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1

Global sensitivity analysis of a model related to memory formation in synapses: Model reduction based on epistemic parameter uncertainties and related issues

Kulasiri, Don, Liang, Jingyi, He, Yao, Samarasinghe, Sandhya

Journal:

Journal of Theoretical Biology

Year:

2017

Language:

english

File:

PDF, 2.70 MB

english, 2017

2

Synthesizing Neurophysiology, Genetics, Behaviour and Learning to Produce Whole-Insect Programmable Sensors to Detect Volatile Chemicals

Rains, Glen C., Kulasiri, Don, Zhou, Zhongkun, Samarasinghe, Sandhya, Tomberlin, Jeffery K., Olson, Dawn M.

Journal:

Biotechnology and Genetic Engineering Reviews

Year:

2009

Language:

english

File:

PDF, 407 KB

english, 2009

3

Production of Milk Phospholipid-Enriched Dairy Ingredients

Huang, Zhiguang, Zheng, Haotian, Brennan, Charles S., Mohan, Maneesha S., Stipkovits, Letitia, Li, Lingyi, Kulasiri, Don

Journal:

Year:

2020

File:

PDF, 471 KB

2020

4

An unbiased sensitivity analysis reveals important parameters controlling periodicity of circadian clock

Zhi Xie, Don Kulasiri, Sandhya Samarasinghe, Jiang Qian

Journal:

Biotechnology and Bioengineering

Year:

2010

Language:

english

File:

PDF, 332 KB

english, 2010

5

Robustness of G1/S checkpoint pathways in cell cycle regulation based on probability of DNA-damaged cells passing as healthy cells

Hong Ling, Don Kulasiri, Sandhya Samarasinghe

Journal:

Year:

2010

Language:

english

File:

PDF, 640 KB

english, 2010

6

Using insect sniffing devices for detection

Glen C. Rains, Jeffery K. Tomberlin, Don Kulasiri

Journal:

Trends in Biotechnology

Year:

2008

Language:

english

File:

PDF, 448 KB

english, 2008

7

On the functional diversity of dynamical behaviour in genetic and metabolic feedback systems

Lan K Nguyen, Don Kulasiri

Journal:

BMC Systems Biology

Year:

2009

Language:

english

File:

PDF, 2.26 MB

english, 2009

8

[Methods in Enzymology] Computer Methods, Part C Volume 487 || Computing Molecular Fluctuations in Biochemical Reaction Systems Based on a Mechanistic, Statistical Theory of Irreversible Processes

Year:

2011

Language:

english

File:

PDF, 531 KB

english, 2011

9

Novel recurrent neural network for modelling biological networks: Oscillatory p53 interaction dynamics

Ling, Hong, Samarasinghe, Sandhya, Kulasiri, Don

Journal:

Year:

2013

Language:

english

File:

PDF, 2.44 MB

english, 2013

10

Computational experiments reveal the efficacy of targeting CDK2 and CKIs for significantly lowering cellular senescence bar for potential cancer treatment

Ling, Hong, Samarasinghe, Sandhya, Kulasiri, Don

Journal:

Year:

2013

Language:

english

File:

PDF, 1.68 MB

english, 2013

11

[Advances in Geophysical and Environmental Mechanics and Mathematics] Non-fickian Solute Transport in Porous Media ||

Year:

2013

Language:

english

File:

PDF, 6.59 MB

english, 2013

12

[IEEE 2011 IEEE International Conference on Systems Biology (ISB) - Zhuhai, China (2011.09.2-2011.09.4)] 2011 IEEE International Conference on Systems Biology (ISB) - Robustness of CDK2 in triggering cellular senescence based on probability of DNA-damaged cells passing G1/S checkpoint

Ling, Hong, Samarasinghe, Sandhya, Kulasiri, Don

Year:

2011

Language:

english

File:

