295 Search Results for "V�gh, L�szl� A."

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DOI: 10.4230/TGDK.1.1.5
Knowledge Graphs for the Life Sciences: Recent Developments, Challenges and Opportunities

Authors: Jiaoyan Chen, Hang Dong, Janna Hastings, Ernesto Jiménez-Ruiz, Vanessa López, Pierre Monnin, Catia Pesquita, Petr Škoda, and Valentina Tamma

Published in: TGDK, Volume 1, Issue 1 (2023): Special Issue on Trends in Graph Data and Knowledge. Transactions on Graph Data and Knowledge, Volume 1, Issue 1

Abstract
The term life sciences refers to the disciplines that study living organisms and life processes, and include chemistry, biology, medicine, and a range of other related disciplines. Research efforts in life sciences are heavily data-driven, as they produce and consume vast amounts of scientific data, much of which is intrinsically relational and graph-structured. The volume of data and the complexity of scientific concepts and relations referred to therein promote the application of advanced knowledge-driven technologies for managing and interpreting data, with the ultimate aim to advance scientific discovery. In this survey and position paper, we discuss recent developments and advances in the use of graph-based technologies in life sciences and set out a vision for how these technologies will impact these fields into the future. We focus on three broad topics: the construction and management of Knowledge Graphs (KGs), the use of KGs and associated technologies in the discovery of new knowledge, and the use of KGs in artificial intelligence applications to support explanations (explainable AI). We select a few exemplary use cases for each topic, discuss the challenges and open research questions within these topics, and conclude with a perspective and outlook that summarizes the overarching challenges and their potential solutions as a guide for future research.
Cite as

Jiaoyan Chen, Hang Dong, Janna Hastings, Ernesto Jiménez-Ruiz, Vanessa López, Pierre Monnin, Catia Pesquita, Petr Škoda, and Valentina Tamma. Knowledge Graphs for the Life Sciences: Recent Developments, Challenges and Opportunities. In Special Issue on Trends in Graph Data and Knowledge. Transactions on Graph Data and Knowledge (TGDK), Volume 1, Issue 1, pp. 5:1-5:33, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@Article{chen_et_al:TGDK.1.1.5,
  author =	{Chen, Jiaoyan and Dong, Hang and Hastings, Janna and Jim\'{e}nez-Ruiz, Ernesto and L\'{o}pez, Vanessa and Monnin, Pierre and Pesquita, Catia and \v{S}koda, Petr and Tamma, Valentina},
  title =	{{Knowledge Graphs for the Life Sciences: Recent Developments, Challenges and Opportunities}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{5:1--5:33},
  year =	{2023},
  volume =	{1},
  number =	{1},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.1.1.5},
  URN =		{urn:nbn:de:0030-drops-194791},
  doi =		{10.4230/TGDK.1.1.5},
  annote =	{Keywords: Knowledge graphs, Life science, Knowledge discovery, Explainable AI}
}
Document
DOI: 10.4230/LIPIcs.IPEC.2023.1
Kernelizing Temporal Exploration Problems

Authors: Emmanuel Arrighi, Fedor V. Fomin, Petr A. Golovach, and Petra Wolf

Published in: LIPIcs, Volume 285, 18th International Symposium on Parameterized and Exact Computation (IPEC 2023)

Abstract
We study the kernelization of exploration problems on temporal graphs. A temporal graph consists of a finite sequence of snapshot graphs 𝒢 = (G₁, G₂, … , G_L) that share a common vertex set but might have different edge sets. The non-strict temporal exploration problem (NS-TEXP for short) introduced by Erlebach and Spooner, asks if a single agent can visit all vertices of a given temporal graph where the edges traversed by the agent are present in non-strict monotonous time steps, i.e., the agent can move along the edges of a snapshot graph with infinite speed. The exploration must at the latest be completed in the last snapshot graph. The optimization variant of this problem is the k-arb NS-TEXP problem, where the agent’s task is to visit at least k vertices of the temporal graph. We show that under standard computational complexity assumptions, neither of the problems NS-TEXP nor k-arb NS-TEXP allow for polynomial kernels in the standard parameters: number of vertices n, lifetime L, number of vertices to visit k, and maximal number of connected components per time step γ; as well as in the combined parameters L+k, L + γ, and k+γ. On the way to establishing these lower bounds, we answer a couple of questions left open by Erlebach and Spooner. We also initiate the study of structural kernelization by identifying a new parameter of a temporal graph p(𝒢) = ∑_{i=1}^L (|E(G_i)|) - |V(G)| + 1. Informally, this parameter measures how dynamic the temporal graph is. Our main algorithmic result is the construction of a polynomial (in p(𝒢)) kernel for the more general Weighted k-arb NS-TEXP problem, where weights are assigned to the vertices and the task is to find a temporal walk of weight at least k.
Cite as

