Publications
MATHEMATICAL CHEMISTRY AND SYSTEMS BIOLOGY
2023
Complex Balanced Equilibria of Weakly Reversible Poly-PL Systems: Existence, Stability, and Robustness
Jose EC, Mendoza ER, Talabis DASJ
MATCH Communications in Mathematical and Computer Chemistry 89 (2023) 1 pp. 107 – 142
2022
Reaction Network Analysis of Metabolic Insulin Signaling
Lubenia P, Mendoza E, Lao A
Bulletin of Mathematical Biology, 84(129)
Modelling the Effects of Medium-Chain Triglycerides on Cerebral Ketone Body
Espina A, Mendoza E, Lao A
Metabolism. Frontiers of Systems Biology 23
Weakly reversible CF-decompositions of chemical kinetic systems
Hernandez BS and Mendoza ER
Journal of Mathematical Chemistry 60, 799–829 (2022)
Absolutely complex balanced kinetic systems
Jose EC, Mendoza ER, Talabis DASJ
MATCH Communications in Mathematical and Computer Chemistry 88 (2022) 2, pp. 397 - 436
Concentration robustness in LP kinetic systems
Lao AR, Lubenia PVN, Magpantay DM, Mendoza ER
MATCH Communications in Mathematical and Computer Chemistry 88 (2022) 1, pp. 29 – 66
Common complexes of decompositions and complex balanced equilibria of chemical reaction networks
Fontanil LL and Mendoza ER
MATCH Communications in Mathematical and Computer Chemistry 87 (2022), pp. 329 – 366
Independent, incidence independent and weakly reversible decompositions of chemical reaction networks
Hernandez BS, Amistas DA, de la Cruz RJ, Fontanil LL, de los Reyes V AA, Mendoza ER
MATCH Communications in Mathematical and Computer Chemistry 87 (2022)
2021
Chemical reaction network decompositions and realizations of S-systems
Farinas HF, Mendoza ER, Lao AR
Philippine Science Letters 14 (2021) (1): pp. 147 – 157
Stochastic Process Algebra Model of Amyloidogenic Processing in Alzheimer’s Disease
Lao AR, de la Cruz MA, Tenio GJ, Sy P, Mendoza ER
Chapter 18 of Towards intelligent systems modeling and simulation: with applications to energy, epidemiology an risk assessment, Eds. SA Abdul Karim, A. Shafie. Springer International Publishing 2021
Positive equilibria of Hill-type systems
Hernandez BS and Mendoza ER
Journal of Mathematical Chemistry 59 (2021), pp. 840 – 870
A computational approach to concentration robustness in power law kinetic systems of Shinar-Feinberg type
Fontanil LL, Mendoza ER, Fortun NT
MATCH Comm. Math. Comput. Chem. 86 (2021) (3): 489 - 516
A computational approach to multistationarity in poly-PL kinetic systems
Magpantay DM, Hernandez BS, de los Reyes A, Mendoza ER, Nocon EG
MATCH Comm. Math. Comput. Chem. 85 (2021) (3); 605 – 634
Absolute concentration robustness in power law kinetic systems
Fortun NT and Mendoza ER
MATCH Comm. Math. Comput. Chem. 85 (2021) (3), pp. 669 – 691
2020
Structural properties of an S-system model of Mycobacterium tuberculosis gene regulation
Farinas HF, Mendoza ER, Lao AR
Phil J. Science 149 (2020) (3), pp. 539-555
Literature mining of dipterocarps: Towards better informed natural regeneration and reforestation in Luzon, Philippines
Gabud RS, Batista-Navarro RB, Mariano VY, Mendoza ER, Yap SI
Sylvatrop Vol. 29 (2020)
Comparison of Two Nature-inspired Algorithms for Parameter Estimation of S-Systems
Cajayon RC, Lucilo JA, Arceo CPP, Mendoza ER
Philippine J. Science (2020)149 (1): 61-78
Fundamental decompositions and multistationarity in power law kinetic systems
Hernandez BS, Mendoza ER, de los Reyes A
MATCH Comm. Math. Comput. Chem. 83 (2020) (2); 403 – 434
A Weak Reversibility Theorem for poly-PL kinetics and evolutionary games
Talabis DASJ, Magpantay D, Mendoza ER, Nocon EG, Jose EC
MATCH Comm. Math. Comput. Chem. 83 (2020) (2): 375 – 412
A computational approach to multistationarity in power law kinetic systems
Hernandez BS, Mendoza ER, de los Reyes A
Journal of Math. Chemistry 58 (2020); 56 – 87
2019
Linear conjugacy of chemical kinetic systems
Nazareno AL, Eclarin RPL, Mendoza ER, Lao AR
Math. Biosciences and Engineering 16 (2019) (6), pp. 8322–8355
Complex balannced equilibria of weakly reversible power law kinetic systems
Talabis DASJ, Mendoza ER, Jose EC
MATCH Comm. Math. Comput. Chem. 82 (2019) pp. 601-624
Craciun´s EMAK Method: A DynamicsDynamics-focussed approach to poly-PL systems
Magpantay DM, Mendoza ER, Nocon EG
Manila Jour. Science (2019)
Structural stability analysis of dopamine synthesis and D1 receptor trafficking in RPT cells using CRNT
