SGER: Design of a Biomolecular Distributed Operating Systems

生物分子分子计算(BMC)利用生物化学方法在分子水平上进行计算。本研究的目的是确定用于BMC的分布式操作系统(BMC-OS)所需的关键功能，包括：(I)分布式控制流，(Ii)分布式消息传输和消息处理，(Iii)数据和文件的分发和检索，(Iv)局部性优化，(V)数据完整性保证，(Vi)分布式I/O。I/O减少和错误恢复能力--计算机科学和生化技术的结合被用于进行数据指纹识别，并将使用非常高的扇形数据分配方法(使用冗余编码)来提高数据错误恢复能力。(B)BMC-OS的模型和模拟软件--使用参数化的性能模型来反映几何和其他约束(例如，溶液和试剂浓度、DNA链的空间分布、温度、盐度等)。对BMC-OS的控制，包括应用MEMS技术实现BMC的自动化。

Biomolecular molecular computation (BMC) uses biochemical methods to do computation at the molecular level. The goal of this research is to determine key required capabilities of a distributed operating system (BMC-OS) for BMC, including: (i) distributed flow of control,(ii) distributed message transmission and message handling, (iii) distribution and retrieval of data and files,(iv) locality optimizations, (v) data integrity assurance, an(vi)distributed I/O. The effort is focusing on a few key topics which have the most impact on the design of a BMC-OS :(a) Integrity Assurance, Decreased I/O and Error Resiliency--a combination of computer science and biochemical techniques are being used to do data fingerprinting and a very high fan-out data distribution method (using redundant coding) will be used to increase data error resiliency. (b) Models and Simulation Software for BMC-OS--Parameterized performance models are used to reflect the geometric and other constraints (e.g., solution and reagent concentration, spatial distribution of DNA strands, temperature, salinity, etc.) on the BMC-OS control, including the application of MEMs technology to automate BMC.