Emmanuel Arrighi, Fedor V. Fomin, Petr A. Golovach, and Petra Wolf. Kernelizing Temporal Exploration Problems. In 18th International Symposium on Parameterized and Exact Computation (IPEC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 285, pp. 1:1-1:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{arrighi_et_al:LIPIcs.IPEC.2023.1,
  author =	{Arrighi, Emmanuel and Fomin, Fedor V. and Golovach, Petr A. and Wolf, Petra},
  title =	{{Kernelizing Temporal Exploration Problems}},
  booktitle =	{18th International Symposium on Parameterized and Exact Computation (IPEC 2023)},
  pages =	{1:1--1:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-305-8},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{285},
  editor =	{Misra, Neeldhara and Wahlstr\"{o}m, Magnus},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.IPEC.2023.1},
  URN =		{urn:nbn:de:0030-drops-194201},
  doi =		{10.4230/LIPIcs.IPEC.2023.1},
  annote =	{Keywords: Temporal graph, temporal exploration, computational complexity, kernel}
}
Document
DOI: 10.4230/LIPIcs.IPEC.2023.2
Cluster Editing with Overlapping Communities

Authors: Emmanuel Arrighi, Matthias Bentert, Pål Grønås Drange, Blair D. Sullivan, and Petra Wolf

Published in: LIPIcs, Volume 285, 18th International Symposium on Parameterized and Exact Computation (IPEC 2023)

Abstract
Cluster Editing, also known as correlation clustering, is a well-studied graph modification problem. In this problem, one is given a graph and allowed to perform up to k edge additions and deletions to transform it into a cluster graph, i.e., a graph consisting of a disjoint union of cliques. However, in real-world networks, clusters are often overlapping. For example, in social networks, a person might belong to several communities - e.g. those corresponding to work, school, or neighborhood. Another strong motivation comes from language networks where trying to cluster words with similar usage can be confounded by homonyms, that is, words with multiple meanings like "bat". The recently introduced operation of vertex splitting is one natural approach to incorporating such overlap into Cluster Editing. First used in the context of graph drawing, this operation allows a vertex v to be replaced by two vertices whose combined neighborhood is the neighborhood of v (and thus v can belong to more than one cluster). The problem of transforming a graph into a cluster graph using at most k edge additions, edge deletions, or vertex splits is called Cluster Editing with Vertex Splitting and is known to admit a polynomial kernel with respect to k and an O(9^{k²} + n + m)-time (parameterized) algorithm. However, it was not known whether the problem is NP-hard, a question which was originally asked by Abu-Khzam et al. [Combinatorial Optimization, 2018]. We answer this in the affirmative. We further give an improved algorithm running in O(2^{7klog k} + n + m) time.
Cite as

Emmanuel Arrighi, Matthias Bentert, Pål Grønås Drange, Blair D. Sullivan, and Petra Wolf. Cluster Editing with Overlapping Communities. In 18th International Symposium on Parameterized and Exact Computation (IPEC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 285, pp. 2:1-2:12, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{arrighi_et_al:LIPIcs.IPEC.2023.2,
  author =	{Arrighi, Emmanuel and Bentert, Matthias and Drange, P\r{a}l Gr{\o}n\r{a}s and Sullivan, Blair D. and Wolf, Petra},
  title =	{{Cluster Editing with Overlapping Communities}},
  booktitle =	{18th International Symposium on Parameterized and Exact Computation (IPEC 2023)},
  pages =	{2:1--2:12},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-305-8},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{285},
  editor =	{Misra, Neeldhara and Wahlstr\"{o}m, Magnus},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.IPEC.2023.2},
  URN =		{urn:nbn:de:0030-drops-194218},
  doi =		{10.4230/LIPIcs.IPEC.2023.2},
  annote =	{Keywords: graph modification, correlation clustering, vertex splitting, NP-hardness, parameterized algorithm}
}
Document
DOI: 10.4230/LIPIcs.IPEC.2023.7
Treewidth Is NP-Complete on Cubic Graphs

Authors: Hans L. Bodlaender, Édouard Bonnet, Lars Jaffke, Dušan Knop, Paloma T. Lima, Martin Milanič, Sebastian Ordyniak, Sukanya Pandey, and Ondřej Suchý

Published in: LIPIcs, Volume 285, 18th International Symposium on Parameterized and Exact Computation (IPEC 2023)

Abstract
In this paper, we show that Treewidth is NP-complete for cubic graphs, thereby improving the result by Bodlaender and Thilikos from 1997 that Treewidth is NP-complete on graphs with maximum degree at most 9. We add a new and simpler proof of the NP-completeness of treewidth, and show that Treewidth remains NP-complete on subcubic induced subgraphs of the infinite 3-dimensional grid.
Cite as

