11 Search Results for "Lin, Guohui"

Document
DOI: 10.4230/LIPIcs.WABI.2024.21
McDag: Indexing Maximal Common Subsequences in Practice

Authors: Giovanni Buzzega, Alessio Conte, Roberto Grossi, and Giulia Punzi

Published in: LIPIcs, Volume 312, 24th International Workshop on Algorithms in Bioinformatics (WABI 2024)

Abstract
Analyzing and comparing sequences of symbols is among the most fundamental problems in computer science, possibly even more so in bioinformatics. Maximal Common Subsequences (MCSs), i.e., inclusion-maximal sequences of non-contiguous symbols common to two or more strings, have only recently received attention in this area, despite being a basic notion and a natural generalization of more common tools like Longest Common Substrings/Subsequences. In this paper we simplify and engineer recent advancements on MCSs into a practical tool called McDag, the first publicly available tool that can index MCSs of real genomic data. We demonstrate that our tool can index sequences exceeding 10,000 base pairs within minutes, utilizing only 4-7% more than the minimum required nodes, while also extracting relevant insights.
Cite as

Giovanni Buzzega, Alessio Conte, Roberto Grossi, and Giulia Punzi. McDag: Indexing Maximal Common Subsequences in Practice. In 24th International Workshop on Algorithms in Bioinformatics (WABI 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 312, pp. 21:1-21:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{buzzega_et_al:LIPIcs.WABI.2024.21,
  author =	{Buzzega, Giovanni and Conte, Alessio and Grossi, Roberto and Punzi, Giulia},
  title =	{{McDag: Indexing Maximal Common Subsequences in Practice}},
  booktitle =	{24th International Workshop on Algorithms in Bioinformatics (WABI 2024)},
  pages =	{21:1--21:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-340-9},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{312},
  editor =	{Pissis, Solon P. and Sung, Wing-Kin},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2024.21},
  URN =		{urn:nbn:de:0030-drops-206650},
  doi =		{10.4230/LIPIcs.WABI.2024.21},
  annote =	{Keywords: Index data structure, DAG, Common subsequence, Inclusion-wise maximality, LCS}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2024.26
Another Hamiltonian Cycle in Bipartite Pfaffian Graphs

Authors: Andreas Björklund, Petteri Kaski, and Jesper Nederlof

Published in: LIPIcs, Volume 297, 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)

Abstract
Finding a Hamiltonian cycle in a given graph is computationally challenging, and in general remains so even when one is further given one Hamiltonian cycle in the graph and asked to find another. In fact, no significantly faster algorithms are known for finding another Hamiltonian cycle than for finding a first one even in the setting where another Hamiltonian cycle is structurally guaranteed to exist, such as for odd-degree graphs. We identify a graph class - the bipartite Pfaffian graphs of minimum degree three - where it is NP-complete to decide whether a given graph in the class is Hamiltonian, but when presented with a Hamiltonian cycle as part of the input, another Hamiltonian cycle can be found efficiently. We prove that Thomason’s lollipop method [Ann. Discrete Math., 1978], a well-known algorithm for finding another Hamiltonian cycle, runs in a linear number of steps in cubic bipartite Pfaffian graphs. This was conjectured for cubic bipartite planar graphs by Haddadan [MSc thesis, Waterloo, 2015]; in contrast, examples are known of both cubic bipartite graphs and cubic planar graphs where the lollipop method takes exponential time. Beyond the reach of the lollipop method, we address a slightly more general graph class and present two algorithms, one running in linear-time and one operating in logarithmic space, that take as input (i) a bipartite Pfaffian graph G of minimum degree three, (ii) a Hamiltonian cycle H in G, and (iii) an edge e in H, and output at least three other Hamiltonian cycles through the edge e in G. We also present further improved algorithms for finding optimal traveling salesperson tours and counting Hamiltonian cycles in bipartite planar graphs with running times that are not achieved yet in general planar graphs. Our technique also has purely graph-theoretical consequences; for example, we show that every cubic bipartite Pfaffian graph has either zero or at least six distinct Hamiltonian cycles; the latter case is tight for the cube graph.
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Andreas Björklund, Petteri Kaski, and Jesper Nederlof. Another Hamiltonian Cycle in Bipartite Pfaffian Graphs. In 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 297, pp. 26:1-26:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{bjorklund_et_al:LIPIcs.ICALP.2024.26,
  author =	{Bj\"{o}rklund, Andreas and Kaski, Petteri and Nederlof, Jesper},
  title =	{{Another Hamiltonian Cycle in Bipartite Pfaffian Graphs}},
  booktitle =	{51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)},
  pages =	{26:1--26:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-322-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{297},
  editor =	{Bringmann, Karl and Grohe, Martin and Puppis, Gabriele and Svensson, Ola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2024.26},
  URN =		{urn:nbn:de:0030-drops-201692},
  doi =		{10.4230/LIPIcs.ICALP.2024.26},
  annote =	{Keywords: Another Hamiltonian cycle, Pfaffian graph, planar graph, Thomason’s lollipop method}
}
Document
DOI: 10.4230/DagMan.10.1.1
Current and Future Challenges in Knowledge Representation and Reasoning (Dagstuhl Perspectives Workshop 22282)

