Distribution-Independent Evolvability of Linear Threshold Functions

Valiant's (2007) model of evolvability models the evolutionary process of acquiring useful functionality as a restricted form of learning from random examples. Linear threshold functions and their various subclasses, such as conjunctions and decision lists, play a fundamental role in learning theory and hence their evolvability has been the primary focus of research on Valiant's framework (2007). One of the main open problems regarding the model is whether conjunctions are evolvable distribution-independently (Feldman and Valiant, 2008). We show that the answer is negative. Our proof is based on a new combinatorial parameter of a concept class that lower-bounds the complexity of learning from correlations. We contrast the lower bound with a proof that linear threshold functions having a non-negligible margin on the data points are evolvable distribution-independently via a simple mutation algorithm. Our algorithm relies on a non-linear loss function being used to select the hypotheses instead of 0-1 loss in Valiant's (2007) original definition. The proof of evolvability requires that the loss function satisfies several mild conditions that are, for example, satisfied by the quadratic loss function studied in several other works (Michael, 2007; Feldman, 2009; Valiant, 2010). An important property of our evolution algorithm is monotonicity, that is the algorithm guarantees evolvability without any decreases in performance. Previously, monotone evolvability was only shown for conjunctions with quadratic loss (Feldman, 2009) or when the distribution on the domain is severely restricted (Michael, 2007; Feldman, 2009; Kanade et al., 2010

A Complete Characterization of Statistical Query Learning with Applications to Evolvability

Statistical query (SQ) learning model of Kearns (1993) is a natural restriction of the PAC learning model in which a learning algorithm is allowed to obtain estimates of statistical properties of the examples but cannot see the examples themselves. We describe a new and simple characterization of the query complexity of learning in the SQ learning model. Unlike the previously known bounds on SQ learning our characterization preserves the accuracy and the efficiency of learning. The preservation of accuracy implies that that our characterization gives the first characterization of SQ learning in the agnostic learning framework. The preservation of efficiency is achieved using a new boosting technique and allows us to derive a new approach to the design of evolutionary algorithms in Valiant's (2006) model of evolvability. We use this approach to demonstrate the existence of a large class of monotone evolutionary learning algorithms based on square loss performance estimation. These results differ significantly from the few known evolutionary algorithms and give evidence that evolvability in Valiant's model is a more versatile phenomenon than there had been previous reason to suspect.Comment: Simplified Lemma 3.8 and it's application

Scaling properties of protein family phylogenies

One of the classical questions in evolutionary biology is how evolutionary processes are coupled at the gene and species level. With this motivation, we compare the topological properties (mainly the depth scaling, as a characterization of balance) of a large set of protein phylogenies with a set of species phylogenies. The comparative analysis shows that both sets of phylogenies share remarkably similar scaling behavior, suggesting the universality of branching rules and of the evolutionary processes that drive biological diversification from gene to species level. In order to explain such generality, we propose a simple model which allows us to estimate the proportion of evolvability/robustness needed to approximate the scaling behavior observed in the phylogenies, highlighting the relevance of the robustness of a biological system (species or protein) in the scaling properties of the phylogenetic trees. Thus, the rules that govern the incapability of a biological system to diversify are equally relevant both at the gene and at the species level.Comment: Replaced with final published versio

Measuring the Evolvability Landscape to study Neutrality

This theoretical work defines the measure of autocorrelation of evolvability in the context of neutral fitness landscape. This measure has been studied on the classical MAX-SAT problem. This work highlight a new characteristic of neutral fitness landscapes which allows to design new adapted metaheuristic

Evolution with Drifting Targets

We consider the question of the stability of evolutionary algorithms to gradual changes, or drift, in the target concept. We define an algorithm to be resistant to drift if, for some inverse polynomial drift rate in the target function, it converges to accuracy 1 -- \epsilon , with polynomial resources, and then stays within that accuracy indefinitely, except with probability \epsilon , at any one time. We show that every evolution algorithm, in the sense of Valiant (2007; 2009), can be converted using the Correlational Query technique of Feldman (2008), into such a drift resistant algorithm. For certain evolutionary algorithms, such as for Boolean conjunctions, we give bounds on the rates of drift that they can resist. We develop some new evolution algorithms that are resistant to significant drift. In particular, we give an algorithm for evolving linear separators over the spherically symmetric distribution that is resistant to a drift rate of O(\epsilon /n), and another algorithm over the more general product normal distributions that resists a smaller drift rate. The above translation result can be also interpreted as one on the robustness of the notion of evolvability itself under changes of definition. As a second result in that direction we show that every evolution algorithm can be converted to a quasi-monotonic one that can evolve from any starting point without the performance ever dipping significantly below that of the starting point. This permits the somewhat unnatural feature of arbitrary performance degradations to be removed from several known robustness translations

Scaling laws in bacterial genomes: A side-effect of selection of mutational robustness?

In the past few years, numerous research projects have focused on identifying and understanding scaling properties in the gene content of prokaryote genomes and the intricacy of their regulation networks. Yet, and despite the increasing amount of data available, the origins of these scalings remain an open question. The RAevol model, a digital genetics model, provides us with an insight into the mechanisms involved in an evolutionary process. The results we present here show that (i) our model reproduces qualitatively these scaling laws and that (ii) these laws are not due to differences in lifestyles but to differences in the spontaneous rates of mutations and rearrangements. We argue that this is due to an indirect selective pressure for robustness that constrains the genome size