Hans L. Bodlaender, Édouard Bonnet, Lars Jaffke, Dušan Knop, Paloma T. Lima, Martin Milanič, Sebastian Ordyniak, Sukanya Pandey, and Ondřej Suchý. Treewidth Is NP-Complete on Cubic Graphs. In 18th International Symposium on Parameterized and Exact Computation (IPEC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 285, pp. 7:1-7:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{bodlaender_et_al:LIPIcs.IPEC.2023.7,
  author =	{Bodlaender, Hans L. and Bonnet, \'{E}douard and Jaffke, Lars and Knop, Du\v{s}an and Lima, Paloma T. and Milani\v{c}, Martin and Ordyniak, Sebastian and Pandey, Sukanya and Such\'{y}, Ond\v{r}ej},
  title =	{{Treewidth Is NP-Complete on Cubic Graphs}},
  booktitle =	{18th International Symposium on Parameterized and Exact Computation (IPEC 2023)},
  pages =	{7:1--7:13},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-305-8},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{285},
  editor =	{Misra, Neeldhara and Wahlstr\"{o}m, Magnus},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.IPEC.2023.7},
  URN =		{urn:nbn:de:0030-drops-194263},
  doi =		{10.4230/LIPIcs.IPEC.2023.7},
  annote =	{Keywords: Treewidth, cubic graphs, degree, NP-completeness}
}
Document
DOI: 10.4230/LIPIcs.IPEC.2023.15
An Improved Kernelization Algorithm for Trivially Perfect Editing

Authors: Maël Dumas and Anthony Perez

Published in: LIPIcs, Volume 285, 18th International Symposium on Parameterized and Exact Computation (IPEC 2023)

Abstract
In the Trivially Perfect Editing problem one is given an undirected graph G = (V,E) and an integer k and seeks to add or delete at most k edges in G to obtain a trivially perfect graph. In a recent work, Dumas et al. [Dumas et al., 2023] proved that this problem admits a kernel with O(k³) vertices. This result heavily relies on the fact that the size of trivially perfect modules can be bounded by O(k²) as shown by Drange and Pilipczuk [Drange and Pilipczuk, 2018]. To obtain their cubic vertex-kernel, Dumas et al. [Dumas et al., 2023] then showed that a more intricate structure, so-called comb, can be reduced to O(k²) vertices. In this work we show that the bound can be improved to O(k) for both aforementioned structures and thus obtain a kernel with O(k²) vertices. Our approach relies on the straightforward yet powerful observation that any large enough structure contains unaffected vertices whose neighborhood remains unchanged by an editing of size k, implying strong structural properties.
Cite as

Maël Dumas and Anthony Perez. An Improved Kernelization Algorithm for Trivially Perfect Editing. In 18th International Symposium on Parameterized and Exact Computation (IPEC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 285, pp. 15:1-15:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{dumas_et_al:LIPIcs.IPEC.2023.15,
  author =	{Dumas, Ma\"{e}l and Perez, Anthony},
  title =	{{An Improved Kernelization Algorithm for Trivially Perfect Editing}},
  booktitle =	{18th International Symposium on Parameterized and Exact Computation (IPEC 2023)},
  pages =	{15:1--15:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-305-8},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{285},
  editor =	{Misra, Neeldhara and Wahlstr\"{o}m, Magnus},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.IPEC.2023.15},
  URN =		{urn:nbn:de:0030-drops-194340},
  doi =		{10.4230/LIPIcs.IPEC.2023.15},
  annote =	{Keywords: Parameterized complexity, kernelization algorithms, graph modification, trivially perfect graphs}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2023.11
Sparse Graphs of Twin-Width 2 Have Bounded Tree-Width

Authors: Benjamin Bergougnoux, Jakub Gajarský, Grzegorz Guśpiel, Petr Hliněný, Filip Pokrývka, and Marek Sokołowski

Published in: LIPIcs, Volume 283, 34th International Symposium on Algorithms and Computation (ISAAC 2023)

Abstract
Twin-width is a structural width parameter introduced by Bonnet, Kim, Thomassé and Watrigant [FOCS 2020]. Very briefly, its essence is a gradual reduction (a contraction sequence) of the given graph down to a single vertex while maintaining limited difference of neighbourhoods of the vertices, and it can be seen as widely generalizing several other traditional structural parameters. Having such a sequence at hand allows to solve many otherwise hard problems efficiently. Our paper focuses on a comparison of twin-width to the more traditional tree-width on sparse graphs. Namely, we prove that if a graph G of twin-width at most 2 contains no K_{t,t} subgraph for some integer t, then the tree-width of G is bounded by a polynomial function of t. As a consequence, for any sparse graph class C we obtain a polynomial time algorithm which for any input graph G ∈ C either outputs a contraction sequence of width at most c (where c depends only on C), or correctly outputs that G has twin-width more than 2. On the other hand, we present an easy example of a graph class of twin-width 3 with unbounded tree-width, showing that our result cannot be extended to higher values of twin-width.
Cite as

