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Translation elongation plays an important role in regulating protein concentrations in the cell, and dysregulation of this process has been linked to several human diseases. In this study, we use data from ribo-seq experiments to model ribosome dwell times ...
The Hanani--Tutte theorem is a classical result proved for the first time in the 1930s that characterizes planar graphs as graphs that admit a drawing in the plane in which every pair of edges not sharing a vertex cross an even number of times. We generali ...
Knapsack problems give a simple framework for decision making. A classical example is the min-knapsack problem (MinKnap): choose a subset of items with minimum total cost, whose total profit is above a given threshold. While this model successfully general ...
We present a tool for the interactive exploration and analysis of large clustered graphs. The tool empowers users to control the granularity of the graph, either by direct interaction (collapsing/expanding clusters) or via a slider that automatically compu ...
It is shown that fora constant t is an element of N, every simple topological graph on n vertices has 0(n) edges if the graph has no two sets of t edges such that every edge in one set is disjoint from all edges of the other set (i.e., the complement of th ...
Polar graphs are a natural extension of some classes of graphs like bipartite graphs, split graphs and complements of bipartite graphs. A graph is (s,k)-polar if there exists a partition A,B of its vertex set such that A induces a complete s-partite graph ...
This thesis is devoted to the understanding of topological graphs. We consider the following four problems: 1. A \emph{simple topological graph} is a graph drawn in the plane so that its edges are represented by continuous arcs with the property that any t ...
Decision procedures are widely used in software development and verification. The goal of this dissertation is to increase the scope of properties that can be verified using decision procedures. To achieve this goal, we identify three improvements over the ...
Polar graphs are a natural extension of some classes of graphs like bipartite graphs, split graphs and complements of bipartite graphs. A graph is (s, k)-polar if there exists a partition A, B of its vertex set such that A induces a complete s-partite grap ...
The graph coloring problem is one of the most famous problems in graph theory and has a large range of applications. It consists in coloring the vertices of an undirected graph with a given number of colors such that two adjacent vertices get different col ...