Nanopublications: A growing resource of provenance-centric scientific linked data

Tobias Kuhn; Albert Merono-Penuela; Alexander Malic; Jorrit H. Poelen; Allen H. Hurlbert; Emilio Centeno Ortiz; Laura I. Furlong; Nuria Queralt-Rosinach; Christine Chichester; Juan M. Banda; Egon Willighagen; Friederike Ehrhart; Chris Evelo; Tareq B. Malas; Michel Dumontier

doi:10.1109/eScience.2018.00024

Nanopublications: A growing resource of provenance-centric scientific linked data

Tobias Kuhn, Albert Merono-Penuela, Alexander Malic, Jorrit H. Poelen, Allen H. Hurlbert, Emilio Centeno Ortiz, Laura I. Furlong, Nuria Queralt-Rosinach, Christine Chichester, Juan M. Banda, Egon Willighagen, Friederike Ehrhart, Chris Evelo, Tareq B. Malas, Michel Dumontier

Research output: Chapter in Book / Report / Conference proceeding › Conference contribution › Academic › peer-review

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Abstract

Nanopublications are a Linked Data format for scholarly data publishing that has received considerable uptake in the last few years. In contrast to the common Linked Data publishing practice, nanopublications work at the granular level of atomic information snippets and provide a consistent container format to attach provenance and metadata at this atomic level. While the nanopublications format is domain-independent, the datasets that have become available in this format are mostly from Life Science domains, including data about diseases, genes, proteins, drugs, biological pathways, and biotic interactions. More than 10 million such nanopublications have been published, which now form a valuable resource for studies on the domain level of the given Life Science domains as well as on the more technical levels of provenance modeling and heterogeneous Linked Data. We provide here an overview of this combined nanopublication dataset, show the results of some overarching analyses, and describe how it can be accessed and queried.

Original language	English
Title of host publication	2018 IEEE 14th International Conference on eScience (e-Science)
Subtitle of host publication	[Proceedings]
Publisher	Institute of Electrical and Electronics Engineers Inc.
Pages	83-92
Number of pages	10
ISBN (Electronic)	9781538691564
ISBN (Print)	9781538691571
DOIs	https://doi.org/10.1109/eScience.2018.00024
Publication status	Published - 2018
Event	14th IEEE International Conference on eScience, e-Science 2018 - Amsterdam, Netherlands Duration: 29 Oct 2018 → 1 Nov 2018

Conference

Conference	14th IEEE International Conference on eScience, e-Science 2018
Country/Territory	Netherlands
City	Amsterdam
Period	29/10/18 → 1/11/18

Keywords

Linked Data
Nanopublications
Provenance

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10.1109/eScience.2018.00024

Nanopublications_A_Growing_Resource_of_Provenance-Centric_Scientific_Linked_DataFinal published version, 204 KBLicence: Article 25fa Dutch Copyright Act

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Kuhn, T., Merono-Penuela, A., Malic, A., Poelen, J. H., Hurlbert, A. H., Ortiz, E. C., Furlong, L. I., Queralt-Rosinach, N., Chichester, C., Banda, J. M., Willighagen, E., Ehrhart, F., Evelo, C., Malas, T. B., & Dumontier, M. (2018). Nanopublications: A growing resource of provenance-centric scientific linked data. In 2018 IEEE 14th International Conference on eScience (e-Science): [Proceedings] (pp. 83-92). Article 8588643 Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/eScience.2018.00024

@inproceedings{709f0013771e4be39550ddf0b8aa6b41,

title = "Nanopublications: A growing resource of provenance-centric scientific linked data",

abstract = "Nanopublications are a Linked Data format for scholarly data publishing that has received considerable uptake in the last few years. In contrast to the common Linked Data publishing practice, nanopublications work at the granular level of atomic information snippets and provide a consistent container format to attach provenance and metadata at this atomic level. While the nanopublications format is domain-independent, the datasets that have become available in this format are mostly from Life Science domains, including data about diseases, genes, proteins, drugs, biological pathways, and biotic interactions. More than 10 million such nanopublications have been published, which now form a valuable resource for studies on the domain level of the given Life Science domains as well as on the more technical levels of provenance modeling and heterogeneous Linked Data. We provide here an overview of this combined nanopublication dataset, show the results of some overarching analyses, and describe how it can be accessed and queried.",

keywords = "Linked Data, Nanopublications, Provenance",

author = "Tobias Kuhn and Albert Merono-Penuela and Alexander Malic and Poelen, {Jorrit H.} and Hurlbert, {Allen H.} and Ortiz, {Emilio Centeno} and Furlong, {Laura I.} and Nuria Queralt-Rosinach and Christine Chichester and Banda, {Juan M.} and Egon Willighagen and Friederike Ehrhart and Chris Evelo and Malas, {Tareq B.} and Michel Dumontier",

year = "2018",

doi = "10.1109/eScience.2018.00024",

language = "English",

isbn = "9781538691571",

pages = "83--92",

booktitle = "2018 IEEE 14th International Conference on eScience (e-Science)",

publisher = "Institute of Electrical and Electronics Engineers Inc.",

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note = "14th IEEE International Conference on eScience, e-Science 2018 ; Conference date: 29-10-2018 Through 01-11-2018",