Villar JJS, Lubenia PL, Mendoza ER, Arceo CPP
Philippine Journal of Science 148(3), 2019
A Deficiency Zero Theorem for a class of power law kinetic systems with non-reactant determined interactions
Fortun NT, Lao AR, Razon LF, Mendoza ER
MATCH Comm. Math. Comput. Chem. 81 (2019) 621 - 638
Chemical reaction networks: Filipino contributions to their theory and its applications
Arceo CP, Jose EC, Lao AR, Mendoza ER
Phil. Journal of Science (2019) Vol. 148 No. 2
2018
Multistationarity in Earth´s Pre-industrial Carbon Cycle Models
Fortun NT, Lao AR, Razon LF, Mendoza ER
Manila Journal of Science 11 (2018), 81-96
A Deficiency One Algorithm for Power in Law Kinetic Systems with Reactant-Determined Interactions
Fortun NT, Mendoza ER, Razon LF, Lao AR
Journal of Mathematical Chemistry 56 (2018) 10, 2929-2962
Positive equilibria of weakly reversible power law kinetic systems with linear independent interactions
Mendoza ER, Talabis DASJ, Jose EC
Journal of Mathematical Chemistry October 2018, Volume 56, Issue 9, pp 2643–2673
Reactant subspaces and kinetics of chemical reaction networks
Arceo CP, Jose EC, Lao AR, Mendoza ER
Journal of Mathe. Chemistry 56 (2018) 2: 395-422
Positive equilibria of a class of power law kinetics
Talabis DASJ, Arceo CPP, Mendoza ER
J. Math, Chem 56 (2018) 2: 358-394
A computational approach to linear conjugacy in a class of power law kinetic systems
Cortez MJ, Nazareno AN, Mendoza ER
J. Math. Chem 56 (2018) 2: 336-357
Robustness in power law kinetic systems with reactant-determined interactions
Fortun NT, Razon LF, Lao AR, Mendoza ER
Proceedings of the Japan Conference on Geometry, Graphs and Games 2018, Lecture Notes in Computer Science, Springer Verlag, August 2021, pp. 106 – 121
2017
Reaction networks and kinetics of biochemical systems
Arceo CPP, Jose EC, Lao AR, Mendoza ER
Math. Biosci. 283 (2017): 13-29
Proteinogenic Amino Acid Profiles and Flux Distribution in Lactoccocus lactis at various growth conditions
Azizan KA, Ressom HW, Mendoza ER, Baharum SN
PeerJ (2017)
Continuous Logical Modeling of the Submergence Regulatory Network in Rice
Nazareno AL, Dionisio-Sese ML, Cuaresma GA, Mendoza ER, Jose EC
Phil. Journ. Of Science (2017)
2016
Model Construction and Analysis of Respiration in Halobacterium salinarum
Talaue CO, del Rosario RCH, Pfeiffer F, Mendoza ER, Oesterhelt D
PLoS ONE, March 24, 2016, 1-22
2015
Chemical Reaction Network Approaches to Biochemical Systems Theory
Arceo CPP, Jose EC, Marin-Sanguino A, Mendoza ER
Mathematical Biosciences 269 (2015), pp. 135-152
An Assessment of chronotype and social jet lag among Filipinos
Gabud RS, Manalang Jr GF, Chua RBL, Mendoza ER, Lozano-Kuehne JP
Int. Journal of Phil. Science and Technology Vol 1 No. 1 (2015)
Finding the optimal dose for üsoriasis ultraviolet radiation therapy through multi-objective evolutionary optimization on a skin model
Cayetano AC, Roa FC, Mendoza ER, Naval Jr PC
Int. Journal of Phil. Science and Technolgy Vol 1 No 1 (2015)
2014
A Partial Regression Coefficient Analysis Framework for Inferring Candidate Genes Causal to Traits in Recombinant Inbred Lines
Yap JM, Mauleon R, Mendoza ER, Adorna H
Philippine Science Letters (2014)
Correctness and Algorithmic Efficiency of a Method for Systems Genetics
Yap JM, Adorna H, Mauleon R, Mendoza ER
Philippine Computing Journal (2014)
2013
Cell type determines the light-induced endosomal escape kinetics of multifunctional mesoporous nanoparticles
Dobay MPD, Schmidt A, Mendoza ER, Bein T, Rädler JO
ACS NanoLetters, Apr 2013
Model organism databases
Mendoza ER
in Encyclopedia of Systems Biology (Dubitzky W, Wolkenhauer O, Yokota H, Cho K.-H. Eds.), Springer 2013
Organelle and Functional Module Resources
Mendoza ER
in Encyclopedia of Systems Biology (Dubitzky W, Wolkenhauer O, Yokota H, Cho K.-H. Eds.), Springer 2013
2012
Modeling nanoparticle uptake and intracellular distribution using stochastic process algebras
Dobay MPD, Alberola AP, Mendoza ER, Rädler JO
Journal of Nanoparticle Research 14
Shift work research in the Philippines: current status and future directions
Lozano-Kühne J, Aguila MER, Manalang GF Jr, Chua RB, Gabud RS, Mendoza ER
Philippine Science Letters, Vol. 5 No. 1
Modeling nanoparticle-cell interactions with stochastic process algebras
