Ramona Ontology Reading Group

Nov.19.2020

Ramona's BCO paper https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3940615/

Jan.28.2020

https://douroucouli.wordpress.com/2019/06/

https://douroucouli.wordpress.com/2019/05/10/ontotip-single-inheritance-principle-considered-dangerous/

http://ontogenesis.knowledgeblog.org/49/

Recommended background reading: http://www.cs.man.ac.uk/~rector/papers/rector-modularisation-kcap-2003-distrib.pdf

Feb.24.2020

https://www.w3.org/TR/2012/REC-owl2-primer-20121211/#OWL_2_DL_and_OWL_2_Full

https://www.w3.org/TR/2012/REC-owl2-primer-20121211/#OWL_2_Profiles

https://www.w3.org/TR/owl2-profiles/

ELK paper: http://ceur-ws.org/Vol-858/ore2012_paper10.pdf (you may not want to read this full paper - just skim)

Mar.24

Book on RDF validation:

http://book.validatingrdf.com/bookHtml011.html

examples

EPOS DCAT application profile: defines classes for Facility, Equipment, Publication and WebService https://github.com/epos-eu/EPOS-DCAT-AP/blob/EPOS-DCAT-AP-shapes/epos-dcat-ap_shapes.ttl

shape graphs for Google type dataset https://github.com/ESIPFed/science-on-schema.org/tree/master/validation/shapegraphs

The W3C SHACL specification https://www.w3.org/TR/shacl/

Blog--Rule Execution With SHACL https://dzone.com/articles/rule-execution-with-shacl

April 7

SPARQL

1. W3C primere: https://www.w3.org/TR/rdf-sparql-query/
2. A how-to paper: https://link.springer.com/chapter/10.1007/978-3-642-21034-1_26 (full PDF at https://link.springer.com/content/pdf/10.1007%2F978-3-642-21034-1_26.pdf) https://ieeexplore.ieee.org/abstract/document/8873596
3. Using SPARQL in research: https://ieeexplore.ieee.org/abstract/document/8873596
4. An optional tutorial: https://jena.apache.org/tutorials/sparql.html

May 5

https://link.springer.com/content/pdf/10.1007%2F11574620_21.pdf

https://jbiomedsem.biomedcentral.com/articles/10.1186/s13326-017-0126-0

Reference (at least have a look):

http://ontologydesignpatterns.org/wiki/Main_Page

Additional reading:

http://ceur-ws.org/Vol-668/paper12.pdf

https://daselab.cs.ksu.edu/sites/default/files/modl_paper.pdf

Aug 4

https://www.researchgate.net/publication/221022560_Ontology_Maturing_a_Collaborative_Web_20_Approach_to_Ontology_Engineering

https://www.researchgate.net/publication/282670063_An_ontology_co-design_method_for_the_co-creation_of_a_continuous_care_ontology

Aug 18 2020

Peer-production system or collaborative ontologyengineering effort: What is Wikidata?, Science Forum: Wikidata as a knowledge graph for the life sciences