16 Search Results for "Fernández V, Manuel"

Document
DOI: 10.4230/LIPIcs.FORC.2026.11
Limitations on Accurate, Trusted, Human-Level Reasoning

Authors: Rina Panigrahy and Vatsal Sharan

Published in: LIPIcs, Volume 368, 7th Symposium on Foundations of Responsible Computing (FORC 2026)

Abstract
We identify a fundamental incompatibility between the goals of accuracy, trust, and human-level reasoning in artificial intelligence (AI) systems, for strict mathematical definitions of these notions. We define accuracy of a system as the property that it never makes any false claims when it has the ability to abstain from making a prediction on any input, and trust as the assumption that the system is accurate. We define human-level reasoning as the property of an AI system always matching or exceeding human capability. Our core finding is that - for our formal definitions of these notions - an accurate and trusted AI system cannot be a human-level reasoning system: for such an accurate, trusted system there are task instances which are easily and provably solvable by a human but not by the system. Our proofs draw parallels to Gödel’s incompleteness theorems and Turing’s proof of the undecidability of the halting problem, and can be regarded as interpretations of Gödel’s and Turing’s results. Key to our proof is the formalization of the notion of trust, which allows us to separate the intrinsic property of a system (being accurate) from its epistemic status (being trusted).
Cite as

Rina Panigrahy and Vatsal Sharan. Limitations on Accurate, Trusted, Human-Level Reasoning. In 7th Symposium on Foundations of Responsible Computing (FORC 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 368, pp. 11:1-11:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{panigrahy_et_al:LIPIcs.FORC.2026.11,
  author =	{Panigrahy, Rina and Sharan, Vatsal},
  title =	{{Limitations on Accurate, Trusted, Human-Level Reasoning}},
  booktitle =	{7th Symposium on Foundations of Responsible Computing (FORC 2026)},
  pages =	{11:1--11:21},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-419-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{368},
  editor =	{Lin, Huijia (Rachel)},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.FORC.2026.11},
  URN =		{urn:nbn:de:0030-drops-259840},
  doi =		{10.4230/LIPIcs.FORC.2026.11},
  annote =	{Keywords: Accuracy, Safety, Trust, Complexity-theoretic limitations}
}
Document
DOI: 10.4230/LIPIcs.ICDT.2026.5
Rule Rewriting Revisited: A Fresh Look at Static Filtering for Datalog and ASP

Authors: Philipp Hanisch and Markus Krötzsch

Published in: LIPIcs, Volume 365, 29th International Conference on Database Theory (ICDT 2026)

Abstract
Static filtering is a data-independent optimisation method for Datalog, which generalises algebraic query rewriting techniques from relational databases. In spite of its early discovery by Kifer and Lozinskii in 1986, the method has been overlooked in recent research and system development, and special cases are being rediscovered independently. We therefore recall the original approach, using updated terminology and more general filter predicates that capture features of modern systems, and we show how to extend its applicability to answer set programming (ASP). The outcome is strictly more general but also more complex than the classical approach: double exponential in general and single exponential even for predicates of bounded arity. As a solution, we propose tractable approximations of the algorithm that can still yield much improved logic programs in typical cases, e.g., it can improve the performance of rule systems over real-world data in the order of magnitude.
Cite as

Philipp Hanisch and Markus Krötzsch. Rule Rewriting Revisited: A Fresh Look at Static Filtering for Datalog and ASP. In 29th International Conference on Database Theory (ICDT 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 365, pp. 5:1-5:19, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{hanisch_et_al:LIPIcs.ICDT.2026.5,
  author =	{Hanisch, Philipp and Kr\"{o}tzsch, Markus},
  title =	{{Rule Rewriting Revisited: A Fresh Look at Static Filtering for Datalog and ASP}},
  booktitle =	{29th International Conference on Database Theory (ICDT 2026)},
  pages =	{5:1--5:19},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-413-0},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{365},
  editor =	{ten Cate, Balder and Funk, Maurice},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICDT.2026.5},
  URN =		{urn:nbn:de:0030-drops-256197},
  doi =		{10.4230/LIPIcs.ICDT.2026.5},
  annote =	{Keywords: Rule rewriting, static optimisation, static filtering, Datalog, Answer Set Programming}
}
Document
Use Case
DOI: 10.4230/TGDK.3.3.2
Automating Invoice Validation with Knowledge Graphs: Optimizations and Practical Lessons

Authors: Johannes Mäkelburg and Maribel Acosta

Published in: TGDK, Volume 3, Issue 3 (2025). Transactions on Graph Data and Knowledge, Volume 3, Issue 3

