相关论文: On a conjecture of compatibility of multi-states c…
We study a long standing conjecture on the necessary and sufficient conditions for the compatibility of multi-state characters: There exists a function $f(r)$ such that, for any set $C$ of $r$-state characters, $C$ is compatible if and only…
Perfect phylogenies are fundamental in the study of evolutionary trees because they capture the situation when each evolutionary trait emerges only once in history; if such events are believed to be rare, then by Occam's Razor such…
We study the perfect phylogeny problem and establish a generalization of the four gamete condition (also called the Splits Equivalence Theorem) for sequences over three state characters. Our main result is that a set of input sequences over…
Lam, Gusfield, and Sridhar (2009) showed that a set of three-state characters has a perfect phylogeny if and only if every subset of three characters has a perfect phylogeny. They also gave a complete characterization of the sets of three…
The Persistent Perfect phylogeny, also known as Dollo-1, has been introduced as a generalization of the well-known perfect phylogenetic model for binary characters to deal with the potential loss of characters. The problem of deciding the…
Boolean satisfiability problem has applications in various fields. An efficient algorithm to solve satisfiability problem can be used to solve many other problems efficiently. The input of satisfiability problem is a finite set of clauses.…
Let H be an r-partite r-graph, all of whose sides have the same size n. Suppose that there exist two sides of H, each satisfying the following condition: the degree of each legal (r-1)-tuple contained in the complement of this side is…
The perfect phylogeny problem is a classic problem in computational biology, where we seek an unrooted phylogeny that is compatible with a set of qualitative characters. Such a tree exists precisely when an intersection graph associated…
A classical problem in phylogenetic tree analysis is to decide whether there is a phylogenetic tree $T$ that contains all information of a given collection $\cP$ of phylogenetic trees. If the answer is "yes" we say that $\cP$ is compatible…
This is the second in a series of articles aimed at exploring the relationship between the complexity classes of P and NP. The research in this article aims to find conditions of an algorithmic nature that are necessary and sufficient to…
The 2-colorable perfect matching problem asks whether a graph can be colored with two colors so that each node has exactly one neighbor with the same color as itself. We prove that this problem is NP-complete, even when restricted to…
Extending the notion of (random) $k$-out graphs, we consider when the $k$-out hypergraph is likely to have a perfect fractional matching. In particular, we show that for each $r$ there is a $k=k(r)$ such that the $k$-out $r$-uniform…
We show that for any two values $\alpha, \beta >0 $ for which $\alpha+\beta>1$ then there is a value $N$ so that for all $n \geq N$ the following holds. For any binary phylogenetic tree $T$ on $n$ leaves there is a set of $\lfloor n^\alpha…
The binary perfect phylogeny model is too restrictive to model biological events such as back mutations. In this paper we consider a natural generalization of the model that allows a special type of back mutation. We investigate the problem…
We prove that deciding whether a given input word contains as subsequence every possible permutation of integers $\{1,2,\ldots,n\}$ is coNP-complete. The coNP-completeness holds even when given the guarantee that the input word contains as…
Maximum satisfiability is a canonical NP-hard optimization problem that appears empirically hard for random instances. Let us say that a Conjunctive normal form (CNF) formula consisting of $k$-clauses is $p$-satisfiable if there exists a…
We prove that any $q$-automatic completely multiplicative function $f:\mathbb{N}\to\mathbb{C}$ essentially coincides with a Dirichlet character. This answers a question of J. P. Allouche and L. Goldmakher and confirms a conjecture of J.…
The Frankl's conjecture, formulated in 1979. and still open, states that in every family of sets closed for unions there is an element contained in at least half of the sets. A family Fc is called Frankl-complete (or FC-family) if in every…
The perfect phylogeny is one of the most used models in different areas of computational biology. In this paper we consider the problem of the Persistent Perfect Phylogeny (referred as P-PP) recently introduced to extend the perfect…
An $r$-regular graph is an $r$-graph, if every odd set of vertices is connected to its complement by at least $r$ edges. Seymour [On multicolourings of cubic graphs, and conjectures of Fulkerson and Tutte.~\emph{Proc.~London…