The SIB Swiss Institute of Bioinformatics Semantic Web of data Article Swipe
Adrian Altenhoff
,
Amos Bairoch
,
Parit Bansal
,
Delphine Baratin
,
Frederic Bastian
,
Jerven Bolleman
,
Alan Bridge
,
Frédéric Burdet
,
Katrin Crameri
,
Jérôme Dauvillier
,
Christophe Dessimoz
,
Sébastien Géhant
,
Natasha Glover
,
Kristin Gnodtke
,
Catherine Hayes
,
Mark Ibberson
,
Evgenia V. Kriventseva
,
Dmitry Kuznetsov
,
Frédérique Lisacek
,
Florence Mehl
,
Tarcisio Mendes de Farias
,
Pierre-André Michel
,
Sébastien Moretti
,
Anne Morgat
,
Sabine Österle
,
Marco Pagni
,
Nicole Redaschi
,
Marc Robinson‐Rechavi
,
Kasun Samarasinghe
,
Ana-Claudia Sima
,
Damian Szklarczyk
,
Orlin Topalov
,
Vasundra Touré
,
Deepak Unni
,
Christian von Mering
,
Julien Wollbrett
,
Monique Zahn‐Zabal
,
Evgeny M. Zdobnov
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1093/nar/gkad902
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1093/nar/gkad902
The SIB Swiss Institute of Bioinformatics (https://www.sib.swiss/) is a federation of bioinformatics research and service groups. The international life science community in academia and industry has been accessing the freely available databases provided by SIB since its inception in 1998. In this paper we present the 11 databases which currently offer semantically enriched data in accordance with the FAIR principles (Findable, Accessible, Interoperable, Reusable), as well as the Swiss Personalized Health Network initiative (SPHN) which also employs this enrichment. The semantic enrichment facilitates the manipulation of large data sets from public databases and private data sets. Examples are provided to illustrate that the data from the SIB databases can not only be queried using precise criteria individually, but also across multiple databases, including a variety of non-SIB databases. Data manipulation, be it exploration, extraction, annotation, combination, and publication, is possible using the SPARQL query language. Providing documentation, tutorials and sample queries makes it easier to navigate this web of semantic data. Through this paper, the reader will discover how the existing SIB knowledge graphs can be leveraged to tackle the complex biological or clinical questions that are being addressed today.
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Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1093/nar/gkad902
- OA Status
- gold
- Cited By
- 12
- References
- 32
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4387935536
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4387935536Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1093/nar/gkad902Digital Object Identifier
- Title
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The SIB Swiss Institute of Bioinformatics Semantic Web of dataWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2023Year of publication
- Publication date
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2023-10-25Full publication date if available
- Authors
-
Adrian Altenhoff, Amos Bairoch, Parit Bansal, Delphine Baratin, Frederic Bastian, Jerven Bolleman, Alan Bridge, Frédéric Burdet, Katrin Crameri, Jérôme Dauvillier, Christophe Dessimoz, Sébastien Géhant, Natasha Glover, Kristin Gnodtke, Catherine Hayes, Mark Ibberson, Evgenia V. Kriventseva, Dmitry Kuznetsov, Frédérique Lisacek, Florence Mehl, Tarcisio Mendes de Farias, Pierre-André Michel, Sébastien Moretti, Anne Morgat, Sabine Österle, Marco Pagni, Nicole Redaschi, Marc Robinson‐Rechavi, Kasun Samarasinghe, Ana-Claudia Sima, Damian Szklarczyk, Orlin Topalov, Vasundra Touré, Deepak Unni, Christian von Mering, Julien Wollbrett, Monique Zahn‐Zabal, Evgeny M. ZdobnovList of authors in order
- Landing page
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https://doi.org/10.1093/nar/gkad902Publisher landing page
- Open access
-
YesWhether a free full text is available
- OA status
-
goldOpen access status per OpenAlex
- OA URL
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https://doi.org/10.1093/nar/gkad902Direct OA link when available
- Concepts
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SPARQL, Computer science, Semantic Web, Annotation, RDF, Interoperability, Documentation, Biological database, World Wide Web, Linked data, Variety (cybernetics), Information retrieval, Database, Bioinformatics, Biology, Artificial intelligence, Programming languageTop concepts (fields/topics) attached by OpenAlex