Abstract
To increase the efficiency of creating, distributing, and processing of invoices, invoicing is handled in the form of Electronic Data Interchange (EDI). With EDI, invoices are handled in a standardized electronic or digital format rather than on paper. While EDIFACT is widely used for electronic invoicing, there is no standardized approach for validating its content. In this work, we tackle the problem of automatically validating electronic invoices in the EDIFACT format by leveraging KG technologies. We build on a previously developed pipeline that transforms EDIFACT invoices into RDF knowledge graphs (KGs). The resulting graphs are validated using SHACL constraints defined in collaboration with domain experts. In this work, we improve the pipeline by enhancing the correctness of the invoice representation, reducing validation time, and introducing error prioritization through the use of the severity predicate in SHACL. These improvements make validation results easier to interpret and significantly reduce the manual effort required. Our evaluation confirms that the approach is correct, efficient, and practical for real-world use.
Cite as

Johannes Mäkelburg and Maribel Acosta. Automating Invoice Validation with Knowledge Graphs: Optimizations and Practical Lessons. In Transactions on Graph Data and Knowledge (TGDK), Volume 3, Issue 3, pp. 2:1-2:24, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@Article{makelburg_et_al:TGDK.3.3.2,
  author =	{M\"{a}kelburg, Johannes and Acosta, Maribel},
  title =	{{Automating Invoice Validation with Knowledge Graphs: Optimizations and Practical Lessons}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{2:1--2:24},
  ISSN =	{2942-7517},
  year =	{2025},
  volume =	{3},
  number =	{3},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.3.3.2},
  URN =		{urn:nbn:de:0030-drops-252137},
  doi =		{10.4230/TGDK.3.3.2},
  annote =	{Keywords: Electronic Invoice, Ontology, EDIFACT, RDF, RML, SHACL}
}
Document
Resource
DOI: 10.4230/TGDK.3.3.3
Supporting Psychometric Instrument Usage Through the POEM Ontology

Authors: Kelsey Rook, Henrique Santos, Deborah L. McGuinness, Manuel S. Sprung, Paulo Pinheiro, and Bruce F. Chorpita

Published in: TGDK, Volume 3, Issue 3 (2025). Transactions on Graph Data and Knowledge, Volume 3, Issue 3

Abstract
Psychometrics is the field relating to the measurement of concepts within psychology, particularly the assessment of various social and psychological dimensions in humans. The relationship between psychometric entities is critical to finding an appropriate assessment instrument, especially in the context of clinical psychology and mental healthcare in which providing the best care based on empirical evidence is crucial. We aim to model these entities, which include psychometric questionnaires and their component elements, the subject and respondent, and the latent variables being assessed. The current standard for questionnaire-based assessment relies on text-based distributions of instruments; so, a structured representation is necessary to capture these relationships to enhance accessibility and use of existing measures, encourage reuse of questionnaires and their component elements, and enable sophisticated reasoning over assessment instruments and results by increasing interoperability. We present the design process and architecture of such a domain ontology, the Psychometric Ontology of Experiences and Measures, situating it within the context of related ontologies, and demonstrating its practical utility through evaluation against a series of competency questions concerning the creation, use, and reuse of psychometric questionnaires in clinical, research, and development settings.
Cite as

Kelsey Rook, Henrique Santos, Deborah L. McGuinness, Manuel S. Sprung, Paulo Pinheiro, and Bruce F. Chorpita. Supporting Psychometric Instrument Usage Through the POEM Ontology. In Transactions on Graph Data and Knowledge (TGDK), Volume 3, Issue 3, pp. 3:1-3:19, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@Article{rook_et_al:TGDK.3.3.3,
  author =	{Rook, Kelsey and Santos, Henrique and McGuinness, Deborah L. and Sprung, Manuel S. and Pinheiro, Paulo and Chorpita, Bruce F.},
  title =	{{Supporting Psychometric Instrument Usage Through the POEM Ontology}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{3:1--3:19},
  ISSN =	{2942-7517},
  year =	{2025},
  volume =	{3},
  number =	{3},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.3.3.3},
  URN =		{urn:nbn:de:0030-drops-252148},
  doi =		{10.4230/TGDK.3.3.3},
  annote =	{Keywords: ontology, ontology development, psychometric assessment, psychometric ontology}
}
Document
DOI: 10.4230/OASIcs.SpaceCHI.2025.32
Virtual Reality Prototyping Environment for Concurrent Design, Training and Rover Operations