Benjamin Bergougnoux, Jakub Gajarský, Grzegorz Guśpiel, Petr Hliněný, Filip Pokrývka, and Marek Sokołowski. Sparse Graphs of Twin-Width 2 Have Bounded Tree-Width. In 34th International Symposium on Algorithms and Computation (ISAAC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 283, pp. 11:1-11:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{bergougnoux_et_al:LIPIcs.ISAAC.2023.11,
  author =	{Bergougnoux, Benjamin and Gajarsk\'{y}, Jakub and Gu\'{s}piel, Grzegorz and Hlin\v{e}n\'{y}, Petr and Pokr\'{y}vka, Filip and Soko{\l}owski, Marek},
  title =	{{Sparse Graphs of Twin-Width 2 Have Bounded Tree-Width}},
  booktitle =	{34th International Symposium on Algorithms and Computation (ISAAC 2023)},
  pages =	{11:1--11:13},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-289-1},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{283},
  editor =	{Iwata, Satoru and Kakimura, Naonori},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2023.11},
  URN =		{urn:nbn:de:0030-drops-193130},
  doi =		{10.4230/LIPIcs.ISAAC.2023.11},
  annote =	{Keywords: twin-width, tree-width, excluded grid, sparsity}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2023.24
Finding Diverse Minimum s-t Cuts

Authors: Mark de Berg, Andrés López Martínez, and Frits Spieksma

Published in: LIPIcs, Volume 283, 34th International Symposium on Algorithms and Computation (ISAAC 2023)

Abstract
Recently, many studies have been devoted to finding diverse solutions in classical combinatorial problems, such as Vertex Cover (Baste et al., IJCAI'20), Matching (Fomin et al., ISAAC'20) and Spanning Tree (Hanaka et al., AAAI'21). Finding diverse solutions is important in settings where the user is not able to specify all criteria of the desired solution. Motivated by an application in the field of system identification, we initiate the algorithmic study of k-Diverse Minimum s-t Cuts which, given a directed graph G = (V, E), two specified vertices s,t ∈ V, and an integer k > 0, asks for a collection of k minimum s-t cuts in G that has maximum diversity. We investigate the complexity of the problem for two diversity measures for a collection of cuts: (i) the sum of all pairwise Hamming distances, and (ii) the cardinality of the union of cuts in the collection. We prove that k-Diverse Minimum s-t Cuts can be solved in strongly polynomial time for both diversity measures via submodular function minimization. We obtain this result by establishing a connection between ordered collections of minimum s-t cuts and the theory of distributive lattices. When restricted to finding only collections of mutually disjoint solutions, we provide a more practical algorithm that finds a maximum set of pairwise disjoint minimum s-t cuts. For graphs with small minimum s-t cut, it runs in the time of a single max-flow computation. These results stand in contrast to the problem of finding k diverse global minimum cuts - which is known to be NP-hard even for the disjoint case (Hanaka et al., AAAI'23) - and partially answer a long-standing open question of Wagner (Networks 1990) about improving the complexity of finding disjoint collections of minimum s-t cuts.
Cite as

Mark de Berg, Andrés López Martínez, and Frits Spieksma. Finding Diverse Minimum s-t Cuts. In 34th International Symposium on Algorithms and Computation (ISAAC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 283, pp. 24:1-24:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{deberg_et_al:LIPIcs.ISAAC.2023.24,
  author =	{de Berg, Mark and L\'{o}pez Mart{\'\i}nez, Andr\'{e}s and Spieksma, Frits},
  title =	{{Finding Diverse Minimum s-t Cuts}},
  booktitle =	{34th International Symposium on Algorithms and Computation (ISAAC 2023)},
  pages =	{24:1--24:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-289-1},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{283},
  editor =	{Iwata, Satoru and Kakimura, Naonori},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2023.24},
  URN =		{urn:nbn:de:0030-drops-193267},
  doi =		{10.4230/LIPIcs.ISAAC.2023.24},
  annote =	{Keywords: S-T MinCut, Diversity, Lattice Theory, Submodular Function Minimization}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2023.35
Shortest Beer Path Queries in Digraphs with Bounded Treewidth

Authors: Joachim Gudmundsson and Yuan Sha

Published in: LIPIcs, Volume 283, 34th International Symposium on Algorithms and Computation (ISAAC 2023)

Abstract
A beer digraph G is a real-valued weighted directed graph where some of the vertices have beer stores. A beer path from a vertex u to a vertex v in G is a path in G from u to v that visits at least one beer store. In this paper we consider the online shortest beer path query in beer digraphs with bounded treewidth t. Assume that a tree decomposition of treewidth t on a beer digraph with n vertices is given. We show that after O(t³n) time preprocessing on the beer digraph, (i) a beer distance query can be answered in O(t³α(n)) time, where α(n) is the inverse Ackermann function, and (ii) a shortest beer path can be reported in O(t³α(n)L) time, where L is the number of edges on the path. In the process we show an improved O(t³α(n)L) time shortest path query algorithm, compared with the currently best O(t⁴α(n)L) time algorithm [Chaudhuri & Zaroliagis, 2000]. We also consider queries in a dynamic setting where the weight of an edge in G can change over time. We show two data structures. Assume t is constant and let β be any constant in (0,1). The first data structure uses O(n) preprocessing time, answers a beer distance query in O(α(n)) time and reports a shortest beer path in O(α(n) L) time. It can be updated in O(n^β) time after an edge weight change. The second data structure has O(n) preprocessing time, answers a beer distance query in O(log n) time, reports a shortest beer path in O(log n + L) time, and can be updated in O(log n) time after an edge weight change.
Cite as