Authors: James P. Delgrande, Birte Glimm, Thomas Meyer, Miroslaw Truszczynski, and Frank Wolter

Published in: Dagstuhl Manifestos, Volume 10, Issue 1 (2024)

Abstract
Knowledge Representation and Reasoning is a central, longstanding, and active area of Artificial Intelligence. Over the years it has evolved significantly; more recently it has been challenged and complemented by research in areas such as machine learning and reasoning under uncertainty. In July 2022,sser a Dagstuhl Perspectives workshop was held on Knowledge Representation and Reasoning. The goal of the workshop was to describe the state of the art in the field, including its relation with other areas, its shortcomings and strengths, together with recommendations for future progress. We developed this manifesto based on the presentations, panels, working groups, and discussions that took place at the Dagstuhl Workshop. It is a declaration of our views on Knowledge Representation: its origins, goals, milestones, and current foci; its relation to other disciplines, especially to Artificial Intelligence; and on its challenges, along with key priorities for the next decade.
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James P. Delgrande, Birte Glimm, Thomas Meyer, Miroslaw Truszczynski, and Frank Wolter. Current and Future Challenges in Knowledge Representation and Reasoning (Dagstuhl Perspectives Workshop 22282). In Dagstuhl Manifestos, Volume 10, Issue 1, pp. 1-61, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@Article{delgrande_et_al:DagMan.10.1.1,
  author =	{Delgrande, James P. and Glimm, Birte and Meyer, Thomas and Truszczynski, Miroslaw and Wolter, Frank},
  title =	{{Current and Future Challenges in Knowledge Representation and Reasoning (Dagstuhl Perspectives Workshop 22282)}},
  pages =	{1--61},
  journal =	{Dagstuhl Manifestos},
  ISSN =	{2193-2433},
  year =	{2024},
  volume =	{10},
  number =	{1},
  editor =	{Delgrande, James P. and Glimm, Birte and Meyer, Thomas and Truszczynski, Miroslaw and Wolter, Frank},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/DagMan.10.1.1},
  URN =		{urn:nbn:de:0030-drops-201403},
  doi =		{10.4230/DagMan.10.1.1},
  annote =	{Keywords: Knowledge representation and reasoning, Applications of logics, Declarative representations, Formal logic}
}
Document
Position
DOI: 10.4230/TGDK.2.1.2
Grounding Stream Reasoning Research