Authors: Pinar Dogru, Hanjo Schnellbächer, Tarek Can Battikh, and Kristina Remić

Published in: OASIcs, Volume 130, Advancing Human-Computer Interaction for Space Exploration (SpaceCHI 2025)

Abstract
As part of the CASIMAR (Collaborative Astronaut Supporting Interregional Moon Analog Rover) project, initiated by the BVSR e.V. (Bundesverband Studentischer Raumfahrt), the TUDSaT (TU Darmstadt Space Technology e.V.) team is developing a Virtual Reality (VR) prototype environment to support the interdisciplinary design process of lunar exploration technologies. Given the complexity of collaboration among eight organizations, this tool aims to streamline design integration and enhance mission planning. The primary objective is to create a comprehensive 3D model of the rover, complete with predefined procedures and activities, to simulate astronaut-robot interaction. By leveraging VR technology, astronauts can familiarize themselves with the rover and its EVA (Extravehicular Activity) tools before actual deployment, improving operational safety and efficiency. Beyond training applications, this virtual environment serves as a critical platform for designing, testing, and benchmarking rover functionalities and EVA procedures. Ultimately, our work contributes to optimizing human-robotic interaction, ensuring that lunar exploration missions are both effective and well-prepared before reaching the Moon.
Cite as

Pinar Dogru, Hanjo Schnellbächer, Tarek Can Battikh, and Kristina Remić. Virtual Reality Prototyping Environment for Concurrent Design, Training and Rover Operations. In Advancing Human-Computer Interaction for Space Exploration (SpaceCHI 2025). Open Access Series in Informatics (OASIcs), Volume 130, pp. 32:1-32:13, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{dogru_et_al:OASIcs.SpaceCHI.2025.32,
  author =	{Dogru, Pinar and Schnellb\"{a}cher, Hanjo and Battikh, Tarek Can and Remi\'{c}, Kristina},
  title =	{{Virtual Reality Prototyping Environment for Concurrent Design, Training and Rover Operations}},
  booktitle =	{Advancing Human-Computer Interaction for Space Exploration (SpaceCHI 2025)},
  pages =	{32:1--32:13},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-95977-384-3},
  ISSN =	{2190-6807},
  year =	{2025},
  volume =	{130},
  editor =	{Bensch, Leonie and Nilsson, Tommy and Nisser, Martin and Pataranutaporn, Pat and Schmidt, Albrecht and Sumini, Valentina},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.SpaceCHI.2025.32},
  URN =		{urn:nbn:de:0030-drops-240226},
  doi =		{10.4230/OASIcs.SpaceCHI.2025.32},
  annote =	{Keywords: virtual reality (VR), digital twin, human-robot-interaction (HRI), LUNA analog facility, rover, extravehicular activities (EVA), gamification, simulation, user-centered design (UCD), concurrent engineering (CE), space system engineering}
}
Document
APPROX
DOI: 10.4230/LIPIcs.APPROX/RANDOM.2025.4
Streaming Algorithms for Network Design

Authors: Chandra Chekuri, Rhea Jain, Sepideh Mahabadi, and Ali Vakilian

Published in: LIPIcs, Volume 353, Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2025)

Abstract
We consider the Survivable Network Design problem (SNDP) in the single-pass insertion-only streaming model. The input to SNDP is an edge-weighted graph G = (V, E) and an integer connectivity requirement r(uv) for each u, v ∈ V. The objective is to find a minimum-weight subgraph H ⊆ G such that, for every pair of vertices u, v ∈ V, u and v are r(uv)-edge/vertex-connected. Recent work by [Ce Jin et al., 2024] obtained approximation algorithms for edge-connectivity augmentation, and via that, also derived algorithms for edge-connectivity SNDP (EC-SNDP). In this work we consider vertex-connectivity setting (VC-SNDP) and obtain several results for it as well as improved results for EC-SNDP. - We provide a general framework for solving connectivity problems including SNDP and others in streaming; this is based on a connection to fault-tolerant spanners. For VC-SNDP we provide an O(tk)-approximation in Õ(k^{1-1/t}n^{1 + 1/t}) space, where k is the maximum connectivity requirement, assuming an exact algorithm at the end of the stream. Using a refined LP-based analysis, we provide an O(β t)-approximation where β is the integrality gap of the natural cut-based LP relaxation. These are the first approximation algorithms in the streaming model for VC-SNDP. When applied to the EC-SNDP, our framework provides an O(t)-approximation in Õ(k^{1/2-1/(2t)}n^{1 + 1/t} + kn) space, improving the O(t log k)-approximation of [Ce Jin et al., 2024] using Õ(kn^{1+1/t}) space; this also extends to element-connectivity SNDP. - We consider vertex connectivity-augmentation in the link-arrival model. The input is a k-vertex-connected spanning subgraph G, and additional weighted links L arrive in the stream; the goal is to store the min-weight set of links such that G ∪ L is (k+1)-vertex-connected. We obtain constant-factor approximations in near-linear space for k = 1, 2. Our result for k = 2 is based on using the SPQR tree, a novel application for this well-known representation of 2-connected graphs.
Cite as

