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Robust Optimization of Biological Protocols.


ABSTRACT: When conducting high-throughput biological experiments, it is often necessary to develop a protocol that is both inexpensive and robust. Standard approaches are either not cost-effective or arrive at an optimized protocol that is sensitive to experimental variations. We show here a novel approach that directly minimizes the cost of the protocol while ensuring the protocol is robust to experimental variation. Our approach uses a risk-averse conditional value-at-risk criterion in a robust parameter design framework. We demonstrate this approach on a polymerase chain reaction protocol and show that our improved protocol is less expensive than the standard protocol and more robust than a protocol optimized without consideration of experimental variation.

SUBMITTER: Flaherty P 

PROVIDER: S-EPMC4582800 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature

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Robust Optimization of Biological Protocols.

Flaherty Patrick P   Davis Ronald W RW  

Technometrics : a journal of statistics for the physical, chemical, and engineering sciences 20150713 2


When conducting high-throughput biological experiments, it is often necessary to develop a protocol that is both inexpensive and robust. Standard approaches are either not cost-effective or arrive at an optimized protocol that is sensitive to experimental variations. We show here a novel approach that directly minimizes the cost of the protocol while ensuring the protocol is robust to experimental variation. Our approach uses a risk-averse conditional value-at-risk criterion in a robust paramete  ...[more]

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