Team:SYSU-Software/Description

SYSU-Software:Project

DESCRIPTION

  • OUR

  • CONSIDERATION

  • Construct target synthetic biological systems in

  • complex environment.

  • Synthetic biology uses a series of basic circuits to solve many

  • problems. However, as to the systems with more complex func-

  • tions, there have not been some certain general design proce-

  • dures for them, due to the fact that many restrictions for model-

  • ing and experiments do exist. Also, at the community level, there

  • is no general rule for constructing biosystems.

  • Problems

  • Limited research targets

  • The standard research process of synthetic biology is from

  • natural research to standardization, design synthetic biological

  • system and wet-lab validation respectively. Owing to the restri-

  • ctions of standard process, the standardized circuits are always

  • from natural circuits, resulting many potential optimal solutions

  • could not be found at one time.

  • Massive Data

  • Moving to the step of design, owing to the complexity of bio-

  • logical systems and the diversity of species, it is almost impossible

  • to construct feasible synthetic biosystem by ourselves. At the

  • same time, the large data volume adds to the burden of process-

  • ing them.

  • Complexity in experiment design

  • Concerning the wet-lab validation, experiment design in syn-

  • thetic biological system can be extremely convoluted and

  • time-consuming.

  • Load of Computation

  • As the research further develops and the number of user in-

  • creases, not only the model accuracy and data volume will in-

  • crease significantly, but the computational burden will be larger

  • and larger as well.

  • OUR

  • SOLUTIONS

  • Problems

  • Craft all feasible combinations

  • By using CRAFT, all the combinations of available circuits

  • and chassis can be obtained based on the needs of our users.

  • Evolution in Silicon

  • Our software simulates the natural selection pressure by

  • artificial constraints, making a certain synthetic biological

  • system which best suits the “natural environment” to be kept.

  • Also, by using CRAFT Square, which simulates divergent evo-

  • lution, our software can save the proper schemes and satisfy

  • diversification of user requirements at the same time.

  • Standard protocol

  • Based on the standard protocol frame, after users entering

  • their requirements, CRAFT can automatically design and con-

  • struct corresponding experiment protocols, which cutting

  • down the time-consuming procedures of choosing chassis, de-

  • signing circuits and experiment planning.

  • Distributed Computing

  • “Satellite” is the name of our distributed computing plug-in.

  • It enables arithmetic capability scalable, in order to satisfy the

  • huge needs of computing work.

  • OUR

  • PROJECT

  • CRAFT Designer: An integrated auto-design system that helped

  • users customize their synthetic biological system by setting a

  • series of restriction conditions and generate standard protocol

  • corresponding to previous system.

  • CRAFT Square: A communication system that provide users a

  • platform to scan and evaluate other designs, share their own sys-

  • tems or look for better solutions.

  • Satellite: A distributed computing plug-in for CRAFT Designer.