Chandra Chekuri, Rhea Jain, Sepideh Mahabadi, and Ali Vakilian. Streaming Algorithms for Network Design. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 353, pp. 4:1-4:23, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{chekuri_et_al:LIPIcs.APPROX/RANDOM.2025.4,
  author =	{Chekuri, Chandra and Jain, Rhea and Mahabadi, Sepideh and Vakilian, Ali},
  title =	{{Streaming Algorithms for Network Design}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2025)},
  pages =	{4:1--4:23},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-397-3},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{353},
  editor =	{Ene, Alina and Chattopadhyay, Eshan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX/RANDOM.2025.4},
  URN =		{urn:nbn:de:0030-drops-243709},
  doi =		{10.4230/LIPIcs.APPROX/RANDOM.2025.4},
  annote =	{Keywords: Streaming Algorithms, Survivable Network Design, Fault-Tolerant Spanners}
}
Document
DOI: 10.4230/LIPIcs.FSCD.2025.8
The Unification Type of an Equational Theory May Depend on the Instantiation Preorder

Authors: Franz Baader and Oliver Fernández Gil

Published in: LIPIcs, Volume 337, 10th International Conference on Formal Structures for Computation and Deduction (FSCD 2025)

Abstract
The unification type of an equational theory is defined using a preorder on substitutions, called the instantiation preorder, whose scope is either restricted to the variables occurring in the unification problem, or unrestricted such that all variables are considered. It has been known for more than three decades that the unification type of an equational theory may vary, depending on which instantiation preorder is used. More precisely, it was shown in 1991 that the theory ACUI of an associative, commutative, and idempotent binary function symbol with a unit is unitary w.r.t. the restricted instantiation preorder, but not unitary w.r.t. the unrestricted one. In 2016 this result was strengthened by showing that the unrestricted type of this theory also cannot be finitary. Here, we considerably improve on this result by proving that ACUI is infinitary w.r.t. the unrestricted instantiation preorder, thus precluding type zero. We also show that, w.r.t. this preorder, the unification type of ACU (where idempotency is removed from the axioms) and of AC (where additionally the unit is removed) is infinitary, though it is respectively unitary and finitary in the restricted case. In the other direction, we prove (using the example of unification in the description logic EL) that the unification type may actually improve from type zero to infinitary when switching from the restricted instantiation preorder to the unrestricted one. In addition, we establish some general results on the relationship between the two instantiation preorders.
Cite as

Franz Baader and Oliver Fernández Gil. The Unification Type of an Equational Theory May Depend on the Instantiation Preorder. In 10th International Conference on Formal Structures for Computation and Deduction (FSCD 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 337, pp. 8:1-8:24, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{baader_et_al:LIPIcs.FSCD.2025.8,
  author =	{Baader, Franz and Fern\'{a}ndez Gil, Oliver},
  title =	{{The Unification Type of an Equational Theory May Depend on the Instantiation Preorder}},
  booktitle =	{10th International Conference on Formal Structures for Computation and Deduction (FSCD 2025)},
  pages =	{8:1--8:24},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-374-4},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{337},
  editor =	{Fern\'{a}ndez, Maribel},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.FSCD.2025.8},
  URN =		{urn:nbn:de:0030-drops-236230},
  doi =		{10.4230/LIPIcs.FSCD.2025.8},
  annote =	{Keywords: Unification type, Instantiation preorder, Equational theories, Modal and Description Logics}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2025.68
Graph Exploration: The Impact of a Distance Constraint

Authors: Stéphane Devismes, Yoann Dieudonné, and Arnaud Labourel

Published in: LIPIcs, Volume 334, 52nd International Colloquium on Automata, Languages, and Programming (ICALP 2025)

