The depth of all Boolean functions

It is shown that every Boolean function of n arguments has a circuit of depth n+1 over the basis {f|f:{0,1}^2 -> {0,1}}

Stratification and enumeration of Boolean functions by canalizing depth

Boolean network models have gained popularity in computational systems biology over the last dozen years. Many of these networks use canalizing Boolean functions, which has led to increased interest in the study of these functions. The canalizing depth of a function describes how many canalizing variables can be recursively picked off, until a non-canalizing function remains. In this paper, we show how every Boolean function has a unique algebraic form involving extended monomial layers and a well-defined core polynomial. This generalizes recent work on the algebraic structure of nested canalizing functions, and it yields a stratification of all Boolean functions by their canalizing depth. As a result, we obtain closed formulas for the number of n-variable Boolean functions with depth k, which simultaneously generalizes enumeration formulas for canalizing, and nested canalizing functions

Circuits with arbitrary gates for random operators

We consider boolean circuits computing n-operators f:{0,1}^n --> {0,1}^n. As gates we allow arbitrary boolean functions; neither fanin nor fanout of gates is restricted. An operator is linear if it computes n linear forms, that is, computes a matrix-vector product y=Ax over GF(2). We prove the existence of n-operators requiring about n^2 wires in any circuit, and linear n-operators requiring about n^2/\log n wires in depth-2 circuits, if either all output gates or all gates on the middle layer are linear.Comment: 7 page

Boolean Functions: Theory, Algorithms, and Applications

This monograph provides the first comprehensive presentation of the theoretical, algorithmic and applied aspects of Boolean functions, i.e., {0,1}-valued functions of a finite number of {0,1}-valued variables. The book focuses on algebraic representations of Boolean functions, especially normal form representations. It presents the fundamental elements of the theory (Boolean equations and satisfiability problems, prime implicants and associated representations, dualization, etc.), an in-depth study of special classes of Boolean functions (quadratic, Horn, shellable, regular, threshold, read-once, etc.), and two fruitful generalizations of the concept of Boolean functions (partially defined and pseudo-Boolean functions). It features a rich bibliography of about one thousand items. Prominent among the disciplines in which Boolean methods play a significant role are propositional logic, combinatorics, graph and hypergraph theory, complexity theory, integer programming, combinatorial optimization, game theory, reliability theory, electrical and computer engineering, artificial intelligence, etc. The book contains applications of Boolean functions in all these areas

Approximate Degree and the Complexity of Depth Three Circuits

Threshold weight, margin complexity, and Majority-of-Threshold circuit size are basic complexity measures of Boolean functions that arise in learning theory, communication complexity, and circuit complexity. Each of these measures might exhibit a chasm at depth three: namely, all polynomial size Boolean circuits of depth two have polynomial complexity under the measure, but there may exist Boolean circuits of depth three that have essentially maximal complexity exp(Theta(n)). However, existing techniques are far from showing this: for all three measures, the best lower bound for depth three circuits is exp(Omega(n^{2/5})). Moreover, prior methods exclusively study block-composed functions. Such methods appear intrinsically unable to prove lower bounds better than exp(Omega(sqrt{n})) even for depth four circuits, and have yet to prove lower bounds better than exp(Omega(sqrt{n})) for circuits of any constant depth. We take a step toward showing that all of these complexity measures indeed exhibit a chasm at depth three. Specifically, for any arbitrarily small constant delta > 0, we exhibit a depth three circuit of polynomial size (in fact, an O(log n)-decision list) of complexity exp(Omega(n^{1/2-delta})) under each of these measures. Our methods go beyond the block-composed functions studied in prior work, and hence may not be subject to the same barriers. Accordingly, we suggest natural candidate functions that may exhibit stronger bounds

Query rewriting over shallow ontologies

We investigate the size of rewritings of conjunctive queries over OWL2QL ontologies of depth 1 and 2 by means of a new hypergraph formalism for computing Boolean functions. Both positive and negative results are obtained. All conjunctive queries over ontologies of depth 1 have polynomial-size nonrecursive datalog rewritings; tree-shaped queries have polynomial-size positive existential rewritings; however, for some queries and ontologies of depth 1, positive existential rewritings can only be of superpolynomial size. Both positive existential and nonrecursive datalog rewritings of conjunctive queries and ontologies of depth 2 suffer an exponential blowup in the worst case, while first-order rewritings can grow superpolynomially unless NP is included in� P/poly

