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ITHEA Classification Structure > D. Software  > D.2 SOFTWARE ENGINEERING 
ITHEA Classification Structure > H. Information Systems  > H.2 DATABASE MANAGEMENT 
ITHEA Classification Structure > I. Computing Methodologies  > I.6 SIMULATION AND MODELING 
ITHEA Classification Structure > J. Computer Applications  > J.2 PHYSICAL SCIENCES AND ENGINEERING 
ITHEA Classification Structure > J. Computer Applications  > J.3 LIFE AND MEDICAL SCIENCES 
BIOLOGICAL PROCESSES STUDIES THROUGH SOFTWARE TOOLS:...
By: Perceval Vellosillo, Roberto Tomé, Verónica Llorens-Rico, (4215 reads)
Rating: (1.00/10)

Abstract: In this paper is aim to design a new software tool that allows to create synthetic biology complex systems and genetic circuit designs, as well as to carry out the development of these models using a wide set of biological and biochemical rules. Thus, it will keep a very close relationship respect to the real characteristics of the biological systems and their environment, obtaining then a high reproducibility in the progress and simulation systems in relation to the progress of the real experiment. It will describe a comparison between two software tools which allow us to design, build and simulate synthetic biology networks and biochemical processes. The progress, improvement and combination of the distinct possibilities that offer both software as well as the analysis of a joint usage of them will result the creation of the new software.

Keywords: synthetic biology, natural computation, COPASI, SynBioSS?, biological systems, synthetic biology,in silico, in vivo, in vitro, BioBricks?, SBML, XML, repressilator.

ACM Classification Keywords: D.2 SOFTWARE ENGINEERING, H.2 DATABASE MANAGEMENT J.3 LIFE AND MEDICAL SCIENCES, I.6 SIMULATION AND MODELING, J.2 PHYSICAL SCIENCES AND ENGINEERING.

Link:

BIOLOGICAL PROCESSES STUDIES THROUGH SOFTWARE TOOLS: DEVELOPMENT AND OPTIMIZATION IN THE SIMULATION OF SYNTHETIC BIOLOGICAL CONSTRUCTIONS