Authors: Pieter Bonte, Jean-Paul Calbimonte, Daniel de Leng, Daniele Dell'Aglio, Emanuele Della Valle, Thomas Eiter, Federico Giannini, Fredrik Heintz, Konstantin Schekotihin, Danh Le-Phuoc, Alessandra Mileo, Patrik Schneider, Riccardo Tommasini, Jacopo Urbani, and Giacomo Ziffer

Published in: TGDK, Volume 2, Issue 1 (2024): Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge, Volume 2, Issue 1

Abstract
In the last decade, there has been a growing interest in applying AI technologies to implement complex data analytics over data streams. To this end, researchers in various fields have been organising a yearly event called the "Stream Reasoning Workshop" to share perspectives, challenges, and experiences around this topic. In this paper, the previous organisers of the workshops and other community members provide a summary of the main research results that have been discussed during the first six editions of the event. These results can be categorised into four main research areas: The first is concerned with the technological challenges related to handling large data streams. The second area aims at adapting and extending existing semantic technologies to data streams. The third and fourth areas focus on how to implement reasoning techniques, either considering deductive or inductive techniques, to extract new and valuable knowledge from the data in the stream. This summary is written not only to provide a crystallisation of the field, but also to point out distinctive traits of the stream reasoning community. Moreover, it also provides a foundation for future research by enumerating a list of use cases and open challenges, to stimulate others to join this exciting research area.
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Pieter Bonte, Jean-Paul Calbimonte, Daniel de Leng, Daniele Dell'Aglio, Emanuele Della Valle, Thomas Eiter, Federico Giannini, Fredrik Heintz, Konstantin Schekotihin, Danh Le-Phuoc, Alessandra Mileo, Patrik Schneider, Riccardo Tommasini, Jacopo Urbani, and Giacomo Ziffer. Grounding Stream Reasoning Research. In Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge (TGDK), Volume 2, Issue 1, pp. 2:1-2:47, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@Article{bonte_et_al:TGDK.2.1.2,
  author =	{Bonte, Pieter and Calbimonte, Jean-Paul and de Leng, Daniel and Dell'Aglio, Daniele and Della Valle, Emanuele and Eiter, Thomas and Giannini, Federico and Heintz, Fredrik and Schekotihin, Konstantin and Le-Phuoc, Danh and Mileo, Alessandra and Schneider, Patrik and Tommasini, Riccardo and Urbani, Jacopo and Ziffer, Giacomo},
  title =	{{Grounding Stream Reasoning Research}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{2:1--2:47},
  ISSN =	{2942-7517},
  year =	{2024},
  volume =	{2},
  number =	{1},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.2.1.2},
  URN =		{urn:nbn:de:0030-drops-198597},
  doi =		{10.4230/TGDK.2.1.2},
  annote =	{Keywords: Stream Reasoning, Stream Processing, RDF streams, Streaming Linked Data, Continuous query processing, Temporal Logics, High-performance computing, Databases}
}
Document
Survey
DOI: 10.4230/TGDK.2.1.3
Semantic Web: Past, Present, and Future

Authors: Ansgar Scherp, Gerd Groener, Petr Škoda, Katja Hose, and Maria-Esther Vidal

Published in: TGDK, Volume 2, Issue 1 (2024): Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge, Volume 2, Issue 1