Mendoza ER
Invited paper for the Proceedings of the 6th International Jagna Workshop (Jan 4-7, 2012), International Journal of Modern Physics, Conference Series (Nov 2012)
2011
How many trimers? Modeling influenza A virus fusion yields a minimum aggregate size of six trimers, three of which are fusogenic
Dobay MPD, Dobay A, Bantang JY, Mendoza ER
Molecular Biosystems, Vol 7, No. 10 (Chosen as Cover Story of the Oct 2011 issue)
2010
Flux Duality in Non-Linear GMA Systems: Implications for Metabolic Engineering
Marin-Sanguino A, Mendoza ER, Voit EO
Journal of Biotechnology 149, Issue 3, Sept 2010
Characterization of growth and metabólism of the haloalkaliphile Natronomonas pharaonis
Gonzalez O, Oberwinkler T, Mansueto, L, Pfeiffer F, Mendoza ER, Zimmer R, Oesterhelt D
PLoS Computational Biology, June 2010
From communicational to computational: systems modeling approaches for psychiatric research
Mendoza ER
In “Systems Biology and Psychiatric Research” Tretter F, Gebicke-Härter P, Winterer G, Mendoza ER (Eds) Wiley VCH, June 2010
The evolution of synapse models: from numbers to networks to spaces
Dulam-Banawa B, Marin-Sanguino A, Mendoza ER
Pharmacopyschiatry, May 2010
Predictive modeling of non-viral gene transfer
Schwake G, Youssef S, Kuhr JT, Gude S, David MPC, Mendoza ER, Frey E, Rädler JO
Journal of Biotechnology and Bioengineering 105: 805-813
Parameter estimation with Term-wise Decomposition in Biochemical Network GMA Models by Hybrid Regularized Least Squares-Particle Swarm Optimization
Naval PC, Sison LG, Mendoza ER
Proceedings of the IEEE Conference on Evolutionary Computation (CEC) 2010, July 18-23, 2010, Barcelona, Spain
Social jet lag, shift work and senior citizens
Mendoza ER and Aguila MER
NAST Transactions 2010 (Proceedings of NAST ASM, Manila, July 14-15, 2010)
2009
Systems Biology: Its Past, Present and Potential
Mendoza ER
Phil Science Letters, Vol 2, No 1 Aug 2009
A Projective Brane Calculus based on Activate, Bud and Mate Primitives
David MPC, Bantang JY, Mendoza ER
Transactions on Computational Systems Biology, Special issue on “Computational models for cell processes”, Sept 2009
A Discrete Petri Net Model for Cephalostatin-induced Apoptosis in Leukemic Cells
Rodriguez EM, Rudy A, del Rosario RCH, Vollmar A, Mendoza ER
Natural Computing, Aug 2009
Modelling the Bioenergetics of Halobacterium salinarum with Petri Nets
del Rosario RCH, Mendoza ER, Oesterhelt D
Journal of Computational and Theoretical Nanotechnology, Aug 2009
Concept Maps and Canonical Models in Neuropsychiatry
Marin-Sanguino A, del Rosario RCH, Mendoza ER
Pharmacopsychiatry 2009;42 Suppl 1:S51-8
Systems Analysis of Bioenergetics and Growth of the Extreme Halophile Halobacterium salinarum
Gonzalez O, Gronau S, Pfeiffer F, Mendoza ER, Zimmer R, Oesterhelt D
PLoS Computational Biology, Vol 5, Issue 4
Metabolic Engineering with Power-Law and linear logarithmic Systems
Marin-Sanguino A, Torres, NV, Mendoza ER, Oesterhelt D
Mathematical Biosciences Vol 218, 50-8
Modeling atonal membrane reactions with the projective brane calculus PABM
David MPC, Bantang JY, Mendoza ER
Electronic Proceedings in Theoretical Computer Science (Sept 2009)
2008
Challenges in lin-log modelling of glycolysis in Lactococcus lactis
del Rosario RCH, Mendoza ER, Voit EO
IET Systems Biology 2:136-30
Hybrid modeling in computational neuropsychiatry
Marin-Sanguino A, Mendoza ER
Pharmacopsychiatry 41 Suppl 1:S85-8
Modelling biological rhythms
Roenneberg T, Chua EJ, Bernardo R, Mendoza ER
Curr Biol 18:R826-35
Reconstruction, modeling & analysis of Halobacterium salinarum R-1 metabolism
Gonzalez O, Gronau S, Falb M, Pfeiffer F, Mendoza ER, Zimmer R, Oesterhelt D
Mol Biosys 3:148-59
2007
Modelling the CheY (D10K,Y100W) Halobacterium salinarum mutant: sensitivity analysis allows choice of parameter to be modified in the phototaxis model
del Rosario RCH, Staudinger WF, Streif S, Pfeiffer F, Mendoza ER, Oesterhelt D
IET Systems Biology 1:207-2
EUCLIS - an information system for circadian systems biology
Batista RT, Ramirez DB, Santos RD, del Rosario MC, Mendoza ER
IET Syst Biol 1:266-73
Parameter estimation using simulated annealing for S-system models of biochemical networks
Gonzalez OR, Kuper C, Jung K, Naval PC, Mendoza ER
Bioinformatics 23: 480-6
