Science Congress, University of San Carlos, Cebu, Philippines.*

2016

**Systems Biology Approach of Understanding the Effect of Raphanus sativus Extract on the Pathogenesis of Chronic Myeloid Leukemia, Breast and Colon Cancer.**

JMC Edra, KD Talag, ML Enriquez, and

__A Lao__.

*De La Salle University Research Congress.*

**Method for Measuring Infestation Level on Cacao Pods.**

DS Tan, RN Leong, AF Laguna, CA Ngo, __A Lao__, D Amalin, and D Alvindia.

*De La Salle University Research Congress.*

**SUBMITTED ABSTRACTS/POSTERS/PAPERS IN CONFERENCES**

2023

**Health Organizations, Celebrity Fans, and Social Media: Mapping Tuberculosis-related Tweets in the Philippines**

*73rd Annual ICA Conference, Reclaiming Authenticity in Communication*

H J.C. Bernadas; E.Y. Chan; M.C. Chan; S.S. Ching; S. Sie; A. Lao; C. Cheng. Toronto, Canada

2019

**Systems Biology of Alzheimer’s Disease: Understanding How to Prevent or Delay its Onset or Progression**

*International Congress for Industrial and Applied Mathematics*

Valencia, Spain

**Species Subsets and Embedded Networks of S-systems**

*SIAM conference on Applied Algebraic Geometry*

University of Bern, Switzerland

2018

**Multi-stationarity Analysis of the Earth’s Pre-industrial Carbon Cycle Models using Chemical Reaction Network Theory**

*International Congress of Mathematics*

Rio de Janeiro, Brazil

2017

**A Mathematical Model Explaining the Effect of Raphanus Sativus on Cancer Diseases**

*Annual Meeting of the Society of Mathematical Biology*

University of Utah, USA

**Reactant Subspaces of Power Las Kinetic Systems**

*Mathematical Society of the Philippines Annual Convention*

Legaspi Bicol, Philippines

2016

**An In-host Dynamics on the Effects of Tabacco Smoking in the Activation of Tcells and Response Activity of Macrophages in Leptospira Infection**

*International Conference on Mathematical and Computational Modeling of Biological Systems*

University of the Philippines, Diliman, Philippines

**The Relationship between Type-2 Diabetes and Alzheimer’s Disease Regulated by Insulin Resistance and Insulin-like Growth Factor 1**

*International Conference on Mathematical and Computational Modeling of Biological Systems*

University of the Philippines, Diliman, Philippines

**CRNT Polyglot: One Stop Platform for Generating Chemicat Reaction Network Models**

*International Conference on Mathematical and Computational Modeling of Biological Systems*

University of the Philippines, Diliman, Philippines

**Chemical reaction network approaches to biochemical systems theory**

*The Asian Mathematical Conference*

Kabupaten Badung, Bali, Indonesia

**Modeling the Effect of Raphanus sativus Extract on the Pathogenesis of Chronic Myeloid Leukemia, Breast and Colon Cancer**

*Hands-on Research on Complex System*

The Abdus Salam International Centre for Theoretical Physics, Trieste, Italy

**Systems Biology Approach of Understanding the Effect of Raphanus sativus Extract on the Pathogenesis of Chronic Myeloid Leukemia, Breast and Colon Cancer**

*International Synthetic and Systems Biology Summer School*

TaoSciences Research Center, SIAF, Volterra, Italy

**Understanding the Effect of Raphanus sativus Extract on the Pathogenesis of Chronic Myeloid Leukemia, Breast and Colon Cancer through Mathematical Modeling**

*Mathematical Society of the Philippines Annual Convention*

Bayfront Hotel, Cebu, Philippines

2015

**Stability Analysis of the ODE Model Representation of Amyloidogenic Processing in Alzheimer’s Disease in the Presence of SORLA**

*3rd Asian Regional Conference on Systems Biology 2015*

Hotel Bangi-Putrajaya, Selangor, Malaysia

**Pathogenesis with Resistance Genes using Stochastic BioAmbient Calculus**

*Mathematical Society of the Philippines Annual Convention*

Laoag, Philippines

2014

**Mathematical Modelling of Insulin Resistance Linking Type 2 Diabetes and Alzheimer’s Disease**

*International Congress of Mathematics*

Seoul, Korea

**Stochastic process algebra modeling of APP processing influenced by SORLA in Alzheimer’s Disease**

*Mathematical Society of the Philippines Annual Convention*

Iloilo, Philippines

2012

**Regulated trafficking of APP by SORLA in Alzheimer’s disease**

*Systems Medicine International Conference*

Dublin, Ireland

**Multi-compartmental modeling of APP processing influenced by SORLA in Alzheimer’s disease**

*13th International Conference on Systems Biology (ICSB)*

Toronto, Canada

2011

**Mathematical modeling of APP processing influenced by SORLA in Alzheimer’s disease: when one pathway is not enough**

*12th International Conference on Systems Biology (ICSB)*

Heidelberg/Mannheim, Germany

2010

**Quantitative modeling of APP processing influenced by SORLA in Alzheimer’s disease**

*International Conference on Alzheimer’s Disease 2010*

Honolulu, Hawaii

**Mathematical modeling of APP processing influenced by SORLA in Alzheimer’s disease: two pilot models**

*Mid-term review of the Helmholtz Alliance on Systems Biology*

DKFZ, Heidelberg, Germany