Abstract
Ever since the vision was formulated, the Semantic Web has inspired many generations of innovations. Semantic technologies have been used to share vast amounts of information on the Web, enhance them with semantics to give them meaning, and enable inference and reasoning on them. Throughout the years, semantic technologies, and in particular knowledge graphs, have been used in search engines, data integration, enterprise settings, and machine learning. In this paper, we recap the classical concepts and foundations of the Semantic Web as well as modern and recent concepts and applications, building upon these foundations. The classical topics we cover include knowledge representation, creating and validating knowledge on the Web, reasoning and linking, and distributed querying. We enhance this classical view of the so-called "Semantic Web Layer Cake" with an update of recent concepts that include provenance, security and trust, as well as a discussion of practical impacts from industry-led contributions. We conclude with an outlook on the future directions of the Semantic Web. This is a living document. If you like to contribute, please contact the first author and visit: https://github.com/ascherp/semantic-web-primer
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Ansgar Scherp, Gerd Groener, Petr Škoda, Katja Hose, and Maria-Esther Vidal. Semantic Web: Past, Present, and Future. In Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge (TGDK), Volume 2, Issue 1, pp. 3:1-3:37, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@Article{scherp_et_al:TGDK.2.1.3,
  author =	{Scherp, Ansgar and Groener, Gerd and \v{S}koda, Petr and Hose, Katja and Vidal, Maria-Esther},
  title =	{{Semantic Web: Past, Present, and Future}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{3:1--3:37},
  ISSN =	{2942-7517},
  year =	{2024},
  volume =	{2},
  number =	{1},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.2.1.3},
  URN =		{urn:nbn:de:0030-drops-198607},
  doi =		{10.4230/TGDK.2.1.3},
  annote =	{Keywords: Linked Open Data, Semantic Web Graphs, Knowledge Graphs}
}
Document
Survey
DOI: 10.4230/TGDK.2.1.4
Logics for Conceptual Data Modelling: A Review

Authors: Pablo R. Fillottrani and C. Maria Keet

Published in: TGDK, Volume 2, Issue 1 (2024): Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge, Volume 2, Issue 1

Abstract
Information modelling for databases and object-oriented information systems avails of conceptual data modelling languages such as EER and UML Class Diagrams. Many attempts exist to add logical rigour to them, for various reasons and with disparate strengths. In this paper we aim to provide a structured overview of the many efforts. We focus on aims, approaches to the formalisation, including key dimensions of choice points, popular logics used, and the main relevant reasoning services. We close with current challenges and research directions.
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Pablo R. Fillottrani and C. Maria Keet. Logics for Conceptual Data Modelling: A Review. In Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge (TGDK), Volume 2, Issue 1, pp. 4:1-4:30, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@Article{fillottrani_et_al:TGDK.2.1.4,
  author =	{Fillottrani, Pablo R. and Keet, C. Maria},
  title =	{{Logics for Conceptual Data Modelling: A Review}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{4:1--4:30},
  ISSN =	{2942-7517},
  year =	{2024},
  volume =	{2},
  number =	{1},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.2.1.4},
  URN =		{urn:nbn:de:0030-drops-198616},
  doi =		{10.4230/TGDK.2.1.4},
  annote =	{Keywords: Conceptual Data Modelling, EER, UML, Description Logics, OWL}
}
Document
DOI: 10.4230/LIPIcs.CPM.2023.2
Approximation Algorithms for the Longest Run Subsequence Problem

Authors: Yuichi Asahiro, Hiroshi Eto, Mingyang Gong, Jesper Jansson, Guohui Lin, Eiji Miyano, Hirotaka Ono, and Shunichi Tanaka

Published in: LIPIcs, Volume 259, 34th Annual Symposium on Combinatorial Pattern Matching (CPM 2023)

Abstract
We study the approximability of the Longest Run Subsequence problem (LRS for short). For a string S = s_1 ⋯ s_n over an alphabet Σ, a run of a symbol σ ∈ Σ in S is a maximal substring of consecutive occurrences of σ. A run subsequence S' of S is a sequence in which every symbol σ ∈ Σ occurs in at most one run. Given a string S, the goal of LRS is to find a longest run subsequence S^* of S such that the length |S^*| is maximized over all the run subsequences of S. It is known that LRS is APX-hard even if each symbol has at most two occurrences in the input string, and that LRS admits a polynomial-time k-approximation algorithm if the number of occurrences of every symbol in the input string is bounded by k. In this paper, we design a polynomial-time (k+1)/2-approximation algorithm for LRS under the k-occurrence constraint on input strings. For the case k = 2, we further improve the approximation ratio from 3/2 to 4/3.
Cite as