1981
Coding theory and Hadamard Matrices I-II
Mendoza ER
in Matimyas Matematika, April 1981 & July 1981
1980
On the group PGL2 over imaginary quadratic integers
Mendoza ER
in “Recent Advances in Mathematics and its Applications”, SEAMS 5th Biennial General Meeting & Conference, Hong Kong, June 16-21 1980
Cohomology of PGL2 over imaginary quadratic integers
Mendoza ER
Bonner Mathematische Schriften No. 128
EDITORIALS IN CO-EDITED JOURNALS/BOOKS
2013
Introduction to Section on “Resources for Systems Biology”
Mendoza ER
in Encyclopedia of Systems Biology, Springer 2013
2010
Advanced Methods in Molecular Systems Biology
Dress A, Mendoza ER, Voit EO
Special Issue, Journal of Biotechnology, 149, Issue 3, Sept 2010
Introduction in “Systems Biology and Psychiatric Research”
Tretter F, Gebicke-Härter P, Winterer G, Mendoza ER
Wiley Blackwell, June 2010
Editorial in “Computational Neuropsychiatry Vol.5 Special Supplement”
Tretter F, Rujescu D, Pogarell, Mendoza ER
Pharmacopsychiatry May 2010
CO-EDITED BOOKS
2013
Section on “Resources for Systems Biology”
Mendoza ER
in Encyclopedia of Systems Biology (Dubitzky W, Wolkenhauer O, Yokota H, Cho K.-H. Eds.), Springer 2013
2010
Systems Biology and Psychiatric Research
Tretter F, Gebicke-Härter P, Winterer G, Mendoza ER
Wiley Blackwell, June 2010
INFORMATION & COMMUNICATION TECHNOLOGY
1999
Know-How, Show-How: Knowledge Management as the Core Component of IT Consulting
Mendoza ER
Proceedings of the 10th Business Symposium, European Business School, Schloss Reichartshausen (Oct 1999)
1997
E = mc3: the Microsoft approach to Enterprise Consulting (in German)
Mendoza ER
Microsoft Business Journal, June 1997
1996
The Microsoft COM Approach to Component-based Software Development (in German)
Mendoza ER, Olsowsky-Klein G
Objekt-Spektrum (1996)
1993
Computer-supported Workflow (in German)
Mendoza ER
Proceedings of the Seminar on “Application Development in a Client-Server Environment” (HMT, Munich, Nov 1993)
The Windows Platform for Client-Server Applications. Client-Server Architecture (in German)
Mendoza ER
Addison-Wesley 1993. Chapter 4. pp 141-177
The way forward to Workgroup Computing (in German)
Mendoza ER
Proceedings of the Conference on Client-Server Computing at Telecom Trends net 93 (Mainz, May 1993)
1991
OSI – from Open Systems Interconnection to Open Systems Infrastructure (in German)
Mendoza ER
Proceedings of the Muenchner OSI-Tage (Munich, May 1991)
1990
Recent Developments in Electronic Data Interchange Using OSI. Information Technology: The Tool for Economic Miracles
Mendoza ER
Proceedings SEARCC 90, 9th Convention (Manila, Dec 1990), pp 618-620
Current Trends in OSI technology (in German)
Mendoza ER
Proceedings of the Muenchner OSI-Tage (Munich, May 1990)
The CeBIT90 Experience
Mendoza ER, Cooper C
Proceedings of COMPAT 90 Conference at EDI Europe (Madrid, May 1990)
1989
ISO/OSI – the basis for successful business communications and its business benefits
Mendoza ER
Proceedings of the Executive Management Workshop, UNISYS International Management Centre (St. Paul-de-Vence, June 1989)
CCITT X.400 ’88 and ISO/IEC MOTIS- a Comparison (in German)
Mendoza ER
Proceedings of the Muenchner OSI-Tage (Munich, May 1989)
1988
From standards via products and services to OSI infrastructures. OSI at the Application Layer (German)
Mendoza ER
Datakom 1988, Chapter 10, pp106-112
The application layer service elements: ACSE,RTSE,ROSE,CCR. OSI at the Application Layer (in German)
Mendoza ER
Datakom 1988, Chapter 9, pp 98-105
Manufacturing messaging specification and companion standards OSI at the Application Layer (in German)
Mendoza ER
Datakom 1988, Chapter 6, pp 56-63
Directory Services and COSINE
Mendoza ER
in Computer Networks and ISDN Systems.Vol16, Nos. 1 & 2, Sept 1988
OSI Management: An important component of open networks” (in German)
Mendoza ER
Proceedings of the Conference on Advanced Information and Communication Technologies” at ONLINE 88 (Hamburg, Feb 1988)
1987
OSI Migration strategies – a key business issue today (German issue of “Computerworld”)
Mendoza ER, Beyschlag U
Computerwoche, June 26, 1987
1986
The role of portable software components in MAP solutions (in German)
Mendoza ER
Proceedings of the Workshop on the Manufacturing Automation Protocol, BIGTECH Berlin, Nov 1986