Abstract
A mobile agent, starting from a node s of a simple undirected connected graph G = (V,E), has to explore all nodes and edges of G using the minimum number of edge traversals. To do so, the agent uses a deterministic algorithm that allows it to gain information on G as it traverses its edges. During its exploration, the agent must always respect the constraint of knowing a path of length at most D to go back to node s. The upper bound D is fixed as being equal to (1+α)r, where r is the eccentricity of node s (i.e., the maximum distance from s to any other node) and α is any positive real constant. This task has been introduced by Duncan et al. [Christian A. Duncan et al., 2006] and is known as distance-constrained exploration. The penalty of an exploration algorithm running in G is the number of edge traversals made by the agent in excess of |E|. In [Petrisor Panaite and Andrzej Pelc, 1999], Panaite and Pelc gave an algorithm for solving exploration without any constraint on the moves that is guaranteed to work in every graph G with a (small) penalty in 𝒪(|V|). Hence, a natural question is whether we can obtain a distance-constrained exploration algorithm with the same guarantee as well. In this paper, we provide a negative answer to this question. We also observe that an algorithm working in every graph G with a linear penalty in |V| cannot be obtained for the task of fuel-constrained exploration, another variant studied in the literature. This solves an open problem posed by Duncan et al. in [Christian A. Duncan et al., 2006] and shows a fundamental separation with the task of exploration without constraint on the moves.
Cite as

Stéphane Devismes, Yoann Dieudonné, and Arnaud Labourel. Graph Exploration: The Impact of a Distance Constraint. In 52nd International Colloquium on Automata, Languages, and Programming (ICALP 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 334, pp. 68:1-68:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{devismes_et_al:LIPIcs.ICALP.2025.68,
  author =	{Devismes, St\'{e}phane and Dieudonn\'{e}, Yoann and Labourel, Arnaud},
  title =	{{Graph Exploration: The Impact of a Distance Constraint}},
  booktitle =	{52nd International Colloquium on Automata, Languages, and Programming (ICALP 2025)},
  pages =	{68:1--68:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-372-0},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{334},
  editor =	{Censor-Hillel, Keren and Grandoni, Fabrizio and Ouaknine, Jo\"{e}l and Puppis, Gabriele},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2025.68},
  URN =		{urn:nbn:de:0030-drops-234452},
  doi =		{10.4230/LIPIcs.ICALP.2025.68},
  annote =	{Keywords: exploration, graph, mobile agent}
}
Document
Resource Paper
DOI: 10.4230/TGDK.2.2.4
FAIR Jupyter: A Knowledge Graph Approach to Semantic Sharing and Granular Exploration of a Computational Notebook Reproducibility Dataset

Authors: Sheeba Samuel and Daniel Mietchen

Published in: TGDK, Volume 2, Issue 2 (2024): Special Issue on Resources for Graph Data and Knowledge. Transactions on Graph Data and Knowledge, Volume 2, Issue 2

Abstract
The way in which data are shared can affect their utility and reusability. Here, we demonstrate how data that we had previously shared in bulk can be mobilized further through a knowledge graph that allows for much more granular exploration and interrogation. The original dataset is about the computational reproducibility of GitHub-hosted Jupyter notebooks associated with biomedical publications. It contains rich metadata about the publications, associated GitHub repositories and Jupyter notebooks, and the notebooks' reproducibility. We took this dataset, converted it into semantic triples and loaded these into a triple store to create a knowledge graph - FAIR Jupyter - that we made accessible via a web service. This enables granular data exploration and analysis through queries that can be tailored to specific use cases. Such queries may provide details about any of the variables from the original dataset, highlight relationships between them or combine some of the graph’s content with materials from corresponding external resources. We provide a collection of example queries addressing a range of use cases in research and education. We also outline how sets of such queries can be used to profile specific content types, either individually or by class. We conclude by discussing how such a semantically enhanced sharing of complex datasets can both enhance their FAIRness - i.e., their findability, accessibility, interoperability, and reusability - and help identify and communicate best practices, particularly with regards to data quality, standardization, automation and reproducibility.
Cite as

Sheeba Samuel and Daniel Mietchen. FAIR Jupyter: A Knowledge Graph Approach to Semantic Sharing and Granular Exploration of a Computational Notebook Reproducibility Dataset. In Special Issue on Resources for Graph Data and Knowledge. Transactions on Graph Data and Knowledge (TGDK), Volume 2, Issue 2, pp. 4:1-4:24, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@Article{samuel_et_al:TGDK.2.2.4,
  author =	{Samuel, Sheeba and Mietchen, Daniel},
  title =	{{FAIR Jupyter: A Knowledge Graph Approach to Semantic Sharing and Granular Exploration of a Computational Notebook Reproducibility Dataset}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{4:1--4:24},
  ISSN =	{2942-7517},
  year =	{2024},
  volume =	{2},
  number =	{2},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.2.2.4},
  URN =		{urn:nbn:de:0030-drops-225886},
  doi =		{10.4230/TGDK.2.2.4},
  annote =	{Keywords: Knowledge Graph, Computational reproducibility, Jupyter notebooks, FAIR data, PubMed Central, GitHub, Python, SPARQL}
}
Document
DOI: 10.4230/TGDK.2.3.1
Unified Multimedia Segmentation - A Comprehensive Model for URI-based Media Segment Representation

Authors: Jan Willi, Abraham Bernstein, and Luca Rossetto

Published in: TGDK, Volume 2, Issue 3 (2024). Transactions on Graph Data and Knowledge, Volume 2, Issue 3

Abstract
In multimedia annotation, referencing specific segments of a document is often desired due to its richness and multimodality, but no universal representation for such references exists. This significantly hampers the usage of multimedia content in knowledge graphs, as it is modeled as one large atomic information container. Unstructured data - such as text, audio, images, and video - can commonly be decomposed into its constituent parts, as such documents rarely contain only one semantic concept. Hence, it is reasonable to assume that these advances will make it possible to decompose these previous atomic components into logical segments. To be processable by the knowledge graph stack, however, one needs to break the atomic nature of multimedia content, providing a mechanism to address media segments. This paper proposes a Unified Segmentation Model capable of depicting arbitrary segmentations on any media document type. The work begins with a formal analysis of multimedia and segmentation, exploring segmentation operations and how to describe them. Building on this analysis, it then develops a practical scheme for expressing segmentation in Uniform Resource Identifiers (URIs). Given that this approach makes segments of multimedia content referencable, it breaks their atomic nature and makes them first-class citizens within knowledge graphs. The proposed model is implemented as a proof of concept in the MediaGraph Store, a multimedia knowledge graph storage and querying engine.
Cite as

Jan Willi, Abraham Bernstein, and Luca Rossetto. Unified Multimedia Segmentation - A Comprehensive Model for URI-based Media Segment Representation. In Transactions on Graph Data and Knowledge (TGDK), Volume 2, Issue 3, pp. 1:1-1:34, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@Article{willi_et_al:TGDK.2.3.1,
  author =	{Willi, Jan and Bernstein, Abraham and Rossetto, Luca},
  title =	{{Unified Multimedia Segmentation - A Comprehensive Model for URI-based Media Segment Representation}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{1:1--1:34},
  ISSN =	{2942-7517},
  year =	{2024},
  volume =	{2},
  number =	{3},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.2.3.1},
  URN =		{urn:nbn:de:0030-drops-225953},
  doi =		{10.4230/TGDK.2.3.1},
  annote =	{Keywords: Multimodal Knowledge Graphs, Multimedia Segmentation, Multimedia Representation}
}
Document
DOI: 10.4230/OASIcs.Tannen.8
AutoML for Explainable Anomaly Detection (XAD)

Authors: Nikolaos Myrtakis, Ioannis Tsamardinos, and Vassilis Christophides

Published in: OASIcs, Volume 119, The Provenance of Elegance in Computation - Essays Dedicated to Val Tannen (2024)

Abstract
Numerous algorithms have been proposed for detecting anomalies (outliers, novelties) in an unsupervised manner. Unfortunately, it is not trivial, in general, to understand why a given sample (record) is labelled as an anomaly and thus diagnose its root causes. We propose the following reduced-dimensionality, surrogate model approach to explain detector decisions: approximate the detection model with another one that employs only a small subset of features. Subsequently, samples can be visualized in this low-dimensionality space for human understanding. To this end, we develop PROTEUS, an AutoML pipeline to produce the surrogate model, specifically designed for feature selection on imbalanced datasets. The PROTEUS surrogate model can not only explain the training data, but also the out-of-sample (unseen) data. In other words, PROTEUS produces predictive explanations by approximating the decision surface of an unsupervised detector. PROTEUS is designed to return an accurate estimate of out-of-sample predictive performance to serve as a metric of the quality of the approximation. Computational experiments confirm the efficacy of PROTEUS to produce predictive explanations for different families of detectors and to reliably estimate their predictive performance in unseen data. Unlike several ad-hoc feature importance methods, PROTEUS is robust to high-dimensional data.
Cite as