Biologically Relevant Classes of Boolean Functions

A large influx of experimental data has prompted the development of innovative computational techniques for modeling and reverse engineering biological networks. While finite dynamical systems, in particular Boolean networks, have gained attention as relevant models of network dynamics, not all Boolean functions reflect the behaviors of real biological systems. In this work, we focus on two classes of Boolean functions and study their applicability as biologically relevant network models: the nested and partially nested canalyzing functions. We begin by analyzing the nested canalyzing functions} (NCFs), which have been proposed as gene regulatory network models due to their stability properties. We introduce two biologically motivated measures of network stability, the average height and average cycle length on a state space graph and show that, on average, networks comprised of NCFs are more stable than general Boolean networks. Next, we introduce the partially nested canalyzing functions (PNCFs), a generalization of the NCFs, and the nested canalyzing depth, which measures the extent to which it retains a nested canalyzing structure. We characterize the structure of functions with a given depth and compute the expected activities and sensitivities of the variables. This analysis quantifies how canalyzation leads to higher stability in Boolean networks. We find that functions become decreasingly sensitive to input perturbations as the canalyzing depth increases, but exhibit rapidly diminishing returns in stability. Additionally, we show that as depth increases, the dynamics of networks using these functions quickly approach the critical regime, suggesting that real networks exhibit some degree of canalyzing depth, and that NCFs are not significantly better than PNCFs of sufficient depth for many applications to biological networks. Finally, we propose a method for the reverse engineering of networks of PNCFs using techniques from computational algebra. Given discretized time series data, this method finds a network model using PNCFs. Our ability to use these functions in reverse engineering applications further establishes their relevance as biological network models

On the Sensitivity Conjecture for Read-k Formulas

Various combinatorial/algebraic parameters are used to quantify the complexity of a Boolean function. Among them, sensitivity is one of the simplest and block sensitivity is one of the most useful. Nisan (1989) and Nisan and Szegedy (1991) showed that block sensitivity and several other parameters, such as certificate complexity, decision tree depth, and degree over R, are all polynomially related to one another. The sensitivity conjecture states that there is also a polynomial relationship between sensitivity and block sensitivity, thus supplying the "missing link". Since its introduction in 1991, the sensitivity conjecture has remained a challenging open question in the study of Boolean functions. One natural approach is to prove it for special classes of functions. For instance, the conjecture is known to be true for monotone functions, symmetric functions, and functions describing graph properties. In this paper, we consider the conjecture for Boolean functions computable by read-k formulas. A read-k formula is a tree in which each variable appears at most k times among the leaves and has Boolean gates at its internal nodes. We show that the sensitivity conjecture holds for read-once formulas with gates computing symmetric functions. We next consider regular formulas with OR and AND gates. A formula is regular if it is a leveled tree with all gates at a given level having the same fan-in and computing the same function. We prove the sensitivity conjecture for constant depth regular read-k formulas for constant k

Trading inference effort versus size in CNF Knowledge Compilation

Knowledge Compilation (KC) studies compilation of boolean functions f into some formalism F, which allows to answer all queries of a certain kind in polynomial time. Due to its relevance for SAT solving, we concentrate on the query type "clausal entailment" (CE), i.e., whether a clause C follows from f or not, and we consider subclasses of CNF, i.e., clause-sets F with special properties. In this report we do not allow auxiliary variables (except of the Outlook), and thus F needs to be equivalent to f. We consider the hierarchies UC_k <= WC_k, which were introduced by the authors in 2012. Each level allows CE queries. The first two levels are well-known classes for KC. Namely UC_0 = WC_0 is the same as PI as studied in KC, that is, f is represented by the set of all prime implicates, while UC_1 = WC_1 is the same as UC, the class of unit-refutation complete clause-sets introduced by del Val 1994. We show that for each k there are (sequences of) boolean functions with polysize representations in UC_{k+1}, but with an exponential lower bound on representations in WC_k. Such a separation was previously only know for k=0. We also consider PC < UC, the class of propagation-complete clause-sets. We show that there are (sequences of) boolean functions with polysize representations in UC, while there is an exponential lower bound for representations in PC. These separations are steps towards a general conjecture determining the representation power of the hierarchies PC_k < UC_k <= WC_k. The strong form of this conjecture also allows auxiliary variables, as discussed in depth in the Outlook.Comment: 43 pages, second version with literature updates. Proceeds with the separation results from the discontinued arXiv:1302.442