A comparison of Xerox Courier and CCITT remote operation service (in German)
Mendoza ER
Proceedings of the Workshop “ROS in open computer networks” of the German Informatics Society (GI), Munich, April 1986
1984
Concept and recommendations for the introduction of new office technologies at a large regional bank (in German)
Mendoza ER, Herboeck L, Peulen P
SCS Technical Report, Oct 1984
1982
The situation of Information Engineering in Developing Countries (in German)
Mendoza ER
Proceedings of the Seminar “Information Engineering and Industrialization in Developing Countries”, Technical University of Berlin, May 1982
OTHER PUBLICATION-RELATED ACTIVITIES
INFORMATION AND COMMUNICATIONS TECHNOLOGY (ICT)
Co-Chairman (with Ulf Beyschlag) and Co-Editor of the Proceedings Conferences “Muenchner OSI-Tage 1988, 1989, 1990, 1991)
Co-editor of the book “OSI in der Anwendungsebene” (OSI at the Application Layer)
Datakom 1988
BIOINFORMATICS AND SYSTEMS BIOLOGY
Reviewer for international journals:
PNAS, PloS Computational Biology, Bioinformatics, Molecular Biosystems, IEEE Transactions on Biomedical Circuits and Systems, IET Systems Biology, Biosystems, Mathematical Biosciences, Natural Computing, Theoretical Computer Science, PLoS ONE, New Phytologist, Pharmacopsychiatry, Journal of Biotechnology
PRESENTATIONS ON BIOINFORMATICS AND SYSTEMS BIOLOGY
2014
Chemical Reaction Network Theory – from Chemical Engineering to Systems Biology and beyond (Invited Talk)
Mendoza ER
Department of Chemical Engineering, ETH (Swiss Federal Insitute of Technology) Zürich, April 30, 2014
2013
The First Decade of Systems Biology in the Philippines (Invited Talk)
Mendoza ER
2nd Asian Regional Conference on Systems Biology (ARCSB 2013), Kuala Lumpur, October 8-9, 2013
Model Construction and Analysis of Ketone Body Metabolism in the Brain
Mariano SMT, Talaue CNO, Mendoza ER
2nd Asian Regional Conference on Systems Biology (ARCSB 2013), Kuala Lumpur, October 8-9, 2013
Construction and Structural Analysis of a Model of Dopamine D1 Receptor Trafficking in Renal Proximal Tubule Cells
Villar JJ, Arceo CPP, Mendoza ER
2nd Asian Regional Conference on Systems Biology (ARCSB 2013), Kuala Lumpur, October 8-9, 2013
Continuous Logical Modeling of the Submergence Regulatory Network in Rice
Nazareno A, Carreon-Jose E, Dionisio-Sese M, Mendoza ER
2nd Asian Regional Conference on Systems Biology (ARCSB 2013), Kuala Lumpur, October 8-9, 2013
Construction and Structural Analysis of a Chemical Reaction Network Model of Brassinosteroid Signaling
Cortez JV, Carreon-Jose E, Cadiz NM, Mendoza ER
2nd Asian Regional Conference on Systems Biology (ARCSB 2013), Kuala Lumpur, October 8-9, 2013
Construction and Structural Analysis of Models of Dopamine Synthesis and D1 Receptor Trafficking in Renal Proximal Tubule Cells (Poster Presentation)
Villar JJ, Lubenia PN, Arceo CPP, Talaue CNO, Escaner JM IV, Mendoza ER
Frontiers in Systems and Synthetic Biology Conference, Atlanta, March 23-25, 2013
Applications of process algebra for Nanosafety and Nanomedicine (Invited Lecture)
Mendoza ER
Graduiertenkolleg, University of Rostock, Germany , January 30, 2013
2012
Metabolic aspects of Alzheimer’s Disease
Mendoza ER
Institute of Biology, UP Diliman. Dec. 3, 2012
Mathematical Systems Biology – an Emerging Discipline
Mendoza ER
Institute of Mathematical Sciences and Physics, UPLB, Nov. 28, 2012
The First Decade of Systems Biology – Achievements, Pinoy Contributions and Challenges
Mendoza ER
Institute of Biological Sciences, UPLB, Nov. 9, 2012
Basic chronobiology for shift work research
Mendoza ER
Chronobiology and Shift Work Research Workshop, CIDS, Feb 10, 2012
Why Physicists should talk to Computer Scientists (and vice versa) (Keynote Talk)
Mendoza ER
UPM Science Week 2012, Jan 30, 2012
Learning new Science & Technology via networking (Invited Talk)
Mendoza ER
Philippinr Science High School Annual Science Fair, Quezon City, Jan 26, 2012
Computational approaches to enhance nanosafety and advance nanomedicine (Invited Talk)
Mendoza ER
UP Diliman Institute of Biology (Feb 6, 2012)
Computational approaches to enhance nanosafety and advance nanomedicine (Invited Talk)
Mendoza ER
Ateneo de Manila Chemistry Department, Jan 20, 2012
Modeling nanoparticle cell Interactions with stochastic process algebras (Invited Talk)