Yuichi Asahiro, Hiroshi Eto, Mingyang Gong, Jesper Jansson, Guohui Lin, Eiji Miyano, Hirotaka Ono, and Shunichi Tanaka. Approximation Algorithms for the Longest Run Subsequence Problem. In 34th Annual Symposium on Combinatorial Pattern Matching (CPM 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 259, pp. 2:1-2:12, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{asahiro_et_al:LIPIcs.CPM.2023.2,
  author =	{Asahiro, Yuichi and Eto, Hiroshi and Gong, Mingyang and Jansson, Jesper and Lin, Guohui and Miyano, Eiji and Ono, Hirotaka and Tanaka, Shunichi},
  title =	{{Approximation Algorithms for the Longest Run Subsequence Problem}},
  booktitle =	{34th Annual Symposium on Combinatorial Pattern Matching (CPM 2023)},
  pages =	{2:1--2:12},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-276-1},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{259},
  editor =	{Bulteau, Laurent and Lipt\'{a}k, Zsuzsanna},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2023.2},
  URN =		{urn:nbn:de:0030-drops-179560},
  doi =		{10.4230/LIPIcs.CPM.2023.2},
  annote =	{Keywords: Longest run subsequence problem, bounded occurrence, approximation algorithm}
}
Document
DOI: 10.4230/LIPIcs.MFCS.2022.53
Approximation Algorithms for Covering Vertices by Long Paths

Authors: Mingyang Gong, Jing Fan, Guohui Lin, and Eiji Miyano

Published in: LIPIcs, Volume 241, 47th International Symposium on Mathematical Foundations of Computer Science (MFCS 2022)

Abstract
Given a graph, the general problem to cover the maximum number of vertices by a collection of vertex-disjoint long paths seemingly escapes from the literature. A path containing at least k vertices is considered long. When k ≤ 3, the problem is polynomial time solvable; when k is the total number of vertices, the problem reduces to the Hamiltonian path problem, which is NP-complete. For a fixed k ≥ 4, the problem is NP-hard and the best known approximation algorithm for the weighted set packing problem implies a k-approximation algorithm. To the best of our knowledge, there is no approximation algorithm directly designed for the general problem; when k = 4, the problem admits a 4-approximation algorithm which was presented recently. We propose the first (0.4394 k + O(1))-approximation algorithm for the general problem and an improved 2-approximation algorithm when k = 4. Both algorithms are based on local improvement, and their performance analyses are done via amortization.
Cite as

Mingyang Gong, Jing Fan, Guohui Lin, and Eiji Miyano. Approximation Algorithms for Covering Vertices by Long Paths. In 47th International Symposium on Mathematical Foundations of Computer Science (MFCS 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 241, pp. 53:1-53:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)

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@InProceedings{gong_et_al:LIPIcs.MFCS.2022.53,
  author =	{Gong, Mingyang and Fan, Jing and Lin, Guohui and Miyano, Eiji},
  title =	{{Approximation Algorithms for Covering Vertices by Long Paths}},
  booktitle =	{47th International Symposium on Mathematical Foundations of Computer Science (MFCS 2022)},
  pages =	{53:1--53:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-256-3},
  ISSN =	{1868-8969},
  year =	{2022},
  volume =	{241},
  editor =	{Szeider, Stefan and Ganian, Robert and Silva, Alexandra},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.MFCS.2022.53},
  URN =		{urn:nbn:de:0030-drops-168517},
  doi =		{10.4230/LIPIcs.MFCS.2022.53},
  annote =	{Keywords: Path cover, k-path, local improvement, amortized analysis, approximation algorithm}
}
Document
DOI: 10.4230/LIPIcs.CPM.2022.15
Polynomial-Time Equivalences and Refined Algorithms for Longest Common Subsequence Variants

