Optimizing genetic algorithm strategies for evolving networks

This paper explores the use of genetic algorithms for the design of networks, where the demands on the network fluctuate in time. For varying network constraints, we find the best network using the standard genetic algorithm operators such as inversion, mutation and crossover. We also examine how the choice of genetic algorithm operators affects the quality of the best network found. Such networks typically contain redundancy in servers, where several servers perform the same task and pleiotropy, where servers perform multiple tasks. We explore this trade-off between pleiotropy versus redundancy on the cost versus reliability as a measure of the quality of the network.Comment: 9 pages, 5 figure

Techniques for noise removal from EEG, EOG and air flow signals in sleep patients

Noise is present in the wide variety of signals obtained from sleep patients. This noise comes from a number of sources, from presence of extraneous signals to adjustments in signal amplification and shot noise in the circuits used for data collection. The noise needs to be removed in order to maximize the information gained about the patient using both manual and automatic analysis of the signals. Here we evaluate a number of new techniques for removal of that noise, and the associated problem of separating the original signal sources.Comment: 9 pages, 3 figure

Fluctuations and noise in cancer development

This paper explores fluctuations and noise in various facets of cancer development. The three areas of particular focus are the stochastic progression of cells to cancer, fluctuations of the tumor size during treatment, and noise in cancer cell signalling. We explore the stochastic dynamics of tumor growth and response to treatment using a Markov model, and fluctutions in tumor size in response to treatment using partial differential equations. We also explore noise within gene networks in cancer cells, and noise in inter-cell signalling.Comment: 11 pages, 6 figure

Gene network analysis and design

Gene networks are composed of many different interacting genes and gene products (RNAs and proteins). They can be thought of as switching regions in n-dimensional space or as mass-balanced signaling networks. Both approaches allow for describing gene networks with the limited quantitative or even qualitative data available. We show how these approaches can be used in modeling the apoptosis gene network that has a vital role in tumor development. The open question is whether engineering changes to this network could be used as a possible cancer treatment

Too good to be true: when overwhelming evidence fails to convince

Is it possible for a large sequence of measurements or observations, which support a hypothesis, to counterintuitively decrease our confidence? Can unanimous support be too good to be true? The assumption of independence is often made in good faith, however rarely is consideration given to whether a systemic failure has occurred. Taking this into account can cause certainty in a hypothesis to decrease as the evidence for it becomes apparently stronger. We perform a probabilistic Bayesian analysis of this effect with examples based on (i) archaeological evidence, (ii) weighing of legal evidence, and (iii) cryptographic primality testing. We find that even with surprisingly low systemic failure rates high confidence is very difficult to achieve and in particular we find that certain analyses of cryptographically-important numerical tests are highly optimistic, underestimating their false-negative rate by as much as a factor of $2^{80}$