Mendoza ER
6th International Jagna Workshop, Jan 4-7, 2012
2011
(How) can New Sequencing Technologies help Algorithmic Systems Biology? (Invited Talk)
Mendoza ER
2nd Conference on Systems Biology and New Sequencing Technologies, Nov 2-4,2011. Trieste, Italy
New insights on influenza via stochastic brane algebra (Invited Talk)
Mendoza ER
Golden Anniversary Conference of the Ateneo Math Department, July 31, 2011
Engineering better medicines, in vivo <-> in silico (Invited Talk)
Mendoza ER
CSP Worshop on Grand Challenges in Computing, UP Diliman July 28-29, 2011
The PhilBIS Architecture
Mendoza ER
1st Philippine Biodiversity Informatics Workshop at CIDS UP Diliman, July 19, 2011
Towards a Standards-based Architecture for Philippine Biodiversity Information Systems
Mendoza ER
1st National Biodiversity & Environmental Management Conference, University of San Carlos, Cebu City, June 23-24, 2011
PhilSHIFT: Translating Chronobiology Research into health risk reduction aqnd productivity improvement in the philippine BPO industry (Contributed Talk)
Mendoza ER
31st APAMS, National Institute of Physics, Diliman QC, June 15-17, 2011
Evolving an information infrastructure for the global chronobiology community (Invited Lecture)
Mendoza ER
EUCLOCK Final Symposium, June 8-9, 2011, Berlin, Germany
Modeling the dopamine system in mammalian kidneys (Contributed Talk)
Mendoza ER
12th International Conference on Molecular Systems Biology, May 8-12, 2011, Lleida, Spain
Coordination Perspectives for PhilSHIFT
Mendoza ER
3rd PhilSHIFT Research Colloquiun, Manila, March 11, 2011
Algorithmic approaches to BioNanoInteractions (Invited Plenary Lecture)
Mendoza ER
Proceedings of IEEE 5th HNICEM Conference, March 10-12, 2011, Manila
Towards an Information Platform for Natural Products Research (Keynote Lecture)
Mendoza ER
Proceedings of 11th Philippine Computing Science Congress (PCSC 2011), March 4-5, 2011, Naga City, Philippines
Algorithmic Cell Biology – translating biological cartoons into computer programs (Invited Plenary Lecture)
Mendoza ER
6th Asian-Pacific Organization for Cell Biology Conference, Feb 25-28, 2011, Mandaluyong, Philippines
2010
How many trimers? Modeling influenza A virus fusion yields a minimum aggregate size of six trimers, three of which are fusogenic
Dobay MPD, Bantang JY, Mendoza ER
Workshop on Advanced Modeling and Simulation Techniques, International Conference on Systems Biology 2010, Edinburgh, UK
From ClockWork to PhilSHIFT
Mendoza ER
2nd Research Colloquium on Chronobiology and Shift Work, UP Manila, September 25, 2010
The global Bio-IT market: success stories and opportunities
Mendoza ER
8th Philippine Youth Congress for Information Technology (Y4IT), Quezon City, Sept 14-17, 2010
Geometric modeling of biological processes (Plenary Lecture)
Mendoza ER
Proceedings of 10th Philippine Computing Science Congress (PCSC 2010), March 5-7, 2010, Davao City, Philippines
Research Networks on Chronobiology and Shift Work
Mendoza ER
1st Research Colloquium on Chronobiology and Shift Work, UP Manila, February 6, 2010
The EUCLIS Family
Mendoza ER
4th Annual EUCLOCK Meeting, Frauenchiemsee, Germany. January 25-29, 2010
Mathematics and Informatics of membrane-mediated processes (Invited Talk)
Mendoza ER
Max Planck Institute of Mathematics in the Sciences, Leipzig, Jan 19, 2010
2009
The MIMeMP Proposal: Current Status
Mendoza ER
International Workshop on Mathematics and Informatics of membrane-mediated processes, Munich, Oct. 19-31, 2009
Towards the Development of a Natural Product Ontology
Manansala K, Batista-Navarro RTB, Mendoza ER
Proceedings of the 6th National Natural Language Processing Research Symposium, Sept 25-26, 2009 at DLSU Manila
Social Jet Lag and Shift Work: New Insights into the Human Circadian System
Ruiz-Aguila MESD, Mendoza ER
International Symposium on “The Future of Computational Biology”, Sept 21-23, 2009, Berlin, Germany
Modeling atonal membrane reactions with the projective brane calculus PABM
David MPC, Bantang JY, Mendoza ER
3rd MeCBIC Workshop, Sept 5, 2009 Bologna, Italy
Software tools for Systems Chronobiology
Santos L, Mendoza ER
International Symposium on Shift Work and Health Research, July 31, 2009, Manila, Philippines
