Minimum Degree up to Local Complementation: Bounds, Parameterized Complexity, and Exact Algorithms

The local minimum degree of a graph is the minimum degree that can be reached by means of local complementation. For any n, there exist graphs of order n which have a local minimum degree at least 0.189n, or at least 0.110n when restricted to bipartite graphs. Regarding the upper bound, we show that for any graph of order n, its local minimum degree is at most 3n/8+o(n) and n/4+o(n) for bipartite graphs, improving the known n/2 upper bound. We also prove that the local minimum degree is smaller than half of the vertex cover number (up to a logarithmic term). The local minimum degree problem is NP-Complete and hard to approximate. We show that this problem, even when restricted to bipartite graphs, is in W[2] and FPT-equivalent to the EvenSet problem, which W[1]-hardness is a long standing open question. Finally, we show that the local minimum degree is computed by a O*(1.938^n)-algorithm, and a O*(1.466^n)-algorithm for the bipartite graphs

MV3: A new word based stream cipher using rapid mixing and revolving buffers

MV3 is a new word based stream cipher for encrypting long streams of data. A direct adaptation of a byte based cipher such as RC4 into a 32- or 64-bit word version will obviously need vast amounts of memory. This scaling issue necessitates a look for new components and principles, as well as mathematical analysis to justify their use. Our approach, like RC4's, is based on rapidly mixing random walks on directed graphs (that is, walks which reach a random state quickly, from any starting point). We begin with some well understood walks, and then introduce nonlinearity in their steps in order to improve security and show long term statistical correlations are negligible. To minimize the short term correlations, as well as to deter attacks using equations involving successive outputs, we provide a method for sequencing the outputs derived from the walk using three revolving buffers. The cipher is fast -- it runs at a speed of less than 5 cycles per byte on a Pentium IV processor. A word based cipher needs to output more bits per step, which exposes more correlations for attacks. Moreover we seek simplicity of construction and transparent analysis. To meet these requirements, we use a larger state and claim security corresponding to only a fraction of it. Our design is for an adequately secure word-based cipher; our very preliminary estimate puts the security close to exhaustive search for keys of size < 256 bits.Comment: 27 pages, shortened version will appear in "Topics in Cryptology - CT-RSA 2007

Spectral Orbits and Peak-to-Average Power Ratio of Boolean Functions with respect to the {I,H,N}^n Transform

We enumerate the inequivalent self-dual additive codes over GF(4) of blocklength n, thereby extending the sequence A090899 in The On-Line Encyclopedia of Integer Sequences from n = 9 to n = 12. These codes have a well-known interpretation as quantum codes. They can also be represented by graphs, where a simple graph operation generates the orbits of equivalent codes. We highlight the regularity and structure of some graphs that correspond to codes with high distance. The codes can also be interpreted as quadratic Boolean functions, where inequivalence takes on a spectral meaning. In this context we define PAR_IHN, peak-to-average power ratio with respect to the {I,H,N}^n transform set. We prove that PAR_IHN of a Boolean function is equivalent to the the size of the maximum independent set over the associated orbit of graphs. Finally we propose a construction technique to generate Boolean functions with low PAR_IHN and algebraic degree higher than 2.Comment: Presented at Sequences and Their Applications, SETA'04, Seoul, South Korea, October 2004. 17 pages, 10 figure

Metric Dimension of Amalgamation of Graphs

A set of vertices $S$ resolves a graph $G$ if every vertex is uniquely determined by its vector of distances to the vertices in $S$. The metric dimension of $G$ is the minimum cardinality of a resolving set of $G$. Let $\{G_1, G_2, \ldots, G_n\}$ be a finite collection of graphs and each $G_i$ has a fixed vertex $v_{0_i}$ or a fixed edge $e_{0_i}$ called a terminal vertex or edge, respectively. The \emph{vertex-amalgamation} of $G_1, G_2, \ldots, G_n$, denoted by $Vertex-Amal\{G_i;v_{0_i}\}$, is formed by taking all the $G_i$'s and identifying their terminal vertices. Similarly, the \emph{edge-amalgamation} of $G_1, G_2, \ldots, G_n$, denoted by $Edge-Amal\{G_i;e_{0_i}\}$, is formed by taking all the $G_i$'s and identifying their terminal edges. Here we study the metric dimensions of vertex-amalgamation and edge-amalgamation for finite collection of arbitrary graphs. We give lower and upper bounds for the dimensions, show that the bounds are tight, and construct infinitely many graphs for each possible value between the bounds.Comment: 9 pages, 2 figures, Seventh Czech-Slovak International Symposium on Graph Theory, Combinatorics, Algorithms and Applications (CSGT2013), revised version 21 December 201

Convex Graph Invariant Relaxations For Graph Edit Distance

The edit distance between two graphs is a widely used measure of similarity that evaluates the smallest number of vertex and edge deletions/insertions required to transform one graph to another. It is NP-hard to compute in general, and a large number of heuristics have been proposed for approximating this quantity. With few exceptions, these methods generally provide upper bounds on the edit distance between two graphs. In this paper, we propose a new family of computationally tractable convex relaxations for obtaining lower bounds on graph edit distance. These relaxations can be tailored to the structural properties of the particular graphs via convex graph invariants. Specific examples that we highlight in this paper include constraints on the graph spectrum as well as (tractable approximations of) the stability number and the maximum-cut values of graphs. We prove under suitable conditions that our relaxations are tight (i.e., exactly compute the graph edit distance) when one of the graphs consists of few eigenvalues. We also validate the utility of our framework on synthetic problems as well as real applications involving molecular structure comparison problems in chemistry.Comment: 27 pages, 7 figure

A Unifying Model of Genome Evolution Under Parsimony

We present a data structure called a history graph that offers a practical basis for the analysis of genome evolution. It conceptually simplifies the study of parsimonious evolutionary histories by representing both substitutions and double cut and join (DCJ) rearrangements in the presence of duplications. The problem of constructing parsimonious history graphs thus subsumes related maximum parsimony problems in the fields of phylogenetic reconstruction and genome rearrangement. We show that tractable functions can be used to define upper and lower bounds on the minimum number of substitutions and DCJ rearrangements needed to explain any history graph. These bounds become tight for a special type of unambiguous history graph called an ancestral variation graph (AVG), which constrains in its combinatorial structure the number of operations required. We finally demonstrate that for a given history graph $G$, a finite set of AVGs describe all parsimonious interpretations of $G$, and this set can be explored with a few sampling moves.Comment: 52 pages, 24 figure