Perceval Vellosillo, Roberto Tomé, Verónica Llorens-Rico?, Juan B. Castellanos

http://www.foibg.com/ijitk/ijitk-vol07/ijitk07-01-p03.pdf

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D.2 SOFTWARE ENGINEERING
article: BIOLOGICAL PROCESSES STUDIES THROUGH SOFTWARE TOOLS:... · MULTIAGENT SYSTEM FOR SMART DOCUMENT ANALYSIS · A "CROSS-TECHNOLOGY" SOFTWARE DEVELOPMENT APPROACH · SYSTEMOLOGICAL BUSINESS MODELLING FOR INFORMATION SYSTEMS DEVELOPMENT · IMPLEMENTATION OF DISTANT LEARNING PORTALS BASED ON ... · DATA INDEPENDENCE IN THE MULTI-DIMENSIONAL NUMBERED INFORMATION SPACES · ARCHITECTURE AND IMPLEMENTATION OF REPORTING MEANS IN ADAPTIVE · SOFTWARE TESTING AND DOCUMENTING AUTOMATION · COMPLEX PROTECTION SYSTEM OF METADATA-BASED DISTRIBUTED · DESIGN STANDARDIZED WEB-COMPONENTS FOR E-LEARNING · ACCESS RIGHTS INHERITANCE IN INFORMATION SYSTEMS CONTROLLED BY METADATA ·
H.2 DATABASE MANAGEMENT
article: BIOLOGICAL PROCESSES STUDIES THROUGH SOFTWARE TOOLS:... · ОБОБЩЕННОЕ ИСЧИСЛЕНИЕ НА ДОМЕНЕ ·
I.6 SIMULATION AND MODELING
article: About convergence of fuzzy perceptive elements sequences, defined on ... · METHOD FOR CONTROLLING STATE CHANNEL WIRELESS NETWORKS UNDER A PRIORI ... · PROBLEM OF RESTORING THE FUNCTIONS-SIGNALS BY FINITE SET OF DATA WITH ERRORS · SOME APPROACHES TO THE DEVELOPMENT OF ANALYTICAL MODEL FOR THE RESEARCH ... · MICRORAM: A SIMULATION MODEL OF A COLONY OF BACTERIA EVOLVING INSIDE ... · MODELING AND OPTIMIZATION OF CRYOGENIC – OPTICAL GRAVIMETERS · ЛИНГВИСТИЧЕСКИЕ И ИНТЕЛЛЕКТУАЛЬНЫЕ ИНСТРУ� · CELLULAR COMPUTING: TOWARDS AN ARTIFICIAL CELL · SIMULATION OF BIOLOGICAL MODELS USING CAD TOOLS: NEEDS AND FUTURE · BIOLOGICAL PROCESSES STUDIES THROUGH SOFTWARE TOOLS:... · MODELING, SIMULATION AND APPLICATION OF BACTERIAL TRANSDUCTION IN ... · ABOUT POSSIBILITY-THEORETICAL METHOD OF PIECEWISE-LINEAR APPROXIMATION ... · PARETO-OPTIMUM APPROACH TO MATHEMATICAL MODELING OF ODOURS IDENTIFICATION ... · ОБОБЩЕНИЯ ПРИНЦИПОВ РАСПРЕДЕЛЕНИЯ ЗАТРАТ Д · ENERGY-EFFICIENT PROTOCOL IN OMNET++ SIMULATION ENVIRONMENT · SELF-ORGANIZING ROUTING ALGORITHM FOR WIRELESS SENSORS NETWORKS (WSN) USING ... · GLOBAL MEMORY STRUCTURE FOR ANT COLONY OPTIMIZATION ALGORITHMS · SIMULATION OF DNA CUTTING · COLLISION DETECTION AND TREATMENT USING 2D RECONFIGURABLE HARDWARE · APPLICATION OF PARETO OPTIMIZATION APPROACH TO OBSERVABILITY PROBLEM ... · INDIVIDUALLY OPTIMAL PRINCIPLES OF DISTRIBUTION OF GREENHOUSE GAS EMMISION QUOT · GENE CODIFICATION FOR NOVEL DNA COMPUTING PROCEDURES · AN ONTOLOGY-BASED APPROACH TO THE INCOMPLETE SIMULATION MODEL ... · REDUCTION MEASUREMENTS FOR CALCULATION IN FUZZY EXPERIMENT SCHEME · A DNA CODIFICATION FOR GENETIC ALGORITHMS SIMULATION · GLOBAL MEMORY STRUCTURE FOR ANT COLONY OPTIMIZATION ALGORITHMS · SIMULATION OF DNA CUTTING · PROGNOSTICATION OF EFFICIENCY OF MEDICAL AND PROPHYLACTIC ... · STATISTICAL MODELING OF SPREAD OF OPTICAL FIELDS IN FIRES · DNA SIMULATION OF GENETIC ALGORITHMS: FITNESS COMPUTATION1 · SOLVING TRAVELLING SALESMAN PROBLEM IN A SIMULATION ... · DYNAMIC DISTRIBUTION SIMULATION MODEL OBJECTS ... ·
