arXiv subjects

Sergey Kitaev

Publications and source records attributed to Sergey Kitaev.

At least 37 records · Page 2Linked to original sources

arXiv2025

On the word-representability of $K_m$-$K_n$ graphs

Word-representable graphs are a class of graphs that can be represented by words, where edges and non-edges are determined by the alternation of letters in those words. Several papers in the literature have explored the word-representability of split graphs, in which the vertices can be partitioned into a clique and an independent set. In this paper, we initiate the study of the word-representability of graphs in which the vertices can be partitioned into two cliques. We provide a complete characterization of such word-representable graphs in terms of forbidden subgraphs when one of the cliques has a size of at most four. In particular, if one of the cliques is of size four, we prove that there are seven minimal non-word-representable graphs.

math.CO↗

arXiv2025

On the representation number of grid graphs and cylindric grid graphs

The representation number of a graph is the minimum number of copies of each vertex required to represent the graph as a word, such that the letters corresponding to vertices $x$ and $y$ alternate if and only if $xy$ is an edge in the graph. It is known that path graphs, circle graphs, and ladder graphs have representation number 2, while prism graphs have representation number 3. In this paper, we extend these results by showing that generalizations of the aforementioned graphs -- namely, the $m \times n$ grid graphs and $m \times n$ cylindrical grid graphs -- have representation number $3$ for $m \geq 3$ and $m \geq 2$, respectively, and $n\geq 3$. Furthermore, we discuss toroidal grid graphs in the context of word-representability, which leads to an interesting conjecture.

math.CO↗

arXiv2025

A bijection between $321$- and $213$-avoiding permutations preserving $t$-stack-sortability

We construct a bijection between $321$- and $213$-avoiding permutations that preserves the property of $t$-stack-sortability. Our bijection transforms natural statistics between these two classes of permutations and proves a refinement of an enumerative conjecture posed by Zhang and Kitaev. This work contributes further to the long-standing line of research on bijections between length-3 pattern avoiding permutations. Increasing binary trees lie at the heart of our approach.

math.CO↗

arXiv2025

On fourteen equidistribution conjectures of Lv and Zhang and monotone mesh patterns with corner shadings

Three complementation-like involutions are constructed on permutations to prove, and in some cases generalize, all remaining fourteen joint symmetric equidistribution conjectures of Lv and Zhang. Further enumerative results are obtained for several classes of (mesh) pattern-avoiding permutations, where the shadings of all involved mesh patterns are restricted to an opposing pair of corners.

math.CO↗

arXiv2025

Topological weight and structural diversity of polydisperse chromatin loop networks

Current biophysical models for transcriptionally active chromatin view this as a polymer with sticky sites, mimicking transcription units such as promoters and enhancers which interact via the binding of multivalent complexes of chromatin-binding proteins. It has been demonstrated that this model spontaneously leads to microphase separation, resulting in the formation of a network of loops with transcription units serving as anchors. Here, we demonstrate how to compute the topological weights of loop networks with an arbitrary 1D pattern of transcription units along the fibre (or `polydisperse' loop networks), finding an analogy with networks of electric resistors in parallel or in series. We also show how the BEST (de Bruijn, van Aardenne-Ehrenfest, Smith and Tutte) theorem in combinatorics can be used to find the combinatorial multiplicity of any class of loop networks. Our results can be used to compute the structural diversity, or Shannon entropy, of loop networks: we show that this quantity depends on the 1D patterning of transcription units along the chain, possibly providing a pathway to control transcriptional noise in eukaryotic genes.

physics.bio-ph↗

arXiv2025

Consecutive and quasi-consecutive patterns: $\mathrm{des}$-Wilf classifications and generating functions

Motivated by a correlation between the distribution of descents over permutations that avoid a consecutive pattern and those avoiding the respective quasi-consecutive pattern, as established in this paper, we obtain a complete $\des$-Wilf classification for quasi-consecutive patterns of length up to 4. For equivalence classes containing more than one pattern, we construct various descent-preserving bijections to establish the equivalences, which lead to the provision of proper versions of two incomplete bijective arguments previously published in the literature. Additionally, for two singleton classes, we derive explicit bivariate generating functions using the generalized run theorem.

math.CO↗

arXiv2025

On 1-11-representability and multi-1-11-representability of graphs

Jeff Remmel introduced the concept of a $k$-11-representable graph in 2017. This concept was first explored by Cheon et al. in 2019, who considered it as a natural extension of word-representable graphs, which are exactly 0-11-representable graphs. A graph $G$ is $k$-11-representable if it can be represented by a word $w$ such that for any edge (resp., non-edge) $xy$ in $G$ the subsequence of $w$ formed by $x$ and $y$ contains at most $k$ (resp., at least $k+1$) pairs of consecutive equal letters. A remarkable result of Cheon at al. is that any graph is 2-11-representable, while it is still unknown whether every graph is 1-11-representable. Cheon et al. showed that the class of 1-11-representable graphs is strictly larger than that of word-representable graphs, and they introduced a useful toolbox to study 1-11-representable graphs, which was extended by additional powerful tools suggested by Futorny et al. in 2024. In this paper, we prove that all graphs on at most 8 vertices are 1-11-representable hence extending the known fact that all graphs on at most 7 vertices are 1-11-representable. Also, we discuss applications of our main result in the study of multi-1-11-representation of graphs we introduce in this paper analogously to the notion of multi-word-representation of graphs suggested by Kenkireth and Malhotra in 2023.

math.CO↗

arXiv2024

On naturally labelled posets and permutations avoiding 12-34

A partial order $\prec$ on $[n]$ is naturally labelled (NL) if $x\prec y$ implies $x<y$. We establish a bijection between {3, 2+2}-free NL posets and 12-34-avoiding permutations, determine functional equations satisfied by their generating function, and use series analysis to investigate their asymptotic growth, presenting evidence of stretched exponential behaviour. We also exhibit bijections between 3-free NL posets and various other objects, and determine their generating function. The connection between our results and a hierarchy of combinatorial objects related to interval orders is described.

math.CO↗

arXiv2024

Patterns in Multi-dimensional Permutations

In this paper, we propose a general framework that extends the theory of permutation patterns to higher dimensions and unifies several combinatorial objects studied in the literature. Our approach involves introducing the concept of a "level" for an element in a multi-dimensional permutation, which can be defined in multiple ways. We consider two natural definitions of a level, each establishing connections to other combinatorial sequences found in the Online Encyclopedia of Integer Sequences (OEIS). Our framework allows us to offer combinatorial interpretations for various sequences found in the OEIS, many of which previously lacked such interpretations. As a notable example, we introduce an elegant combinatorial interpretation for the Springer numbers: they count weakly increasing 3-dimensional permutations under the definition of levels determined by maximal entries.

math.CO↗

arXiv2024

Joint distributions of statistics over permutations avoiding two patterns of length 3

Finding distributions of permutation statistics over pattern-avoiding classes of permutations attracted much attention in the literature. In particular, Bukata et al. found distributions of ascents and descents on permutations avoiding any two patterns of length 3. In this paper, we generalize these results in two different ways: we find explicit formulas for the joint distribution of six statistics (asc, des, lrmax, lrmin, rlmax, rlmin), and also explicit formulas for the joint distribution of four statistics (asc, des, MNA, MND) on these permutations in all cases. The latter result also extends the recent studies by Kitaev and Zhang of the statistics MNA and MND (related to non-overlapping occurrences of ascents and descents) on stack-sortable permutations. All multivariate generating functions in our paper are rational, and we provide combinatorial proofs of five equidistribution results that can be derived from the generating functions.

math.CO↗

arXiv2024

On (joint) equidistributions of mesh patterns 123 and 132 with symmetric shadings

A notable problem within permutation patterns that has attracted considerable attention in literature since 1973 is the search for a bijective proof demonstrating that 123-avoiding and 132-avoiding permutations are equinumerous, both counted by the Catalan numbers. Despite this equivalence, the distributions of occurrences of the patterns 123 and 132 are distinct. When considering 123 and 132 as mesh patterns and selectively shading boxes, similar scenarios arise, even when avoidance is defined by the Bell numbers or other sequences, rather than the Catalan numbers. However, computer experiments suggest that mesh patterns 123 and 132 may indeed be equidistributed. Furthermore, by considering symmetric shadings relative to the anti-diagonal, a maximum of 93 such equidistributed pairs can potentially exist. This paper establishes 75 such equidistributions, leaving the justification of the remaining cases as open problems. As a by-product, we also prove 36 relevant non-symmetric equidistributions. All our proofs are bijective and involve swapping occurrences of the patterns in question, thereby demonstrating their joint equidistribution. Our findings are a continuation of the systematic study of distributions of short-length mesh patterns initiated by Kitaev and Zhang in 2019.

math.CO↗

arXiv2024

On a family of universal cycles for multi-dimensional permutations

A universal cycle (u-cycle) for permutations of length $n$ is a cyclic word, any size $n$ window of which is order-isomorphic to exactly one permutation of length $n$, and all permutations of length $n$ are covered. It is known that u-cycles for permutations exist, and they have been considered in the literature in several papers from different points of view. In this paper, we show how to construct a family of u-cycles for multi-dimensional permutations, which is based on applying an appropriate greedy algorithm. Our construction is a generalisation of the greedy way by Gao et al. to construct u-cycles for permutations. We also note the existence of u-cycles for $d$-dimensional matrices.

math.CO↗

arXiv2024

A note on semi-transitivity of Mycielski graphs

An orientation of a graph is semi-transitive if it contains no directed cycles and has no shortcuts. An undirected graph is semi-transitive if it can be oriented in a semi-transitive manner. The class of semi-transitive graphs includes several important graph classes. The Mycielski graph of an undirected graph is a larger graph constructed in a specific manner, which maintains the property of being triangle-free but increases the chromatic number. In this note, we prove Hameed's conjecture, which states that the Mycielski graph of a graph $G$ is semi-transitive if and only if $G$ is a bipartite graph. Notably, our solution to the conjecture provides an alternative and shorter proof of the Hameed's result on a complete characterization of semi-transitive extended Mycielski graphs.

math.CO↗

arXiv2024

New tools to study 1-11-representation of graphs

The notion of a $k$-11-representable graph was introduced by Jeff Remmel in 2017 and studied by Cheon et al.\ in 2019 as a natural extension of the extensively studied notion of word-representable graphs, which are precisely 0-11-representable graphs. A graph $G$ is $k$-11-representable if it can be represented by a word $w$ such that for any edge (resp., non-edge) $xy$ in $G$ the subsequence of $w$ formed by $x$ and $y$ contains at most $k$ (resp., at least $k+1$) pairs of consecutive equal letters. A remarkable result of Cheon at al.\ is that {\em any} graph is 2-11-representable, while it is unknown whether every graph is 1-11-representable. Cheon et al.\ showed that the class of 1-11-representable graphs is strictly larger than that of word-representable graphs, and they introduced a useful toolbox to study 1-11-representable graphs. In this paper, we introduce new tools for studying 1-11-representation of graphs. We apply them for establishing 1-11-representation of Chvátal graph, Mycielski graph, split graphs, and graphs whose vertices can be partitioned into a comparability graph and an independent set.

math.CO↗

arXiv2024

On (shape-)Wilf-equivalence of certain sets of (partially ordered) patterns

We prove a conjecture of Gao and Kitaev on Wilf-equivalence of sets of patterns {12345,12354} and {45123,45213} that extends the list of 10 related conjectures proved in the literature in a series of papers. To achieve our goals, we prove generalized versions of shape-Wilf-equivalence results of Backelin, West, and Xin and use a particular result on shape-Wilf-equivalence of monotone patterns. We also derive general results on shape-Wilf-equivalence of certain classes of partially ordered patterns and use their specialization (also appearing in a paper by Bloom and Elizalde) as an essential piece in proving the conjecture. Our results allow us to show (shape-)Wilf-equivalence of large classes of sets of patterns, including 11 out of 12 classes found by Bean et al. in relation to the conjecture.

math.CO↗

arXiv2024

Distributions of statistics on separable permutations

We derive functional equations for distributions of six classical statistics (ascents, descents, left-to-right maxima, right-to-left maxima, left-to-right minima, and right-to-left minima) on separable and irreducible separable permutations. The equations are used to find a third degree equation for joint distribution of ascents and descents on separable permutations that generalizes the respective known result for the descent distribution. Moreover, our general functional equations allow us to derive explicitly (joint) distribution of any subset of maxima and minima statistics on irreducible, reducible and all separable permutations. In particular, there are two equivalence classes of distributions of a pair of maxima or minima statistics. Finally, we present three unimodality conjectures about distributions of statistics on separable permutations.

math.CO↗

arXiv2023

Combinatorics and topological weights of chromatin loop networks

Polymer physics models suggest that chromatin spontaneously folds into loop networks with transcription units (TUs), such as enhancers and promoters, as anchors. Here we use combinatoric arguments to enumerate the emergent chromatin loop networks, both in the case where TUs are labelled and where they are unlabelled. We then combine these mathematical results with those of computer simulations aimed at finding the inter-TU energy required to form a target loop network. We show that different topologies are vastly different in terms of both their combinatorial weight and energy of formation. We explain the latter result qualitatively by computing the topological weight of a given network -- i.e., its partition function in statistical mechanics language -- in the approximation where excluded volume interactions are neglected. Our results show that networks featuring local loops are statistically more likely with respect to networks including more non-local contacts. We suggest our classification of loop networks, together with our estimate of the combinatorial and topological weight of each network, will be relevant to catalogue 3D structures of chromatin fibres around eukaryotic genes, and to estimate their relative frequency in both simulations and experiments.

physics.bio-ph↗

arXiv2023

Topological spectra and entropy of chromatin loop networks

The 3D folding of a mammalian gene can be studied by a polymer model, where the chromatin fibre is represented by a semiflexible polymer which interacts with multivalent proteins, representing complexes of DNA-binding transcription factors and RNA polymerases. This physical model leads to the natural emergence of clusters of proteins and binding sites, accompanied by the folding of chromatin into a set of topologies, each associated with a different network of loops. Here we combine numerics and analytics to first classify these networks and then find their relative importance or statistical weight, when the properties of the underlying polymer are those relevant to chromatin. Unlike polymer networks previously studied, our chromatin networks have finite average distances between successive binding sites, and this leads to giant differences between the weights of topologies with the same number of edges and nodes but different wiring. These weights strongly favour rosette-like structures with a local cloud of loops with respect to more complicated non-local topologies. Our results suggest that genes should overwhelmingly fold into a small fraction of all possible 3D topologies, which can be robustly characterised by the framework we propose here.

physics.bio-ph↗