PDF, 636 KB

english, 2011

13

Mathematical modelling of p53 basal dynamics and DNA damage response

Chong, Ket Hing, Samarasinghe, Sandhya, Kulasiri, Don

Journal:

Mathematical Biosciences

Year:

2015

Language:

english

File:

PDF, 1.73 MB

english, 2015

14

Ca2+ dysregulation in the endoplasmic reticulum related to Alzheimer’s disease: A review on experimental progress and computational modeling

Liang, Jingyi, Kulasiri, Don, Samarasinghe, Sandhya

Journal:

Year:

2015

Language:

english

File:

PDF, 2.72 MB

english, 2015

15

Integrated Analysis of Gene Network in Childhood Leukemia from Microarray and Pathway Databases

Chaiboonchoe, Amphun, Samarasinghe, Sandhya, Kulasiri, Don, Salehi-Ashtiani, Kourosh

Journal:

BioMed Research International

Year:

2014

Language:

english

File:

PDF, 463 KB

english, 2014

16

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || A Stochastic Inverse Method to Estimate Parameters in Groundwater Models

Year:

2002

Language:

english

File:

PDF, 422 KB

english, 2002

17

Integrated signaling pathway and gene expression regulatory model to dissect dynamics of Escherichia coli challenged mammary epithelial cells

den Breems, Nicoline Y., Nguyen, Lan K., Kulasiri, Don

Journal:

Year:

2014

Language:

english

File:

PDF, 1.29 MB

english, 2014

18

Machine Learning for Childhood Acute Lymphoblastic Leukaemia Gene Expression Data Analysis: A Review

Chaiboonchoe, Amphun, Samarasinghe, Sandhya, Kulasiri, Don

Journal:

Current Bioinformatics

Year:

2010

Language:

english

File:

PDF, 548 KB

english, 2010

19

A Review of Systems Biology Perspective on Genetic Regulatory Networks with Examples

Kulasiri, Don, Nguyen, Lan, Samarasinghe, Sandhya, Xie, Zhi

Journal:

Current Bioinformatics

Year:

2008

Language:

english

File:

PDF, 740 KB

english, 2008

20

ON EXPLORING EFFECTS OF MOLECULAR NOISE IN A SIMPLE VIRAL INFECTION MODEL

XIE, ZHI, KULASIRI, DON

Journal:

International Journal of Biomathematics

Year:

2010

Language:

english

File:

PDF, 353 KB

english, 2010

21

AIP Conference Proceedings [AIP 2011 INTERNATIONAL SYMPOSIUM ON COMPUTATIONAL MODELS FOR LIFE SCIENCES (CMLS-11) - Toyama City, (Japan) (11–13 October 2011)] - Robustness of CDK2 in Triggering Cellular Senescence based on Probability of DNA-damaged Cells Passing G1∕S Checkpoint

Ling, Hong, Samarasinghe, Sandhya, Kulasiri, Don, Pham, Tuan D., Zhou, Xiaobo, Tanaka, Hiroshi, Oyama-Higa, Mayumi, Jiang, Xiaoyi, Sun, Changming, Kowalski, Jeanne, Jia, Xiuping

Year:

2011

Language:

english

File:

PDF, 364 KB

english, 2011

22

DifFUZZY: a fuzzy clustering algorithm for complex datasets

Cominetti, Ornella, Matzavinos, Anastasios, Samarasinghe, Sandhya, Kulasiri, Don, Liu, Sijia, Maini, Philip K., Erban, Radek

Journal:

International Journal of Computational Intelligence in Bioinformatics and Systems Biology

Year:

2010

Language:

english

File:

PDF, 1.72 MB

english, 2010

23

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || Modeling Solute Transport in Porous Media

Year:

2002

Language:

english

File:

PDF, 1.31 MB

english, 2002

24

Modelling Bidirectional Modulations in Synaptic Plasticity: A Biochemical Pathway Model to Understand the Emergence of Long Term Potentiation (LTP) and Long Term Depression (LTD)

He, Yao, Kulasiri, Don, Samarasinghe, Sandhya

Journal:

Journal of Theoretical Biology

Year:

2016

Language:

english

File:

PDF, 1.67 MB

english, 2016

25

Computational modeling and experimental validation of odor detection behaviors of classically conditioned parasitic wasp, Microplitis croceipes

Zhou, Zhongkun, Kulasiri, Don, Samarasinghe, Sandhya, Rains, Glen, Olson, Dawn M.