Authors: Yuichi Asahiro, Jesper Jansson, Guohui Lin, Eiji Miyano, Hirotaka Ono, and Tadatoshi Utashima

Published in: LIPIcs, Volume 223, 33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022)

Abstract
The problem of computing the longest common subsequence of two sequences (LCS for short) is a classical and fundamental problem in computer science. In this paper, we study four variants of LCS: the Repetition-Bounded Longest Common Subsequence problem (RBLCS) [Yuichi Asahiro et al., 2020], the Multiset-Restricted Common Subsequence problem (MRCS) [Radu Stefan Mincu and Alexandru Popa, 2018], the Two-Side-Filled Longest Common Subsequence problem (2FLCS), and the One-Side-Filled Longest Common Subsequence problem (1FLCS) [Mauro Castelli et al., 2017; Mauro Castelli et al., 2019]. Although the original LCS can be solved in polynomial time, all these four variants are known to be NP-hard. Recently, an exact, O(1.44225ⁿ)-time, dynamic programming (DP)-based algorithm for RBLCS was proposed [Yuichi Asahiro et al., 2020], where the two input sequences have lengths n and poly(n). We first establish that each of MRCS, 1FLCS, and 2FLCS is polynomially equivalent to RBLCS. Then, we design a refined DP-based algorithm for RBLCS that runs in O(1.41422ⁿ) time, which implies that MRCS, 1FLCS, and 2FLCS can also be solved in O(1.41422ⁿ) time. Finally, we give a polynomial-time 2-approximation algorithm for 2FLCS.
Cite as

Yuichi Asahiro, Jesper Jansson, Guohui Lin, Eiji Miyano, Hirotaka Ono, and Tadatoshi Utashima. Polynomial-Time Equivalences and Refined Algorithms for Longest Common Subsequence Variants. In 33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 223, pp. 15:1-15:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)

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@InProceedings{asahiro_et_al:LIPIcs.CPM.2022.15,
  author =	{Asahiro, Yuichi and Jansson, Jesper and Lin, Guohui and Miyano, Eiji and Ono, Hirotaka and Utashima, Tadatoshi},
  title =	{{Polynomial-Time Equivalences and Refined Algorithms for Longest Common Subsequence Variants}},
  booktitle =	{33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022)},
  pages =	{15:1--15:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-234-1},
  ISSN =	{1868-8969},
  year =	{2022},
  volume =	{223},
  editor =	{Bannai, Hideo and Holub, Jan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CPM.2022.15},
  URN =		{urn:nbn:de:0030-drops-161424},
  doi =		{10.4230/LIPIcs.CPM.2022.15},
  annote =	{Keywords: Repetition-bounded longest common subsequence problem, multiset restricted longest common subsequence problem, one-side-filled longest common subsequence problem, two-side-filled longest common subsequence problem, exact algorithms, and approximation algorithms}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2017.66
A (1.4 + epsilon)-Approximation Algorithm for the 2-Max-Duo Problem

Authors: Yao Xu, Yong Chen, Guohui Lin, Tian Liu, Taibo Luo, and Peng Zhang

Published in: LIPIcs, Volume 92, 28th International Symposium on Algorithms and Computation (ISAAC 2017)

Abstract
The maximum duo-preservation string mapping (Max-Duo) problem is the complement of the well studied minimum common string partition (MCSP) problem, both of which have applications in many fields including text compression and bioinformatics. k-Max-Duo is the restricted version of Max-Duo, where every letter of the alphabet occurs at most k times in each of the strings, which is readily reduced into the well known maximum independent set (MIS) problem on a graph of maximum degree \Delta \le 6(k-1). In particular, 2-Max-Duo can then be approximated arbitrarily close to 1.8 using the state-of-the-art approximation algorithm for the MIS problem. 2-Max-Duo was proved APX-hard and very recently a (1.6 + \epsilon)-approximation was claimed, for any \epsilon > 0. In this paper, we present a vertex-degree reduction technique, based on which, we show that 2-Max-Duo can be approximated arbitrarily close to 1.4.
Cite as

