### Working paper

## Arithmetic of 3-valent graphs and equidissections of flat surfaces

This paper describes our approach to document search based on the ontological resources and graph models. The approach is applicable in local networks and local computers. It can be useful for ontology engineering specialists or search specialists.

*The article describes the original software tools for an experimental estimation of computational complexity of software solutions for problems on graph models of systems. The classes of the solved problems and the tools for analysis of results are listed. The method based on selection of graph models by their structural complexity is introduced.*

One of the key advances in genome assembly that has led to a significant improvement in contig lengths has been improved algorithms for utilization of paired reads (mate-pairs). While in most assemblers, mate-pair information is used in a post-processing step, the recently proposed Paired de Bruijn Graph (PDBG) approach incorporates the mate-pair information directly in the assembly graph structure. However, the PDBG approach faces difficulties when the variation in the insert sizes is high. To address this problem, we first transform mate-pairs into edge-pair histograms that allow one to better estimate the distance between edges in the assembly graph that represent regions linked by multiple mate-pairs. Further, we combine the ideas of mate-pair transformation and PDBGs to construct new data structures for genome assembly: pathsets and pathset graphs.

Process models and graphs are commonly used for modeling and visualization of processes. They may represent sets of objects or events linked with each other in some way. Wide use of models in such languages engenders necessity of tools for creating and editing them. This paper describes the model editor which allows for dealing with classical graphs, Petri nets, finite-state machines and their systems. Additionally, the tool has a list of features like simulation of Petri nets, import and export of models in different storage formats. Carassius is a modular tool which can be extended with, for example, new formalisms. In the paper one can find a detailed description of a couple of layout algorithms that can be used for visualizing Petri nets and graphs. Carassius might be useful for educational and research purposes because of its simplicity, range of features and variety of supported notations.

This proceedings publication is a compilation of selected contributions from the “Third International Conference on the Dynamics of Information Systems” which took place at the University of Florida, Gainesville, February 16–18, 2011. The purpose of this conference was to bring together scientists and engineers from industry, government, and academia in order to exchange new discoveries and results in a broad range of topics relevant to the theory and practice of dynamics of information systems. Dynamics of Information Systems: Mathematical Foundation presents state-of-the art research and is intended for graduate students and researchers interested in some of the most recent discoveries in information theory and dynamical systems. Scientists in other disciplines may also benefit from the applications of new developments to their own area of study.

The book contains the necessary information from the algorithm theory, graph theory, combinatorics. It is considered partially recursive functions, Turing machines, some versions of the algorithms (associative calculus, the system of substitutions, grammars, Post's productions, Marcov's normal algorithms, operator algorithms). The main types of graphs are described (multigraphs, pseudographs, Eulerian graphs, Hamiltonian graphs, trees, bipartite graphs, matchings, Petri nets, planar graphs, transport nets). Some algorithms often used in practice on graphs are given. It is considered classical combinatorial configurations and their generating functions, recurrent sequences. It is put in a basis of the book long-term experience of teaching by authors the discipline «Discrete mathematics» at the business informatics faculty, at the computer science faculty* *of National Research University Higher School of Economics, and at the automatics and computer technique faculty of National research university Moscow power engineering institute. The book is intended for the students of a bachelor degree, trained at the computer science faculties in the directions 09.03.01 Informatics and computational technique, 09.03.02 Informational systems and technologies, 09.03.03 Applied informatics, 09.03.04 Software Engineering, and also for IT experts and developers of software products.

In this paper we present some preliminary results for text corpus visualization by means of so-called reference graphs. The nodes of this graph stand for key words or phrases extracted from the texts and the edges represent the reference relation. The node A refers to the node B if the corresponding key word / phrase B is more likely to co-occur with key word / phrase A than to occur on its own. Since reference graphs are directed graphs, we are able to use graphtheoretic algorithms for further analysis of the text corpus. The visualization technique is tested on our own Web-based corpus of Russian-language newspapers.

Graph Structures for Knowledge Representation and Reasoning 2014. Workshop on IJCAI-2014.

A model for organizing cargo transportation between two node stations connected by a railway line which contains a certain number of intermediate stations is considered. The movement of cargo is in one direction. Such a situation may occur, for example, if one of the node stations is located in a region which produce raw material for manufacturing industry located in another region, and there is another node station. The organization of freight traﬃc is performed by means of a number of technologies. These technologies determine the rules for taking on cargo at the initial node station, the rules of interaction between neighboring stations, as well as the rule of distribution of cargo to the ﬁnal node stations. The process of cargo transportation is followed by the set rule of control. For such a model, one must determine possible modes of cargo transportation and describe their properties. This model is described by a ﬁnite-dimensional system of diﬀerential equations with nonlocal linear restrictions. The class of the solution satisfying nonlocal linear restrictions is extremely narrow. It results in the need for the “correct” extension of solutions of a system of diﬀerential equations to a class of quasi-solutions having the distinctive feature of gaps in a countable number of points. It was possible numerically using the Runge–Kutta method of the fourth order to build these quasi-solutions and determine their rate of growth. Let us note that in the technical plan the main complexity consisted in obtaining quasi-solutions satisfying the nonlocal linear restrictions. Furthermore, we investigated the dependence of quasi-solutions and, in particular, sizes of gaps (jumps) of solutions on a number of parameters of the model characterizing a rule of control, technologies for transportation of cargo and intensity of giving of cargo on a node station.

Let k be a field of characteristic zero, let G be a connected reductive algebraic group over k and let g be its Lie algebra. Let k(G), respectively, k(g), be the field of k- rational functions on G, respectively, g. The conjugation action of G on itself induces the adjoint action of G on g. We investigate the question whether or not the field extensions k(G)/k(G)^G and k(g)/k(g)^G are purely transcendental. We show that the answer is the same for k(G)/k(G)^G and k(g)/k(g)^G, and reduce the problem to the case where G is simple. For simple groups we show that the answer is positive if G is split of type A_n or C_n, and negative for groups of other types, except possibly G_2. A key ingredient in the proof of the negative result is a recent formula for the unramified Brauer group of a homogeneous space with connected stabilizers. As a byproduct of our investigation we give an affirmative answer to a question of Grothendieck about the existence of a rational section of the categorical quotient morphism for the conjugating action of G on itself.

Let G be a connected semisimple algebraic group over an algebraically closed field k. In 1965 Steinberg proved that if G is simply connected, then in G there exists a closed irreducible cross-section of the set of closures of regular conjugacy classes. We prove that in arbitrary G such a cross-section exists if and only if the universal covering isogeny Ĝ → G is bijective; this answers Grothendieck's question cited in the epigraph. In particular, for char k = 0, the converse to Steinberg's theorem holds. The existence of a cross-section in G implies, at least for char k = 0, that the algebra k[G]G of class functions on G is generated by rk G elements. We describe, for arbitrary G, a minimal generating set of k[G]G and that of the representation ring of G and answer two Grothendieck's questions on constructing generating sets of k[G]G. We prove the existence of a rational (i.e., local) section of the quotient morphism for arbitrary G and the existence of a rational cross-section in G (for char k = 0, this has been proved earlier); this answers the other question cited in the epigraph. We also prove that the existence of a rational section is equivalent to the existence of a rational W-equivariant map T- - - >G/T where T is a maximal torus of G and W the Weyl group.