Computational Modeling for the Activation Cycle of G-proteins by G-protein-coupled Receptors

In this paper, we survey five different computational modeling methods. For comparison, we use the activation cycle of G-proteins that regulate cellular signaling events downstream of G-protein-coupled receptors (GPCRs) as a driving example. Starting from an existing Ordinary Differential Equations (ODEs) model, we implement the G-protein cycle in the stochastic Pi-calculus using SPiM, as Petri-nets using Cell Illustrator, in the Kappa Language using Cellucidate, and in Bio-PEPA using the Bio-PEPA eclipse plug in. We also provide a high-level notation to abstract away from communication primitives that may be unfamiliar to the average biologist, and we show how to translate high-level programs into stochastic Pi-calculus processes and chemical reactions.Comment: In Proceedings MeCBIC 2010, arXiv:1011.005

Microservices and Machine Learning Algorithms for Adaptive Green Buildings

In recent years, the use of services for Open Systems development has consolidated and strengthened. Advances in the Service Science and Engineering (SSE) community, promoted by the reinforcement of Web Services and Semantic Web technologies and the presence of new Cloud computing techniques, such as the proliferation of microservices solutions, have allowed software architects to experiment and develop new ways of building open and adaptable computer systems at runtime. Home automation, intelligent buildings, robotics, graphical user interfaces are some of the social atmosphere environments suitable in which to apply certain innovative trends. This paper presents a schema for the adaptation of Dynamic Computer Systems (DCS) using interdisciplinary techniques on model-driven engineering, service engineering and soft computing. The proposal manages an orchestrated microservices schema for adapting component-based software architectural systems at runtime. This schema has been developed as a three-layer adaptive transformation process that is supported on a rule-based decision-making service implemented by means of Machine Learning (ML) algorithms. The experimental development was implemented in the Solar Energy Research Center (CIESOL) applying the proposed microservices schema for adapting home architectural atmosphere systems on Green Buildings

Compact Representation of Photosynthesis Dynamics by Rule-based Models (Full Version)

Traditional mathematical models of photosynthesis are based on mass action kinetics of light reactions. This approach requires the modeller to enumerate all the possible state combinations of the modelled chemical species. This leads to combinatorial explosion in the number of reactions although the structure of the model could be expressed more compactly. We explore the use of rule-based modelling, in particular, a simplified variant of Kappa, to compactly capture and automatically reduce existing mathematical models of photosynthesis. Finally, the reduction procedure is implemented in BioNetGen language and demonstrated on several ODE models of photosynthesis processes. This is an extended version of the paper published in proceedings of 5th International Workshop on Static Analysis and Systems Biology (SASB) 2014.Comment: SASB 2014 full pape

Linguistic Markers of Influence in Informal Interactions

There has been a long standing interest in understanding `Social Influence' both in Social Sciences and in Computational Linguistics. In this paper, we present a novel approach to study and measure interpersonal influence in daily interactions. Motivated by the basic principles of influence, we attempt to identify indicative linguistic features of the posts in an online knitting community. We present the scheme used to operationalize and label the posts with indicator features. Experiments with the identified features show an improvement in the classification accuracy of influence by 3.15%. Our results illustrate the important correlation between the characteristics of the language and its potential to influence others.Comment: 10 pages, Accepted in NLP+CSS workshop for ACL (Association for Computational Linguistics) 201

A GIS approach towards estimating tourist's off-road use in a mountainous protected area of Northwest Yunnan, China

To address the environmental impacts of tourism in protected areas, park managers need to understand the spatial distribution of tourist use. Standard monitoring measures (tourist surveys and counting and tracking techniques) are not sufficient to accomplish this task, in particular for off-road travel. This article predicts tourists' spatial use patterns through an alternative approach: park accessibility measurement. Naismith's rule and geographical information system's anisotropic cost analysis are integrated into the modeling process, which results in a more realistic measure of off-road accessibility than that provided by other measures. The method is applied to a mountainous United Nations Educational, Scientific and Cultural Organization (UNESCO) World Heritage Site in northwest Yunnan Province, China, where there is increasing concern about potential impacts of unregulated tourist use. Based on the assumption that accessibility tends to attract more tourists, a spatial pattern of predicted off-road use by tourists is derived. This pattern provides information that can help park managers develop strategies that are effective for both tourism management and species conservation