Journal:

Biotechnology Progress

Year:

2015

Language:

english

File:

PDF, 974 KB

english, 2015

26

A comprehensive complex systems approach to the study and analysis of mammalian cell cycle control system in the presence of DNA damage stress

Abroudi, Ali, Samarasinghe, Sandhya, Kulasiri, Don

Journal:

Journal of Theoretical Biology

Year:

2017

Language:

english

File:

PDF, 1.86 MB

english, 2017

27

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || Potential Theory Approach to SDEs

Year:

2002

Language:

english

File:

PDF, 761 KB

english, 2002

28

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || Solving Stochastic Differential Equations

Year:

2002

Language:

english

File:

PDF, 213 KB

english, 2002

29

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || A Stochastic Computational Model for Solute Transport in Porous Media

Year:

2002

Language:

english

File:

PDF, 1.96 MB

english, 2002

30

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || Stochastic Modeling of the Velocity

Year:

2002

Language:

english

File:

PDF, 1.11 MB

english, 2002

31

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || Applying Potential Theory Modeling to Solute Dispersion

Year:

2002

Language:

english

File:

PDF, 1.75 MB

english, 2002

32

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || Computer Simulation of Brownian Motion and Ito Processes

Year:

2002

Language:

english

File:

PDF, 546 KB

english, 2002

33

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || A Brief Review of Mathematical Background

Year:

2002

Language:

english

File:

PDF, 1.38 MB

english, 2002

34

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || Preface

Year:

2002

Language:

english

File:

PDF, 103 KB

english, 2002

35

[North-Holland Series in Applied Mathematics and Mechanics] Stochastic Dynamics - Modeling Solute Transport in Porous Media Volume 44 || Solving the Eigenvalue Problem for a Covariance Kernel with Variable Correlation Length

Year:

2002

Language:

english

File:

PDF, 985 KB

english, 2002

36

[Series on Advances in Bioinformatics and Computational Biology] Computational Systems Biology of Synaptic Plasticity Volume 10 (Modelling of Biochemical Pathways Related to Memory Formation and Impairment) || Bidirectionality of Synaptic Pathways Related to LTP and LTD

Kulasiri, Don, He, Yao

Year:

2017

Language:

english

File:

PDF, 3.70 MB

english, 2017

37

[Series on Advances in Bioinformatics and Computational Biology] Computational Systems Biology of Synaptic Plasticity Volume 10 (Modelling of Biochemical Pathways Related to Memory Formation and Impairment) || A Theoretical Model of State Transition of CaMKII

Kulasiri, Don, He, Yao

Year:

2017

Language:

english

File:

PDF, 5.57 MB

english, 2017

38

[Series on Advances in Bioinformatics and Computational Biology] Computational Systems Biology of Synaptic Plasticity Volume 10 (Modelling of Biochemical Pathways Related to Memory Formation and Impairment) || Proteins, Mechanisms and Networks in NMDAR-dependent Synaptic Plasticity

Kulasiri, Don, He, Yao

Year:

2017

Language:

english

File:

PDF, 2.52 MB

english, 2017

39

Computational investigation of Amyloid-β-induced location- and subunit-specific disturbances of NMDAR at hippocampal dendritic spine in Alzheimer’s disease

Liang, Jingyi, Kulasiri, Don, Samarasinghe, Sandhya, Ortinski, Pavel I.