Joachim Gudmundsson and Yuan Sha. Shortest Beer Path Queries in Digraphs with Bounded Treewidth. In 34th International Symposium on Algorithms and Computation (ISAAC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 283, pp. 35:1-35:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{gudmundsson_et_al:LIPIcs.ISAAC.2023.35,
  author =	{Gudmundsson, Joachim and Sha, Yuan},
  title =	{{Shortest Beer Path Queries in Digraphs with Bounded Treewidth}},
  booktitle =	{34th International Symposium on Algorithms and Computation (ISAAC 2023)},
  pages =	{35:1--35:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-289-1},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{283},
  editor =	{Iwata, Satoru and Kakimura, Naonori},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2023.35},
  URN =		{urn:nbn:de:0030-drops-193379},
  doi =		{10.4230/LIPIcs.ISAAC.2023.35},
  annote =	{Keywords: Graph algorithms, Shortest Path, Data structures, Bounded treewidth}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2023.36
Coloring and Recognizing Mixed Interval Graphs

Authors: Grzegorz Gutowski, Konstanty Junosza-Szaniawski, Felix Klesen, Paweł Rzążewski, Alexander Wolff, and Johannes Zink

Published in: LIPIcs, Volume 283, 34th International Symposium on Algorithms and Computation (ISAAC 2023)

Abstract
A mixed interval graph is an interval graph that has, for every pair of intersecting intervals, either an arc (directed arbitrarily) or an (undirected) edge. We are particularly interested in scenarios where edges and arcs are defined by the geometry of intervals. In a proper coloring of a mixed interval graph G, an interval u receives a lower (different) color than an interval v if G contains arc (u,v) (edge {u,v}). Coloring of mixed graphs has applications, for example, in scheduling with precedence constraints; see a survey by Sotskov [Mathematics, 2020]. For coloring general mixed interval graphs, we present a min {ω(G), λ(G)+1}-approximation algorithm, where ω(G) is the size of a largest clique and λ(G) is the length of a longest directed path in G. For the subclass of bidirectional interval graphs (introduced recently for an application in graph drawing), we show that optimal coloring is NP-hard. This was known for general mixed interval graphs. We introduce a new natural class of mixed interval graphs, which we call containment interval graphs. In such a graph, there is an arc (u,v) if interval u contains interval v, and there is an edge {u,v} if u and v overlap. We show that these graphs can be recognized in polynomial time, that coloring them with the minimum number of colors is NP-hard, and that there is a 2-approximation algorithm for coloring.
Cite as

Grzegorz Gutowski, Konstanty Junosza-Szaniawski, Felix Klesen, Paweł Rzążewski, Alexander Wolff, and Johannes Zink. Coloring and Recognizing Mixed Interval Graphs. In 34th International Symposium on Algorithms and Computation (ISAAC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 283, pp. 36:1-36:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{gutowski_et_al:LIPIcs.ISAAC.2023.36,
  author =	{Gutowski, Grzegorz and Junosza-Szaniawski, Konstanty and Klesen, Felix and Rz\k{a}\.{z}ewski, Pawe{\l} and Wolff, Alexander and Zink, Johannes},
  title =	{{Coloring and Recognizing Mixed Interval Graphs}},
  booktitle =	{34th International Symposium on Algorithms and Computation (ISAAC 2023)},
  pages =	{36:1--36:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-289-1},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{283},
  editor =	{Iwata, Satoru and Kakimura, Naonori},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2023.36},
  URN =		{urn:nbn:de:0030-drops-193388},
  doi =		{10.4230/LIPIcs.ISAAC.2023.36},
  annote =	{Keywords: Interval Graphs, Mixed Graphs, Graph Coloring}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2023.42
Single-Exponential FPT Algorithms for Enumerating Secluded ℱ-Free Subgraphs and Deleting to Scattered Graph Classes

Authors: Bart M. P. Jansen, Jari J. H. de Kroon, and Michał Włodarczyk

Published in: LIPIcs, Volume 283, 34th International Symposium on Algorithms and Computation (ISAAC 2023)

Abstract
The celebrated notion of important separators bounds the number of small (S,T)-separators in a graph which are "farthest from S" in a technical sense. In this paper, we introduce a generalization of this powerful algorithmic primitive, tailored to undirected graphs, that is phrased in terms of k-secluded vertex sets: sets with an open neighborhood of size at most k. In this terminology, the bound on important separators says that there are at most 4^k maximal k-secluded connected vertex sets C containing S but disjoint from T. We generalize this statement significantly: even when we demand that G[C] avoids a finite set ℱ of forbidden induced subgraphs, the number of such maximal subgraphs is 2^𝒪(k) and they can be enumerated efficiently. This enumeration algorithm allows us to make significant improvements for two problems from the literature. Our first application concerns the Connected k-Secluded ℱ-free subgraph problem, where ℱ is a finite set of forbidden induced subgraphs. Given a graph in which each vertex has a positive integer weight, the problem asks to find a maximum-weight connected k-secluded vertex set C ⊆ V(G) such that G[C] does not contain an induced subgraph isomorphic to any F ∈ ℱ. The parameterization by k is known to be solvable in triple-exponential time via the technique of recursive understanding, which we improve to single-exponential. Our second application concerns the deletion problem to scattered graph classes. A scattered graph class is defined by demanding that every connected component is contained in at least one of the prescribed graph classes Π_1, …, Π_d. The deletion problem to a scattered graph class is to find a vertex set of size at most k whose removal yields a graph from the class. We obtain a single-exponential algorithm whenever each class Π_i is characterized by a finite number of forbidden induced subgraphs. This generalizes and improves upon earlier results in the literature.
Cite as