- Cited by
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12Total citation count in OpenAlex
- Citations by year (recent)
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2025: 7, 2024: 4, 2023: 1Per-year citation counts (last 5 years)
- References (count)
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32Number of works referenced by this work
- Related works (count)
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10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.groups. | 16 |
| abstract_inverted_index.non-SIB | 127 |
| abstract_inverted_index.precise | 115 |
| abstract_inverted_index.present | 45 |
| abstract_inverted_index.private | 94 |
| abstract_inverted_index.queried | 113 |
| abstract_inverted_index.queries | 151 |
| abstract_inverted_index.science | 20 |
| abstract_inverted_index.service | 15 |
| abstract_inverted_index.variety | 125 |
| abstract_inverted_index.Abstract | 0 |
| abstract_inverted_index.Examples | 97 |
| abstract_inverted_index.academia | 23 |
| abstract_inverted_index.clinical | 184 |
| abstract_inverted_index.criteria | 116 |
| abstract_inverted_index.discover | 168 |
| abstract_inverted_index.enriched | 53 |
| abstract_inverted_index.existing | 171 |
| abstract_inverted_index.industry | 25 |
| abstract_inverted_index.multiple | 121 |
| abstract_inverted_index.navigate | 156 |
| abstract_inverted_index.possible | 140 |
| abstract_inverted_index.provided | 33, 99 |
| abstract_inverted_index.research | 13 |
| abstract_inverted_index.semantic | 81, 160 |
| abstract_inverted_index.Institute | 4 |
| abstract_inverted_index.Providing | 146 |
| abstract_inverted_index.accessing | 28 |
| abstract_inverted_index.addressed | 189 |
| abstract_inverted_index.available | 31 |
| abstract_inverted_index.community | 21 |
| abstract_inverted_index.currently | 50 |
| abstract_inverted_index.databases | 32, 48, 92, 108 |
| abstract_inverted_index.inception | 38 |
| abstract_inverted_index.including | 123 |
| abstract_inverted_index.knowledge | 173 |
| abstract_inverted_index.language. | 145 |
| abstract_inverted_index.leveraged | 177 |
| abstract_inverted_index.questions | 185 |
| abstract_inverted_index.tutorials | 148 |
| abstract_inverted_index.(Findable, | 61 |
| abstract_inverted_index.Reusable), | 64 |
| abstract_inverted_index.accordance | 56 |
| abstract_inverted_index.biological | 182 |
| abstract_inverted_index.databases, | 122 |
| abstract_inverted_index.databases. | 128 |
| abstract_inverted_index.enrichment | 82 |
| abstract_inverted_index.federation | 10 |
| abstract_inverted_index.illustrate | 101 |
| abstract_inverted_index.initiative | 73 |
| abstract_inverted_index.principles | 60 |
| abstract_inverted_index.Accessible, | 62 |
| abstract_inverted_index.annotation, | 135 |
| abstract_inverted_index.enrichment. | 79 |
| abstract_inverted_index.extraction, | 134 |
| abstract_inverted_index.facilitates | 83 |
| abstract_inverted_index.Personalized | 70 |
| abstract_inverted_index.combination, | 136 |
| abstract_inverted_index.exploration, | 133 |
| abstract_inverted_index.manipulation | 85 |
| abstract_inverted_index.publication, | 138 |
| abstract_inverted_index.semantically | 52 |
| abstract_inverted_index.individually, | 117 |
| abstract_inverted_index.international | 18 |
| abstract_inverted_index.manipulation, | 130 |
| abstract_inverted_index.Bioinformatics | 6 |
| abstract_inverted_index.Interoperable, | 63 |
| abstract_inverted_index.bioinformatics | 12 |
| abstract_inverted_index.documentation, | 147 |
| abstract_inverted_index.(https://www.sib.swiss/) | 7 |
| cited_by_percentile_year.max | 99 |
| cited_by_percentile_year.min | 89 |
| countries_distinct_count | 0 |
| institutions_distinct_count | 38 |
| sustainable_development_goals[0].id | https://metadata.un.org/sdg/9 |
| sustainable_development_goals[0].score | 0.41999998688697815 |
| sustainable_development_goals[0].display_name | Industry, innovation and infrastructure |
| citation_normalized_percentile.value | 0.88241779 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |