Methods of creating knowledge graph by linking biological databases

Nazar Zaki; Chandana Tennakoon; Hany Al Ashwal; Alanoud Al Jaberi; Amel Al Ameri

doi:10.1007/978-3-319-98702-6_7

Methods of creating knowledge graph by linking biological databases

Nazar Zaki, Chandana Tennakoon, Hany Al Ashwal, Alanoud Al Jaberi, Amel Al Ameri

Department of Computer Science and Software Engineering

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

A large number of biological databases are currently in use by scientists. These databases employ different formats, many of which can be converted into resource description format (RDF), which can be subsequently queried using semantic web methods. These databases have “inter” and “intra” database relationships. RDF has an inherent graph structure that facilitates exploration of connections between data via graphical representations known as knowledge graphs. In this paper, we survey the existing methods that are in use to link biological databases and evaluate the effectiveness with which the available approaches can predict unknown links between entities in databases as a means of improving knowledge graphs.

Original language	English
Title of host publication	Practical Applications of Computational Biology and Bioinformatics, 12th International Conference
Editors	Miguel Rocha, Mohd Saberi Mohamad, Juan F. De Paz, Florentino Fdez-Riverola, Pascual Gonzalez
Publisher	Springer Verlag
Pages	52-62
Number of pages	11
ISBN (Print)	9783319987019
DOIs	https://doi.org/10.1007/978-3-319-98702-6_7
Publication status	Published - 2019
Event	12th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2018 - Toledo, Spain Duration: Jun 20 2018 → Jun 22 2018

Publication series

Name	Advances in Intelligent Systems and Computing
Volume	803
ISSN (Print)	2194-5357

Other

Other	12th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2018
Country/Territory	Spain
City	Toledo
Period	6/20/18 → 6/22/18

Keywords

Information retrieval
Knowledge graph
Missing links
Protein-protein interaction

ASJC Scopus subject areas

Control and Systems Engineering
General Computer Science

Access to Document

10.1007/978-3-319-98702-6_7

Cite this

Zaki, N., Tennakoon, C., Al Ashwal, H., Al Jaberi, A., & Al Ameri, A. (2019). Methods of creating knowledge graph by linking biological databases. In M. Rocha, M. S. Mohamad, J. F. De Paz, F. Fdez-Riverola, & P. Gonzalez (Eds.), Practical Applications of Computational Biology and Bioinformatics, 12th International Conference (pp. 52-62). (Advances in Intelligent Systems and Computing; Vol. 803). Springer Verlag. https://doi.org/10.1007/978-3-319-98702-6_7

Methods of creating knowledge graph by linking biological databases. / Zaki, Nazar; Tennakoon, Chandana; Al Ashwal, Hany et al.
Practical Applications of Computational Biology and Bioinformatics, 12th International Conference. ed. / Miguel Rocha; Mohd Saberi Mohamad; Juan F. De Paz; Florentino Fdez-Riverola; Pascual Gonzalez. Springer Verlag, 2019. p. 52-62 (Advances in Intelligent Systems and Computing; Vol. 803).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Zaki, N, Tennakoon, C, Al Ashwal, H, Al Jaberi, A & Al Ameri, A 2019, Methods of creating knowledge graph by linking biological databases. in M Rocha, MS Mohamad, JF De Paz, F Fdez-Riverola & P Gonzalez (eds), Practical Applications of Computational Biology and Bioinformatics, 12th International Conference. Advances in Intelligent Systems and Computing, vol. 803, Springer Verlag, pp. 52-62, 12th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2018, Toledo, Spain, 6/20/18. https://doi.org/10.1007/978-3-319-98702-6_7

Zaki N, Tennakoon C, Al Ashwal H, Al Jaberi A, Al Ameri A. Methods of creating knowledge graph by linking biological databases. In Rocha M, Mohamad MS, De Paz JF, Fdez-Riverola F, Gonzalez P, editors, Practical Applications of Computational Biology and Bioinformatics, 12th International Conference. Springer Verlag. 2019. p. 52-62. (Advances in Intelligent Systems and Computing). doi: 10.1007/978-3-319-98702-6_7

Zaki, Nazar ; Tennakoon, Chandana ; Al Ashwal, Hany et al. / Methods of creating knowledge graph by linking biological databases. Practical Applications of Computational Biology and Bioinformatics, 12th International Conference. editor / Miguel Rocha ; Mohd Saberi Mohamad ; Juan F. De Paz ; Florentino Fdez-Riverola ; Pascual Gonzalez. Springer Verlag, 2019. pp. 52-62 (Advances in Intelligent Systems and Computing).

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Methods of creating knowledge graph by linking biological databases

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Keywords

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