Bart M. P. Jansen, Jari J. H. de Kroon, and Michał Włodarczyk. Single-Exponential FPT Algorithms for Enumerating Secluded ℱ-Free Subgraphs and Deleting to Scattered Graph Classes. In 34th International Symposium on Algorithms and Computation (ISAAC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 283, pp. 42:1-42:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{jansen_et_al:LIPIcs.ISAAC.2023.42,
  author =	{Jansen, Bart M. P. and de Kroon, Jari J. H. and W{\l}odarczyk, Micha{\l}},
  title =	{{Single-Exponential FPT Algorithms for Enumerating Secluded ℱ-Free Subgraphs and Deleting to Scattered Graph Classes}},
  booktitle =	{34th International Symposium on Algorithms and Computation (ISAAC 2023)},
  pages =	{42:1--42:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-289-1},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{283},
  editor =	{Iwata, Satoru and Kakimura, Naonori},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2023.42},
  URN =		{urn:nbn:de:0030-drops-193440},
  doi =		{10.4230/LIPIcs.ISAAC.2023.42},
  annote =	{Keywords: fixed-parameter tractability, important separators, secluded subgraphs}
}
Document
Brief Announcement
DOI: 10.4230/LIPIcs.DISC.2023.37
Brief Announcement: Relations Between Space-Bounded and Adaptive Massively Parallel Computations

Authors: Michael Chen, A. Pavan, and N. V. Vinodchandran

Published in: LIPIcs, Volume 281, 37th International Symposium on Distributed Computing (DISC 2023)

Abstract
In this work, we study the class of problems solvable by (deterministic) Adaptive Massively Parallel Computations in constant rounds from a computational complexity theory perspective. A language L is in the class AMPC⁰ if, for every ε > 0, there is a deterministic AMPC algorithm running in constant rounds with a polynomial number of processors, where the local memory of each machine s = O(N^ε). We prove that the space-bounded complexity class ReachUL is a proper subclass of AMPC⁰. The complexity class ReachUL lies between the well-known space-bounded complexity classes Deterministic Logspace (DLOG) and Nondeterministic Logspace (NLOG). In contrast, we establish that it is unlikely that PSPACE admits AMPC algorithms, even with polynomially many rounds. We also establish that showing PSPACE is a subclass of nonuniform-AMPC with polynomially many rounds leads to a significant separation result in complexity theory, namely PSPACE is a proper subclass of EXP^{Σ₂^{𝖯}}.
Cite as

Michael Chen, A. Pavan, and N. V. Vinodchandran. Brief Announcement: Relations Between Space-Bounded and Adaptive Massively Parallel Computations. In 37th International Symposium on Distributed Computing (DISC 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 281, pp. 37:1-37:7, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{chen_et_al:LIPIcs.DISC.2023.37,
  author =	{Chen, Michael and Pavan, A. and Vinodchandran, N. V.},
  title =	{{Brief Announcement: Relations Between Space-Bounded and Adaptive Massively Parallel Computations}},
  booktitle =	{37th International Symposium on Distributed Computing (DISC 2023)},
  pages =	{37:1--37:7},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-301-0},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{281},
  editor =	{Oshman, Rotem},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.DISC.2023.37},
  URN =		{urn:nbn:de:0030-drops-191634},
  doi =		{10.4230/LIPIcs.DISC.2023.37},
  annote =	{Keywords: Massively Parallel Computation, AMPC, Complexity Classes, LogSpace, NL, PSPACE}
}
Document
Short Paper
DOI: 10.4230/LIPIcs.GIScience.2023.79
Application of GIS in Public Health Practice: A Consortium’s Approach to Tackling Travel Delays in Obstetric Emergencies in Urban Areas (Short Paper)

Authors: Jia Wang, Itohan Osayande, Peter M. Macharia, Prestige Tatenda Makanga, Kerry L. M. Wong, Tope Olubodun, Uchenna Gwacham-Anisiobi, Olakunmi Ogunyemi, Abimbola Olaniran, Ibukun-Oluwa O. Abejirinde, Lenka Beňová, Bosede B. Afolabi, and Aduragbemi Banke-Thomas

Published in: LIPIcs, Volume 277, 12th International Conference on Geographic Information Science (GIScience 2023)

Abstract
Geographic Information System (GIS) has become an effective and reliable tool for researchers, policymakers, and decision-makers to map health outcomes and inform targeted planning, evaluation, and monitoring. With the advent of big data-enabled GIS, researchers can now identify disparities and spatial inequalities in health at more granular levels, enabling them to provide more accurate and robust services and products for healthcare. This paper aims to showcase the progress of the On Tackling In-transit Delays for Mothers in Emergency (OnTIME) project, which is a unique collaborative effort between academia, policymakers, and industrial partners. The paper demonstrates how the limitations of traditional spatial accessibility models and data gaps have been overcome by combining GIS and big data to map the geographic accessibility and coverage of health facilities capable of providing emergency obstetric care (EmOC) in conurbations in Africa. The OnTIME project employs various GIS technologies and concepts, such as big spatial data, spatial databases, and public participation geographic information systems (PPGIS). We provide an overview of these concepts in relation to the OnTIME project to demonstrate the application of GIS in public health practice.
Cite as

Jia Wang, Itohan Osayande, Peter M. Macharia, Prestige Tatenda Makanga, Kerry L. M. Wong, Tope Olubodun, Uchenna Gwacham-Anisiobi, Olakunmi Ogunyemi, Abimbola Olaniran, Ibukun-Oluwa O. Abejirinde, Lenka Beňová, Bosede B. Afolabi, and Aduragbemi Banke-Thomas. Application of GIS in Public Health Practice: A Consortium’s Approach to Tackling Travel Delays in Obstetric Emergencies in Urban Areas (Short Paper). In 12th International Conference on Geographic Information Science (GIScience 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 277, pp. 79:1-79:6, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{wang_et_al:LIPIcs.GIScience.2023.79,
  author =	{Wang, Jia and Osayande, Itohan and Macharia, Peter M. and Makanga, Prestige Tatenda and Wong, Kerry L. M. and Olubodun, Tope and Gwacham-Anisiobi, Uchenna and Ogunyemi, Olakunmi and Olaniran, Abimbola and Abejirinde, Ibukun-Oluwa O. and Be\v{n}ov\'{a}, Lenka and Afolabi, Bosede B. and Banke-Thomas, Aduragbemi},
  title =	{{Application of GIS in Public Health Practice: A Consortium’s Approach to Tackling Travel Delays in Obstetric Emergencies in Urban Areas}},
  booktitle =	{12th International Conference on Geographic Information Science (GIScience 2023)},
  pages =	{79:1--79:6},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-288-4},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{277},
  editor =	{Beecham, Roger and Long, Jed A. and Smith, Dianna and Zhao, Qunshan and Wise, Sarah},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.GIScience.2023.79},
  URN =		{urn:nbn:de:0030-drops-189748},
  doi =		{10.4230/LIPIcs.GIScience.2023.79},
  annote =	{Keywords: GIS, Public Health, Accessibility, OnTIME, EmOC, Public Participation GIS, Big Data, Google}
}
Document
DOI: 10.4230/LIPIcs.CONCUR.2023.36
The Semilinear Home-Space Problem Is Ackermann-Complete for Petri Nets

Authors: Petr Jančar and Jérôme Leroux

Published in: LIPIcs, Volume 279, 34th International Conference on Concurrency Theory (CONCUR 2023)

Abstract
A set of configurations H is a home-space for a set of configurations X of a Petri net if every configuration reachable from (any configuration in) X can reach (some configuration in) H. The semilinear home-space problem for Petri nets asks, given a Petri net and semilinear sets of configurations X, H, if H is a home-space for X. In 1989, David de Frutos Escrig and Colette Johnen proved that the problem is decidable when X is a singleton and H is a finite union of linear sets with the same periods. In this paper, we show that the general (semilinear) problem is decidable. This result is obtained by proving a duality between the reachability problem and the non-home-space problem. In particular, we prove that for any Petri net and any linear set of configurations L we can effectively compute a semilinear set C of configurations, called a non-reachability core for L, such that for every set X the set L is not a home-space for X if, and only if, C is reachable from X. We show that the established relation to the reachability problem yields the Ackermann-completeness of the (semilinear) home-space problem. For this we also show that, given a Petri net with an initial marking, the set of minimal reachable markings can be constructed in Ackermannian time.
Cite as

Petr Jančar and Jérôme Leroux. The Semilinear Home-Space Problem Is Ackermann-Complete for Petri Nets. In 34th International Conference on Concurrency Theory (CONCUR 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 279, pp. 36:1-36:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{jancar_et_al:LIPIcs.CONCUR.2023.36,
  author =	{Jan\v{c}ar, Petr and Leroux, J\'{e}r\^{o}me},
  title =	{{The Semilinear Home-Space Problem Is Ackermann-Complete for Petri Nets}},
  booktitle =	{34th International Conference on Concurrency Theory (CONCUR 2023)},
  pages =	{36:1--36:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-299-0},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{279},
  editor =	{P\'{e}rez, Guillermo A. and Raskin, Jean-Fran\c{c}ois},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.CONCUR.2023.36},
  URN =		{urn:nbn:de:0030-drops-190300},
  doi =		{10.4230/LIPIcs.CONCUR.2023.36},
  annote =	{Keywords: Petri nets, home-space property, semilinear sets, Ackermannian complexity}
}
Document
DOI: 10.4230/LIPIcs.CALCO.2023.10
Strongly Finitary Monads for Varieties of Quantitative Algebras

Authors: Jiří Adámek, Matěj Dostál, and Jiří Velebil

Published in: LIPIcs, Volume 270, 10th Conference on Algebra and Coalgebra in Computer Science (CALCO 2023)

Abstract
Quantitative algebras are algebras enriched in the category Met of metric spaces or UMet of ultrametric spaces so that all operations are nonexpanding. Mardare, Plotkin and Panangaden introduced varieties (aka 1-basic varieties) as classes of quantitative algebras presented by quantitative equations. We prove that, when restricted to ultrametrics, varieties bijectively correspond to strongly finitary monads T on UMet. This means that T is the left Kan extension of its restriction to finite discrete spaces. An analogous result holds in the category CUMet of complete ultrametric spaces.
Cite as

Jiří Adámek, Matěj Dostál, and Jiří Velebil. Strongly Finitary Monads for Varieties of Quantitative Algebras. In 10th Conference on Algebra and Coalgebra in Computer Science (CALCO 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 270, pp. 10:1-10:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{adamek_et_al:LIPIcs.CALCO.2023.10,
  author =	{Ad\'{a}mek, Ji\v{r}{\'\i} and Dost\'{a}l, Mat\v{e}j and Velebil, Ji\v{r}{\'\i}},
  title =	{{Strongly Finitary Monads for Varieties of Quantitative Algebras}},
  booktitle =	{10th Conference on Algebra and Coalgebra in Computer Science (CALCO 2023)},
  pages =	{10:1--10:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-287-7},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{270},
  editor =	{Baldan, Paolo and de Paiva, Valeria},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.CALCO.2023.10},
  URN =		{urn:nbn:de:0030-drops-188078},
  doi =		{10.4230/LIPIcs.CALCO.2023.10},
  annote =	{Keywords: quantitative algebras, ultra-quantitative algebras, strongly finitary monads, varieties}
}
Document
DOI: 10.4230/LIPIcs.ESA.2023.39
A (3/2 + ε)-Approximation for Multiple TSP with a Variable Number of Depots

Authors: Max Deppert, Matthias Kaul, and Matthias Mnich

Published in: LIPIcs, Volume 274, 31st Annual European Symposium on Algorithms (ESA 2023)

Abstract
One of the most studied extensions of the famous Traveling Salesperson Problem (TSP) is the Multiple TSP: a set of m ≥ 1 salespersons collectively traverses a set of n cities by m non-trivial tours, to minimize the total length of their tours. This problem can also be considered to be a variant of Uncapacitated Vehicle Routing, where the objective is to minimize the sum of all tour lengths. When all m tours start from and end at a single common depot v₀, then the metric Multiple TSP can be approximated equally well as the standard metric TSP, as shown by Frieze (1983). The metric Multiple TSP becomes significantly harder to approximate when there is a set D of d ≥ 1 depots that form the starting and end points of the m tours. For this case, only a (2-1/d)-approximation in polynomial time is known, as well as a 3/2-approximation for constant d which requires a prohibitive run time of n^Θ(d) (Xu and Rodrigues, INFORMS J. Comput., 2015). A recent work of Traub, Vygen and Zenklusen (STOC 2020) gives another approximation algorithm for metric Multiple TSP with run time n^Θ(d), which reduces the problem to approximating metric TSP. In this paper we overcome the n^Θ(d) time barrier: we give the first efficient approximation algorithm for Multiple TSP with a variable number d of depots that yields a better-than-2 approximation. Our algorithm runs in time (1/ε)^O(dlog d) ⋅ n^O(1), and produces a (3/2+ε)-approximation with constant probability. For the graphic case, we obtain a deterministic 3/2-approximation in time 2^d ⋅ n^O(1).
Cite as

Max Deppert, Matthias Kaul, and Matthias Mnich. A (3/2 + ε)-Approximation for Multiple TSP with a Variable Number of Depots. In 31st Annual European Symposium on Algorithms (ESA 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 274, pp. 39:1-39:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{deppert_et_al:LIPIcs.ESA.2023.39,
  author =	{Deppert, Max and Kaul, Matthias and Mnich, Matthias},
  title =	{{A (3/2 + \epsilon)-Approximation for Multiple TSP with a Variable Number of Depots}},
  booktitle =	{31st Annual European Symposium on Algorithms (ESA 2023)},
  pages =	{39:1--39:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-295-2},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{274},
  editor =	{G{\o}rtz, Inge Li and Farach-Colton, Martin and Puglisi, Simon J. and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops-dev.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2023.39},
  URN =		{urn:nbn:de:0030-drops-186925},
  doi =		{10.4230/LIPIcs.ESA.2023.39},
  annote =	{Keywords: Traveling salesperson problem, rural postperson problem, multiple TSP, vehicle routing}
}
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