Modeling concurrent systems: from cell phones to cell membranes
Mendoza ER
29th APAMS, July 13-15, 2009
The Philippine Network for Bioinformatics and Systems Biology: Evolving a sustainable platform for integrating experimental and computational Life Sciences
Mendoza ER
29th APAMS, July 13-15, 2009 Manila
Social Jet Lag, Shift Work and Senior Citizens: New Insights into the Human Circadian System
Mendoza ER
NAST Annual Scientific Meeting, July 8-9, 2009, Manila
Why Mathematics Is Important for Biology, why Biology is important for Mathematics
Mendoza ER
Lecture Series, Institute of Mathematics, UP Diliman, July 2009
The dopamine systems in neurons and nephrons (Invited Talk)
Mendoza ER
11th International Conference on Molecular Systems Biology, June 21-25, 2009, Shanghai, China
The synapse: where Systems Biology meets Proteomics today (Invited Lecture)
Mendoza ER
First International Conference on Radiation Proteomics, May 27-28, 2009, Munich, Germany
The evolution of synapse models; from number to networks (Invited Lecture)
Mendoza ER
5th International Workshop on Computational Neuropsychiatry, May 8-9, 2009 Munich, Germany
Modelling the dopamine synapse: from numbers to networks (Invited Lecture)
Mendoza ER
NIMH (NIH Bethesda, MD), March 27, 2009
Modelling the dopamine synapse: from numbers to networks to brane spaces (Invited Lecture)
Mendoza ER
Distinguished Seminar Series Lecture, IBSI at Georgia Tech, March 25, 2009
A Projective Brane Calculus based on Activate, Bud and Mate Primitive Actions (Invitational)
David MPC, Bantang JY, Youssef S, Mendoza ER
Workshop on “Formal Methods in Molecular Biology”, Leibniz Center for Informatics, Schloss Dagstuhl, Feb 26, 2009
Modelling the dopamine synapse: from numbers to networks (Invited Lecture)
Mendoza ER
Hamilton Institute, Maynooth, Ireland, Jan 14, 2009
2008
The Impact of Systems Biology on Drug Discovery and Development (Keynote Speech)
Mendoza ER
35th Annual Convention of the Philippine Society for Biochemistry and Molecular Biology, Dec 1-2, 2008, Quezon City, Philippines
Hybrid Modelling
Mendoza ER
Summer School on Medical Applications of Systems Biology, Sept 30-Oct 2, 2008, Tenerife, Spain
The Evolution of Information Technology as a Platform for 21st Century Life Sciences and its Industries (Keynote Speech)
Mendoza ER
The 2nd KAIST Institutes International Symposium, Sept 4-5, 2008, Daejeon, Korea
Computational Analysis of the circadian and dopamine systems (Invited paper)
Mendoza ER
XXVI Congress of the Collegium Internationale Neuro-Psychopharmacologicum (CINP), July 13-17, 2008, Munich
EUCLIS: Towards an Information Infrastructure for the Chronobiology community
Mendoza ER
17th European Chronobiology Summer School, June 7-14, 2008, Laulasmaa, Estonia
Modelling in Systems Biology: Methods and Challenges
Mendoza ER
4th International Workshop on Computational Neuropsychiatry, Focus on “Systems Biology and Addiction”, April 18-19, Haar, Germany
Understanding eukaryotic chemotaxis (Invited Paper)
Mendoza ER
7th HUGO Asia Pacific Conference, April 2-5, 2008, Cebu City, Philippines
An Integrated View of Apoptotic Processes—the MINA project
del Rosario RC, Mendoza ER
International Conference on ICT4Health, March 2008, Quezon City
Weaving the WeP - a worldwide experimental platform for Biomedical Studies (Invited Paper)
Mendoza E
International Conference on ICT4Health, March 2008, Quezon City
Towards a digital-library based common Information Space for Chronobiologists
Santos RD, Mendoza ER
10th International Conference on Molecular Systems Biology, Feb 25-28, 2008, Manila
Implementing Brane Calculus
David MP, Phillips A, Mendoza ER, Cardelli L
10th International Conference on Molecular Systems Biology, Feb 25-28, 2008, Manila
Cephalostatin-1 induced Apoptosis in Leukemic Cells: From Petri Net Model to Kinetic Model
Rodriguez EM, Del Rosario RC, Rudy A, Vollmar A, Mendoza ER
10th International Conference on Molecular Systems Biology, Feb 25-28, 2008, Manila
Model driven Optimization based on Standard Formalisms
Marin-Sanguino A, Torres-Darias NV, Mendoza ER, Oesterhelt D
10th International Conference on Molecular Systems Biology, Feb 25-28, 2008, Manila
MADMan: A Benchmarking Framework for Parameter Estimation in Biochemical Systems Theory Models