J.2 PHYSICAL SCIENCES AND ENGINEERING
article: DIDACTIC DESIGNING OF RESOURCE SUPPORT FOR TRAINING ENVIRONMENT · PREDICTIVE MODELING OF SPATIAL REDISTRIBUTION IN DYNAMICAL MODELS OF GLOBAL ... · WIRELESS DATA TRANSMISSION OPTIONS IN ROTARY IN-DRILLING ALIGNMENT(R-IDA) ... · BIOLOGICAL PROCESSES STUDIES THROUGH SOFTWARE TOOLS:... · ENERGY HARVESTING IN HORIZONTAL DRILLING PROCESSES FOR THE PURPOSE OF INFORMATIO · METHODS OF RECONSTRUCTION OF SURFACE PROFILES MEASURED BY STYLUS METHOD · USING REAL-TIME SYSTEM TO MANAGE PRODUCTION DATA IN A DISTRIBUTED SYSTEM · SYMMETRIZATION: RANKING AND CLUSTERING IN PROTEIN INTERFACES · GOD-ICS. ON FUNDAMENTAL INFORMATION FIELD QUEST · PREDICTION OF STYLUS TIP RADIUS · SIMULATION OF THE EFFECT OF STYLUS TIP RADIUS ON THE RESULTS OF SURFACE ... · ON A DIRECT APPROACH TO THE SOLUTION OF INVERSE OPTICAL PROBLEMS · PREDICTION OF STYLUS TIP RADIUS · MODELING OPTICAL RESPONSE OF THIN FILMS: CHOICE OF THE REFRACTIVE INDEX ... · DEVICE FOR COUNTING OF THE GLASS BOTTLES ON THE CONVEYOR BELT ·
J.3 LIFE AND MEDICAL SCIENCES
article: About estimate of fuzzy differential equations distribution · APPLICATION OF FIBER-OPTICAL MODULATORS AS MEASURING DEVICES IN ... · IT-COMMUNICATORS FOR MEDICINE · MULTILEVEL SENSOR NETWORKS FOR PRECISION FARMING AND ENVIRONMENTAL MONITORING · CHARACTERIZATION OF A CUFF-BASED SHAPE MEMORY ALLOY (SMA) ACTUATOR · PORTABLE BIOSENSOR: FROM IDEA TO MARKET · GEOMETRIC APPROACH FOR GAUSSIAN-KERNEL BOLSTERED ERROR ESTIMATION... · SIMULATION OF BIOLOGICAL MODELS USING CAD TOOLS: NEEDS AND FUTURE · BIOLOGICAL PROCESSES STUDIES THROUGH SOFTWARE TOOLS:... · REMOTE SMART BIOSENSORS FOR PRECISION FARMING AND ENVIRONMENT PROTECTION · AUTOMATED SYSTEM FOR QUANTIFYING THE LEVEL OF PREPARATION IN COLONOSCOPY · АНАЛИЗ АЛГОРИТМОВ ПРОГНОЗИРОВАНИЯ ТРЕТИЧН� · ON THE DISCRETIZATION OF DISTANCE GEOMETRY PROBLEMS · SYMMETRIZATION: RANKING AND CLUSTERING IN PROTEIN INTERFACES · DATA ACQISITION SYSTEMS FOR PRECISION FARMING · HISTOLOGY IMAGE SEGMENTATION · ВЫЯВЛЕНИЕ ФРАКТАЛОПОДОБНЫХ СТРУКТУР В ДНК- · PORTABLE DEVICE "FLORATEST" AS TOOL FOR ESTIMATING OF MEGALOPOLIS ECOLOGY STATE · KIRLIAN IMAGE PREPROCESSING DIAGNOSTIC SYSTEM · WIRELESS COMMUNICATION AND CONTROL SYSTEM FOR PORTABLE ... · ON THE FEASIBILITY OF STEERING SWALLOWABLE MICROSYSTEM CAPSULES USING ... · ANALYSIS OF DERMATOGLYPHIC SIGNS FOR DEFINITION PSYCHIC FUNCTIONAL ... · PORTABLE DEVICE "FLORATEST" AS TOOL FOR ESTIMATING OF MEGALOPOLIS ECOLOGY STATE · SMART PORTABLE FLUOROMETER FOR EXPRESS-DIAGNOSTICS OF PHOTOSYNTHESIS: ... · APPLICATION OF THE ARTIFICIAL INTELLIGENCE ALGORITHMS FOR SYSTEM ANALYSIS ... · APPLICATION OF NETWORK TECHNOLOGIES FOR DEVELOPMENT ... · ANALYSIS AND OPTIMIZATION OF SYNTHETIC APERTURE ULTRASOUND ... · EXPLORATION BY MEANS OF COMPUTER SIMULATION OF NONLINEAR HIERARCHICAL ... · MODEL CONSTRUCTION AND RESEARCH USING SYSTEM COMPOSITIONAL ... · GROUND OF MODEL FOR THE GENERALIZED CRITERION FORMING AT ... ·
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