Step 1. Download MetaPlab-1.3 with MP-GeneticSynth from here (Java JRE 6u45 or later required).
Step 2. Read the Quick Start Guide to learn how to run MP-GeneticSynth.
Step 4. Read the Mitotic Case Study Tutorial to test each functionality.
Step 5. Consult the Main Guide to get advanced information.
Step 6. Refer to the Javadoc to learn how the code is implemented.
|Mitotic oscillator. Mitotic oscillator in early amphibian embryos. This MP model derives from the differential model proposed in 1991 by Goldbeter (reference).|
|Noisy mitotic oscillator. Mitotic oscillator with noisy time series.|
|Predator-prey. Lodka-Volterra model for predator-prey systems (reference).|
|Chaotic logistic map (r=3.9). Synthetic model of the chaotic logistic map. Proposed by May in 1976 and published in Nature (reference) this is a very complex dynamics from which MP-GeneticSynth manages to infer regulation mechanisms.|
|Vega. Synthetic model proposed by Manca (reference) having a complex oscillatory dynamics from that MP-GeneticSynth manages to infer regulation mechanisms.|
|Mitotic oscillator. Test experiments about the mitotic oscillator in early amphibian embryos proposed in 1991 by Goldbeter.|
|Noisy mitotic oscillator. Test experiments about the noisy mitotic oscillator.|
|Predator-prey. Test experiments about the Lodka-Volterra model for predator-prey systems.|
|Chaotic logistic map. Test experiments about the chaotic logistic map proposed by Robert May in 1976.|
|Vega. Test experiments about the Vega model proposed by Vincenzo Manca.|
|Quick Start Guide. A quick guide for installing and running MP-GeneticSynth, with references to all other resources (docs, models, exps).|
|MP-GeneticSynth Video 1 A step-by-step video tutorial that explains how generate new experiments by MP-GeneticSynth.|
|MP-GeneticSynth Video 2 A step-by-step video tutorial that explains how to analyse MP-GeneticSynth experiments by the ExpAnalyzer.|
|Mitotic Case Study Tutorial. A step-by-step tutorial that explains how to use MP-GeneticSynth to generate and analyze regulation functions for the case study of the mitotic oscillator in early amphibian embryos.|
|Main Guide. It explains all functionalities and graphical interface elements (buttons, charts, etc.). Moreover, it reports installation procedures and references to other documentation documents.|
|Javadoc. API documentation of MP-GeneticSynth code. All packages, classes and methods are explained.|
|Castellini,A., Zucchelli,M., Busato,M., Manca, V. (2013) From time series to biological network regulations: an evolutionary approach, Molecular BioSystems , 9(2), 225-233.|
|Castellini,A., Manca,V., Zucchelli,M. (2012) Towards an evolutionary procedure for reverse-engineering biological networks. In C. A. Coello Coello et al, editor, Artificial Immune Systems - 11th International Conference, ICARIS 2012, LNCS 7597, pages 271-285. Springer.|
|Manca,V. (2013) Infobiotics: information in biotic systems, Springer.|
|Castellini,A., Franco,G., Pagliarini,R. (2011) Data analysis pipeline from laboratory to MP models. Natural Computing 10(1): 55-76.|
|Castellini,A., Manca,V. (2009) MetaPlab: A computational framework for metabolic P systems, LNCS, 5391, 157-168, Springer-Verlag.|