del Rosario RC, Echavez MT, de Paz MT, Zuñiga PC, Bargo MC, Talaue CO, Arellano C, Pasia JM, Naval, PC Jr., Voit EO, Mendoza ER
10th International Conference on Molecular Systems Biology, Feb 25-28, 2008, Manila
Systems Biology with SMILES (Keynote Speech)
Mendoza ER
10th International Conference on Molecular Systems Biology, Feb 25-28, 2008, Manila
Systems Biology of viral infection (Invited Paper)
Mendoza ER
Proceedings of the 8th Philippine Computing Science Congress (PCSC 2005), Feb 23-24, 2008, Quezon City
2007
What can we learn from a genome-scale model of unicellular metabolism (Invited Paper)
Mendoza ER
Proceedings of the International Conference on Amino Acids and Proteins – Amino Acids Forum Supplement, August 2007, Kallithea, Greece
EUCLIS – An Information System for Systems Chronobiology (Invited Paper)
Mendoza ER
EuroMouse II, 2nd European Conference on Mouse Functional Genomics, London July 2-4, 2007
Novel software approaches for Circadian Systems Biology
Mendoza ER
Proceedings of the 27th Annual PAASE Meeting & Symposium (APAMS 2007), Feb 2007, Manila
SMILES: The First 4 Years
Mendoza ER
Proceedings of the 27th Annual PAASE Meeting & Symposium (APAMS 2007), Feb 2007, Manila
2006
Systems Biophysics: An Opportunity for Filipino Researchers (Invited Paper)
Mendoza ER
Proceedings of the 24th SPP Physics Congress, October 25-27, 2006, Davao City
EUCLIS – An Information System for Circadian Systems Biology (Invited Paper)
Mendoza ER
Proceedings of the First International Conference on Computational Systems Biology, July 20-23, 2006, Shanghai, China
Digital Library Aspects in EUCLIS
Mendoza ER
1st ENGAGE European Union-Southeast Asia ICT Research Collaboration Conference, March 29-31, 2006, Manila
EUCLIS – An Information System for Circadian Systems Biology (Invited Paper)
Mendoza ER
Proceedings of the 6th Philippine Computing Science Congress (PCSC 2006), Mar 28-29, 2006, Quezon City
2005
The Open Microscopy Environment and Mapping Image Formats
Ganir P, Clarin C, Mendoza E
Proceedings of the ASEAN Microscopy Conference, Nov 24-25, 2005, Manila
A Graphical protocol editor for an integrated microscopy system
Zuñiga P, A. Balbuena A, Mendoza E
Proceedings of the ASEAN Microscopy Conference, Nov 24-25, 2005, Manila
Topological adjacency relations and digital topologies in Z2 and Z3
Balbuena AB, Mendoza ER, Tan EL
2005 International Workshop on Applied Mathematics, Nov 11-12, 2005, Chungnam National University, Daejon, South Korea
Systems Biology – Its Past, Present and Future (Keynote Speech)
Mendoza ER
Summer School on NanoScience and Systems Biology, July 25-28, 2005, Munich, Germany
Heuristic parameter estimation of S-System models of biochemical networks
Naval P, Gonzalez O, Sison L, Mendoza E
Proceedings of IEEE HNICEM05, March 17-20, 2005, Manila
Growing interdisciplinary science & emerging technologies through communities of practice
Mendoza ER
Proceedings of IEEE HNICEM05, March 17-20, 2005, Manila
Modelling biological systems with Petri Nets (Invited Paper)
Mendoza ER
Proceedings of the 5th Philippine Computing Science Congress (PCSC 2005), Mar 4-5, 2005, Cebu City
2004
Computational Aspects of Systems Biology (Invited Paper)
Mendoza ER
Proceedings of 4th Philippine Computing Science Congress (PCSC 2004), Feb 2004, Los Baños
2003
Signal Transport in the Chemical Compass of eukaryotic cells
Mendoza ER
CeNS Workshop on “Transport in Nanosystems”, Sep 28-30, 2003, Kloster Seeon, Germany
PRESENTATIONS ON MATHEMATICS
2013
Lectures on “Chemical Reaction Network Theory – from Chemical Engineering to Systems Biology”
Mendoza ER
Mathematics Department, De La Salle University, Oct 18, 2013
Lectures on “Chemical Reaction Network Theory – from Chemical Engineering to Systems Biology”
Mendoza ER
Mathematics Institute, UP Los Baños, Oct 17, 2013
Lectures on “Chemical Reaction Network Theory – from Chemical Engineering to Systems Biology”
Mendoza ER
Mathematics Institute, UP Diliman, Oct 11, 2013
2012
Lecture on “Group geometry and the minima of Hermitian forms”
Mendoza ER
Institute of Mathematics, Feb 6, 2012
Lecture on “Group geometry and the minima of Hermitian forms”
Mendoza ER
Ateneo de Manila Mathematics Department, Feb 3 2012
2010
Lectures on Bianchi Groups
Mendoza ER
UP Diliman Institute of Mathematics, Sept 22 and 29, 2010