Nikolaos Myrtakis, Ioannis Tsamardinos, and Vassilis Christophides. AutoML for Explainable Anomaly Detection (XAD). In The Provenance of Elegance in Computation - Essays Dedicated to Val Tannen. Open Access Series in Informatics (OASIcs), Volume 119, pp. 8:1-8:23, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{myrtakis_et_al:OASIcs.Tannen.8,
  author =	{Myrtakis, Nikolaos and Tsamardinos, Ioannis and Christophides, Vassilis},
  title =	{{AutoML for Explainable Anomaly Detection (XAD)}},
  booktitle =	{The Provenance of Elegance in Computation - Essays Dedicated to Val Tannen},
  pages =	{8:1--8:23},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-95977-320-1},
  ISSN =	{2190-6807},
  year =	{2024},
  volume =	{119},
  editor =	{Amarilli, Antoine and Deutsch, Alin},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.Tannen.8},
  URN =		{urn:nbn:de:0030-drops-201049},
  doi =		{10.4230/OASIcs.Tannen.8},
  annote =	{Keywords: Anomaly Explanation, Predictive Explanation, Anomaly Interpretation, Explainable AI}
}
Document
Position
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
Survey
DOI: 10.4230/TGDK.1.1.11
How Does Knowledge Evolve in Open Knowledge Graphs?

Authors: Axel Polleres, Romana Pernisch, Angela Bonifati, Daniele Dell'Aglio, Daniil Dobriy, Stefania Dumbrava, Lorena Etcheverry, Nicolas Ferranti, Katja Hose, Ernesto Jiménez-Ruiz, Matteo Lissandrini, Ansgar Scherp, Riccardo Tommasini, and Johannes Wachs

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
Openly available, collaboratively edited Knowledge Graphs (KGs) are key platforms for the collective management of evolving knowledge. The present work aims t o provide an analysis of the obstacles related to investigating and processing specifically this central aspect of evolution in KGs. To this end, we discuss (i) the dimensions of evolution in KGs, (ii) the observability of evolution in existing, open, collaboratively constructed Knowledge Graphs over time, and (iii) possible metrics to analyse this evolution. We provide an overview of relevant state-of-the-art research, ranging from metrics developed for Knowledge Graphs specifically to potential methods from related fields such as network science. Additionally, we discuss technical approaches - and their current limitations - related to storing, analysing and processing large and evolving KGs in terms of handling typical KG downstream tasks.
Cite as

Axel Polleres, Romana Pernisch, Angela Bonifati, Daniele Dell'Aglio, Daniil Dobriy, Stefania Dumbrava, Lorena Etcheverry, Nicolas Ferranti, Katja Hose, Ernesto Jiménez-Ruiz, Matteo Lissandrini, Ansgar Scherp, Riccardo Tommasini, and Johannes Wachs. How Does Knowledge Evolve in Open Knowledge Graphs?. In Special Issue on Trends in Graph Data and Knowledge. Transactions on Graph Data and Knowledge (TGDK), Volume 1, Issue 1, pp. 11:1-11:59, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@Article{polleres_et_al:TGDK.1.1.11,
  author =	{Polleres, Axel and Pernisch, Romana and Bonifati, Angela and Dell'Aglio, Daniele and Dobriy, Daniil and Dumbrava, Stefania and Etcheverry, Lorena and Ferranti, Nicolas and Hose, Katja and Jim\'{e}nez-Ruiz, Ernesto and Lissandrini, Matteo and Scherp, Ansgar and Tommasini, Riccardo and Wachs, Johannes},
  title =	{{How Does Knowledge Evolve in Open Knowledge Graphs?}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{11:1--11:59},
  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.1.1.11},
  URN =		{urn:nbn:de:0030-drops-194855},
  doi =		{10.4230/TGDK.1.1.11},
  annote =	{Keywords: KG evolution, temporal KG, versioned KG, dynamic KG}
}
Document
DOI: 10.4230/OASIcs.Gabbrielli.10
Inseguendo Fagiani Selvatici: Partial Order Reduction for Guarded Command Languages

Authors: Frank S. de Boer, Einar Broch Johnsen, Rudolf Schlatte, Silvia Lizeth Tapia Tarifa, and Lars Tveito

Published in: OASIcs, Volume 86, Recent Developments in the Design and Implementation of Programming Languages (2020)

Abstract
This paper presents a method for testing whether objects in actor languages and active object languages exhibit locally deterministic behavior. We investigate such a method for a class of guarded command programs, abstracting from object-oriented features like method calls but focusing on cooperative scheduling of dynamically spawned processes executing in parallel. The proposed method can answer questions such as whether all permutations of an execution trace are equivalent, by generating candidate traces for testing which may lead to different final states. To prune the set of candidate traces, we employ partial order reduction. To further reduce the set, we introduce an analysis technique to decide whether a generated trace is schedulable. Schedulability cannot be decided for guarded commands using standard dependence and interference relations because guard enabledness is non-monotonic. To solve this problem, we use concolic execution to produce linearized symbolic traces of the executed program, which allows a weakest precondition computation to decide on the satisfiability of guards.
Cite as