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Kuhn, T, Merono-Penuela, A, Malic, A, Poelen, JH, Hurlbert, AH, Ortiz, EC, Furlong, LI, Queralt-Rosinach, N, Chichester, C, Banda, JM, Willighagen, E, Ehrhart, F, Evelo, C, Malas, TB & Dumontier, M 2018, Nanopublications: A growing resource of provenance-centric scientific linked data. in 2018 IEEE 14th International Conference on eScience (e-Science): [Proceedings]., 8588643, Institute of Electrical and Electronics Engineers Inc., pp. 83-92, 14th IEEE International Conference on eScience, e-Science 2018, Amsterdam, Netherlands, 29/10/18. https://doi.org/10.1109/eScience.2018.00024

Nanopublications: A growing resource of provenance-centric scientific linked data. / Kuhn, Tobias; Merono-Penuela, Albert; Malic, Alexander et al.
2018 IEEE 14th International Conference on eScience (e-Science): [Proceedings]. Institute of Electrical and Electronics Engineers Inc., 2018. p. 83-92 8588643.

Research output: Chapter in Book / Report / Conference proceeding › Conference contribution › Academic › peer-review

TY - GEN

T1 - Nanopublications: A growing resource of provenance-centric scientific linked data

AU - Kuhn, Tobias

AU - Merono-Penuela, Albert

AU - Malic, Alexander

AU - Poelen, Jorrit H.

AU - Hurlbert, Allen H.

AU - Ortiz, Emilio Centeno

AU - Furlong, Laura I.

AU - Queralt-Rosinach, Nuria

AU - Chichester, Christine

AU - Banda, Juan M.

AU - Willighagen, Egon

AU - Ehrhart, Friederike

AU - Evelo, Chris

AU - Malas, Tareq B.

AU - Dumontier, Michel

PY - 2018

Y1 - 2018

N2 - Nanopublications are a Linked Data format for scholarly data publishing that has received considerable uptake in the last few years. In contrast to the common Linked Data publishing practice, nanopublications work at the granular level of atomic information snippets and provide a consistent container format to attach provenance and metadata at this atomic level. While the nanopublications format is domain-independent, the datasets that have become available in this format are mostly from Life Science domains, including data about diseases, genes, proteins, drugs, biological pathways, and biotic interactions. More than 10 million such nanopublications have been published, which now form a valuable resource for studies on the domain level of the given Life Science domains as well as on the more technical levels of provenance modeling and heterogeneous Linked Data. We provide here an overview of this combined nanopublication dataset, show the results of some overarching analyses, and describe how it can be accessed and queried.

AB - Nanopublications are a Linked Data format for scholarly data publishing that has received considerable uptake in the last few years. In contrast to the common Linked Data publishing practice, nanopublications work at the granular level of atomic information snippets and provide a consistent container format to attach provenance and metadata at this atomic level. While the nanopublications format is domain-independent, the datasets that have become available in this format are mostly from Life Science domains, including data about diseases, genes, proteins, drugs, biological pathways, and biotic interactions. More than 10 million such nanopublications have been published, which now form a valuable resource for studies on the domain level of the given Life Science domains as well as on the more technical levels of provenance modeling and heterogeneous Linked Data. We provide here an overview of this combined nanopublication dataset, show the results of some overarching analyses, and describe how it can be accessed and queried.

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KW - Provenance

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U2 - 10.1109/eScience.2018.00024

DO - 10.1109/eScience.2018.00024

M3 - Conference contribution

AN - SCOPUS:85058974187

SN - 9781538691571

SP - 83

EP - 92

BT - 2018 IEEE 14th International Conference on eScience (e-Science)

PB - Institute of Electrical and Electronics Engineers Inc.

T2 - 14th IEEE International Conference on eScience, e-Science 2018

Y2 - 29 October 2018 through 1 November 2018

ER -

Kuhn T, Merono-Penuela A, Malic A, Poelen JH, Hurlbert AH, Ortiz EC et al. Nanopublications: A growing resource of provenance-centric scientific linked data. In 2018 IEEE 14th International Conference on eScience (e-Science): [Proceedings]. Institute of Electrical and Electronics Engineers Inc. 2018. p. 83-92. 8588643 Epub 2018 Dec 27. doi: 10.1109/eScience.2018.00024

Nanopublications: A growing resource of provenance-centric scientific linked data

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