On the Ordered List Subgraph Embedding Problems
  In the (parameterized) Ordered List Subgraph Embedding problem (p-OLSE) we are given two graphs $G$ and $H$, each with a linear order defined on its vertices, a function $L$ that associates with every vertex in $G$ a list of vertices in $H$, and a parameter $k$. The question is to decide if we can embed (one-to-one) a subgraph $S$ of $G$ of $k$ vertices into $H$ such that: (1) every vertex of $S$ is mapped to a vertex from its associated list, (2) the linear orders inherited by $S$ and its image under the embedding are respected, and (3) if there is an edge between two vertices in $S$ then there is an edge between their images. If we require the subgraph $S$ to be embedded as an induced subgraph, we obtain the Ordered List Induced Subgraph Embedding problem (p-OLISE). The p-OLSE and p-OLISE problems model various problems in Bioinformatics related to structural comparison/alignment of proteins.   We investigate the complexity of p-OLSE and p-OLISE with respect to the following structural parameters: the width $\Delta_L$ of the function $L$ (size of the largest list), and the maximum degree $\Delta_H$ of $H$ and $\Delta_G$ of $G$. In terms of the structural parameters under consideration, we draw a complete complexity landscape of p-OLSE and p-OLISE (and their optimization versions) with respect to the computational frameworks of classical complexity, parameterized complexity, and approximation. 
Olawale Hassan (1), Iyad Kanj (1), Daniel Lokshtanov (2), and Ljubomir   Perkovi\'c (1) ((1) School of Computing, DePaul Uni...
cs.DS