Journal:

Year:

2017

Language:

english

File:

PDF, 4.79 MB

english, 2017

40

On modelling the drying of porous materials: analytical solutions to coupled partial differential equations governing heat and moisture transfer

Kulasiri, Don, Woodhead, Ian

Journal:

Mathematical Problems in Engineering

Year:

2005

Language:

english

File:

PDF, 2.14 MB

english, 2005

41

A Novel Data-Driven Boolean Model for Genetic Regulatory Networks

Chen, Leshi, Kulasiri, Don, Samarasinghe, Sandhya

Journal:

Frontiers in Physiology

Year:

2018

Language:

english

File:

PDF, 2.93 MB

english, 2018

42

Mathematical modelling of core regulatory mechanism in p53 protein that activates apoptotic switch

Chong, Ket Hing, Samarasinghe, Sandhya, Kulasiri, Don, Zheng, Jie

Journal:

Journal of Theoretical Biology

Year:

2018

Language:

english

File:

PDF, 1.71 MB

english, 2018

43

CDK2 and CKI targeting can significantly lower the cellular senescence bar - reveals a mathematical model of G1/S checkpoint pathway

Ling, Hong, Samarasinghe, Sandhya, Kulasiri, Don

Journal:

Nature Precedings

Year:

2010

Language:

english

File:

PDF, 693 KB

english, 2010

44

CDK2 and CKI targeting can significantly lower the cellular senescence bar - reveals a mathematical model of G1/S checkpoint pathway

Ling, Hong, Samarasinghe, Sandhya, Kulasiri, Don

Journal:

Nature Precedings

Year:

2010

File:

PDF, 693 KB

2010

45

Towards Abstraction of Computational Modelling of Mammalian Cell Cycle: Model Reduction Pipeline Incorporating Multi-Level Hybrid Petri Nets

Abroudi, Ali, Samarasinghe, Sandhya, Kulasiri, Don

Journal:

Journal of Theoretical Biology

Year:

2020

File:

PDF, 1.87 MB

2020

46

Using activity time windows and logical representation to reduce the complexity of biological network models: G1/S checkpoint pathway with DNA damage

Abroudi, Ali, Samarasinghe, Sandhya, Kulasiri, Don

Journal:

Year:

2020

Language:

english

File:

PDF, 769 KB

english, 2020

47

Milk phospholipid antioxidant activity and digestibility: Kinetics of fatty acids and choline release

Huang, Zhiguang, Brennan, Charles, Zhao, Hui, Guan, Wenqiang, Mohan, Maneesha S., Stipkovits, Letitia, Zheng, Haotian, Liu, Jianfu, Kulasiri, Don

Journal:

Journal of Functional Foods

Year:

2020

File:

PDF, 759 KB

2020

48

Milk lipid in vitro digestibility in wheat, corn and rice starch hydrogels

Huang, Zhiguang, Brennan, Charles S., Mohan, Maneesha S., Stipkovits, Letitia, Zheng, Haotian, Kulasiri, Don, Wenqiang, Guan, Zhao, Hui, Liu, Jianfu

Journal:

International Journal of Food Science & Technology

Year:

2020

File:

PDF, 12.19 MB

2020

49

Fabrication and assessment of milk phospholipid-complexed antioxidant phytosomes with vitamin C and E: A comparison with liposomes

Huang, Zhiguang, Brennan, Charles Stephen, Zhao, Hui, Liu, Jianfu, Guan, Wenqiang, Mohan, Maneesha S., Stipkovits, Letitia, Zheng, Haotian, Kulasiri, Don

Journal:

Year:

2020

File:

PDF, 526 KB

2020

50

A GENERALIZED STOCHASTIC SOLUTE TRANSPORT MODEL FOR MULTISCALE DISPERSION IN POROUS MEDIA

Kulasiri, Don, Ling, Hong, Samarasinghe, Sandhya

Journal:

Journal of Porous Media

Year:

2012

File:

PDF, 379 KB

2012