Frank S. de Boer, Einar Broch Johnsen, Rudolf Schlatte, Silvia Lizeth Tapia Tarifa, and Lars Tveito. Inseguendo Fagiani Selvatici: Partial Order Reduction for Guarded Command Languages. In Recent Developments in the Design and Implementation of Programming Languages. Open Access Series in Informatics (OASIcs), Volume 86, pp. 10:1-10:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2020)

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@InProceedings{deboer_et_al:OASIcs.Gabbrielli.10,
  author =	{de Boer, Frank S. and Johnsen, Einar Broch and Schlatte, Rudolf and Tapia Tarifa, Silvia Lizeth and Tveito, Lars},
  title =	{{Inseguendo Fagiani Selvatici: Partial Order Reduction for Guarded Command Languages}},
  booktitle =	{Recent Developments in the Design and Implementation of Programming Languages},
  pages =	{10:1--10:18},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-95977-171-9},
  ISSN =	{2190-6807},
  year =	{2020},
  volume =	{86},
  editor =	{de Boer, Frank S. and Mauro, Jacopo},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.Gabbrielli.10},
  URN =		{urn:nbn:de:0030-drops-132322},
  doi =		{10.4230/OASIcs.Gabbrielli.10},
  annote =	{Keywords: Testing, Symbolic Traces, Guarded Commands, Partial Order Reduction}
}
Document
DOI: 10.4230/LIPIcs.ITCS.2020.77
Graph Spanners in the Message-Passing Model

Authors: Manuel Fernández V, David P. Woodruff, and Taisuke Yasuda

Published in: LIPIcs, Volume 151, 11th Innovations in Theoretical Computer Science Conference (ITCS 2020)

Abstract
Graph spanners are sparse subgraphs which approximately preserve all pairwise shortest-path distances in an input graph. The notion of approximation can be additive, multiplicative, or both, and many variants of this problem have been extensively studied. We study the problem of computing a graph spanner when the edges of the input graph are distributed across two or more sites in an arbitrary, possibly worst-case partition, and the goal is for the sites to minimize the communication used to output a spanner. We assume the message-passing model of communication, for which there is a point-to-point link between all pairs of sites as well as a coordinator who is responsible for producing the output. We stress that the subset of edges that each site has is not related to the network topology, which is fixed to be point-to-point. While this model has been extensively studied for related problems such as graph connectivity, it has not been systematically studied for graph spanners. We present the first tradeoffs for total communication versus the quality of the spanners computed, for two or more sites, as well as for additive and multiplicative notions of distortion. We show separations in the communication complexity when edges are allowed to occur on multiple sites, versus when each edge occurs on at most one site. We obtain nearly tight bounds (up to polylog factors) for the communication of additive 2-spanners in both the with and without duplication models, multiplicative (2k-1)-spanners in the with duplication model, and multiplicative 3 and 5-spanners in the without duplication model. Our lower bound for multiplicative 3-spanners employs biregular bipartite graphs rather than the usual Erdős girth conjecture graphs and may be of wider interest.
Cite as

Manuel Fernández V, David P. Woodruff, and Taisuke Yasuda. Graph Spanners in the Message-Passing Model. In 11th Innovations in Theoretical Computer Science Conference (ITCS 2020). Leibniz International Proceedings in Informatics (LIPIcs), Volume 151, pp. 77:1-77:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2020)

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@InProceedings{fernandezv_et_al:LIPIcs.ITCS.2020.77,
  author =	{Fern\'{a}ndez V, Manuel and Woodruff, David P. and Yasuda, Taisuke},
  title =	{{Graph Spanners in the Message-Passing Model}},
  booktitle =	{11th Innovations in Theoretical Computer Science Conference (ITCS 2020)},
  pages =	{77:1--77:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-134-4},
  ISSN =	{1868-8969},
  year =	{2020},
  volume =	{151},
  editor =	{Vidick, Thomas},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ITCS.2020.77},
  URN =		{urn:nbn:de:0030-drops-117620},
  doi =		{10.4230/LIPIcs.ITCS.2020.77},
  annote =	{Keywords: Graph spanners, Message-passing model, Communication complexity}
}
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