Yao Xu, Yong Chen, Guohui Lin, Tian Liu, Taibo Luo, and Peng Zhang. A (1.4 + epsilon)-Approximation Algorithm for the 2-Max-Duo Problem. In 28th International Symposium on Algorithms and Computation (ISAAC 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 92, pp. 66:1-66:12, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2017)

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@InProceedings{xu_et_al:LIPIcs.ISAAC.2017.66,
  author =	{Xu, Yao and Chen, Yong and Lin, Guohui and Liu, Tian and Luo, Taibo and Zhang, Peng},
  title =	{{A (1.4 + epsilon)-Approximation Algorithm for the 2-Max-Duo Problem}},
  booktitle =	{28th International Symposium on Algorithms and Computation (ISAAC 2017)},
  pages =	{66:1--66:12},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-054-5},
  ISSN =	{1868-8969},
  year =	{2017},
  volume =	{92},
  editor =	{Okamoto, Yoshio and Tokuyama, Takeshi},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2017.66},
  URN =		{urn:nbn:de:0030-drops-82120},
  doi =		{10.4230/LIPIcs.ISAAC.2017.66},
  annote =	{Keywords: Approximation algorithm, duo-preservation string mapping, string partition, independent set}
}
Document
DOI: 10.4230/LIPIcs.ISAAC.2016.55
Single Machine Scheduling with Job-Dependent Machine Deterioration

Authors: Wenchang Luo, Yao Xu, Weitian Tong, and Guohui Lin

Published in: LIPIcs, Volume 64, 27th International Symposium on Algorithms and Computation (ISAAC 2016)

Abstract
We consider the single machine scheduling problem with job-dependent machine deterioration. In the problem, we are given a single machine with an initial non-negative maintenance level, and a set of jobs each with a non-preemptive processing time and a machine deterioration. Such a machine deterioration quantifies the decrement in the machine maintenance level after processing the job. To avoid machine breakdown, one should guarantee a non-negative maintenance level at any time point; and whenever necessary, a maintenance activity must be allocated for restoring the machine maintenance level. The goal of the problem is to schedule the jobs and the maintenance activities such that the total completion time of jobs is minimized. There are two variants of maintenance activities: in the partial maintenance case each activity can be allocated to increase the machine maintenance level to any level not exceeding the maximum; in the full maintenance case every activity must be allocated to increase the machine maintenance level to the maximum. In a recent work, the problem in the full maintenance case has been proven NP-hard; several special cases of the problem in the partial maintenance case were shown solvable in polynomial time, but the complexity of the general problem is left open. In this paper we first prove that the problem in the partial maintenance case is NP-hard, thus settling the open problem; we then design a 2-approximation algorithm.
Cite as

Wenchang Luo, Yao Xu, Weitian Tong, and Guohui Lin. Single Machine Scheduling with Job-Dependent Machine Deterioration. In 27th International Symposium on Algorithms and Computation (ISAAC 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 64, pp. 55:1-55:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2016)

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@InProceedings{luo_et_al:LIPIcs.ISAAC.2016.55,
  author =	{Luo, Wenchang and Xu, Yao and Tong, Weitian and Lin, Guohui},
  title =	{{Single Machine Scheduling with Job-Dependent Machine Deterioration}},
  booktitle =	{27th International Symposium on Algorithms and Computation (ISAAC 2016)},
  pages =	{55:1--55:13},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-026-2},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{64},
  editor =	{Hong, Seok-Hee},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ISAAC.2016.55},
  URN =		{urn:nbn:de:0030-drops-68236},
  doi =		{10.4230/LIPIcs.ISAAC.2016.55},
  annote =	{Keywords: Scheduling, machine deterioration, maintenance, NP-hard, approxima- tion algorithm}
}
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