Difference between revisions of "Topic vocabularies"
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(Created page with "Keywords or topics are important in identifying studies and / or data objects of interest to users. The MDR emphasises the collection of keywords about studies, because data o...") |
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{| class="wikitable" style="width: 95%;" | {| class="wikitable" style="width: 95%;" | ||
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| − | ! style="width: 3%; text-align:left;" | id !! style="width: 20%; text-align:left;" | name !! description and / or url !! style="width: 10%;" | source | + | ! style="width: 3%; text-align:left;" | id !! style="width: 20%; text-align:left;" | name !! description and / or url !! style="width: 15%;" | use_in_data_entry !! style="width: 10%;" | source |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 11 || Generated by authors|| style="padding-bottom:10px;" | Free text, not intentionally part of any controlled vocabulary || style="text-align:center;" | ECRIN | + | | 11 || Generated by authors || style="padding-bottom:10px;" | Free text, not intentionally part of any controlled vocabulary || style="text-align:center;" | false || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 12 || ICD 10|| style="padding-bottom:10px;" | https://icd.who.int/browse10/2016/en|| style="text-align:center;" | ECRIN | + | | 12 || ICD 10|| style="padding-bottom:10px;" | https://icd.who.int/browse10/2016/en || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 13 || ICD 11|| style="padding-bottom:10px;" | https://icd.who.int/browse11/l-m/en|| style="text-align:center;" | ECRIN | + | | 13 || ICD 11|| style="padding-bottom:10px;" | https://icd.who.int/browse11/l-m/en || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 14 || MESH|| style="padding-bottom:10px;" | https://www.nlm.nih.gov/mesh/meshhome.html|| style="text-align:center;" | ECRIN | + | | 14 || MESH|| style="padding-bottom:10px;" | https://www.nlm.nih.gov/mesh/meshhome.html || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 15 || SnoMed CT|| style="padding-bottom:10px;" | http://www.snomed.org/|| style="text-align:center;" | ECRIN | + | | 15 || SnoMed CT|| style="padding-bottom:10px;" | http://www.snomed.org/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 16 || MedDRA|| style="padding-bottom:10px;" | https://www.meddra.org/ || style="text-align:center;" | ECRIN | + | | 16 || MedDRA|| style="padding-bottom:10px;" | https://www.meddra.org/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 17 || NCI thesaurus|| style="padding-bottom:10px;" | https://ncit.nci.nih.gov/ncitbrowser/ || style="text-align:center;" | ECRIN | + | | 17 || NCI thesaurus|| style="padding-bottom:10px;" | https://ncit.nci.nih.gov/ncitbrowser/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 18 || Cochrane PICO terminology|| style="padding-bottom:10px;" | https://linkeddata.cochrane.org/pico-ontology || style="text-align:center;" | ECRIN | + | | 18 || Cochrane PICO terminology|| style="padding-bottom:10px;" | https://linkeddata.cochrane.org/pico-ontology || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 19 || CDISC controlled terminology|| style="padding-bottom:10px;" | https://www.cdisc.org/standards/terminology|| style="text-align:center;" | ECRIN | + | | 19 || CDISC controlled terminology|| style="padding-bottom:10px;" | https://www.cdisc.org/standards/terminology || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 20 || LOINC|| style="padding-bottom:10px;" | https://loinc.org/ || style="text-align:center;" | ECRIN | + | | 20 || LOINC|| style="padding-bottom:10px;" | https://loinc.org/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 21 || ATC drug classification|| style="padding-bottom:10px;" | https://www.whocc.no/atc/structure_and_principles/ || style="text-align:center;" | ECRIN | + | | 21 || ATC drug classification|| style="padding-bottom:10px;" | https://www.whocc.no/atc/structure_and_principles/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 22 || WHO Drug|| style="padding-bottom:10px;" | https://www.who-umc.org/whodrug/whodrug-portfolio/|| style="text-align:center;" | ECRIN | + | | 22 || WHO Drug|| style="padding-bottom:10px;" | https://www.who-umc.org/whodrug/whodrug-portfolio/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 23 || IUPAC chemical names || style="padding-bottom:10px;" | and biochemical names. https://iupac.org/what-we-do/nomenclature/|| style="text-align:center;" | ECRIN | + | | 23 || IUPAC chemical names || style="padding-bottom:10px;" | and biochemical names. https://iupac.org/what-we-do/nomenclature/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 24 || InChI chemical identifier || style="padding-bottom:10px;" | https://iupac.org/who-we-are/divisions/division-details/inchi/ || style="text-align:center;" | ECRIN | + | | 24 || InChI chemical identifier || style="padding-bottom:10px;" | https://iupac.org/who-we-are/divisions/division-details/inchi/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 25 || Enzyme Commission numbers / names|| style="padding-bottom:10px;" | https://www.qmul.ac.uk/sbcs/iubmb/ || style="text-align:center;" | ECRIN | + | | 25 || Enzyme Commission numbers / names|| style="padding-bottom:10px;" | https://www.qmul.ac.uk/sbcs/iubmb/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 26 || HGNC human genome codes / names || style="padding-bottom:10px;" | and related proteins. https://www.genenames.org/|| style="text-align:center;" | ECRIN | + | | 26 || HGNC human genome codes / names || style="padding-bottom:10px;" | and related proteins. https://www.genenames.org/ || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 27 || Taxonomic names|| style="padding-bottom:10px;" | e.g. Linnaean binominals. http://www.iczn.org/iczn/index.jsp || style="text-align:center;" | ECRIN | + | | 27 || Taxonomic names|| style="padding-bottom:10px;" | e.g. Linnaean binominals. http://www.iczn.org/iczn/index.jsp || style="text-align:center;" | true || style="text-align:center;" | true || style="text-align:center;" | ECRIN |
|- style="vertical-align:top;" | |- style="vertical-align:top;" | ||
| − | | 0 || Not yet known|| style="padding-bottom:10px;" | Dummy value supplied by default on entity creation. || style="text-align:center;" | ECRIN | + | | 0 || Not yet known|| style="padding-bottom:10px;" | Dummy value supplied by default on entity creation. || style="text-align:center;" | false || style="text-align:center;" | ECRIN |
|} | |} | ||
Revision as of 19:19, 21 April 2022
Keywords or topics are important in identifying studies and / or data objects of interest to users. The MDR emphasises the collection of keywords about studies, because data objects generated by those studies will tend to share the same keywords. Topics can also be listed for data objects, however, when those objects are relatively independent of the study – most obviously for a journal article.
In many cases the keywords or topics will be generated by the data object creators, and in that sense are free text. In others object creators or repositories are constrained to use particular controlled terminologies. In those cases it is useful to identify the terminology system used, as well as the term’s code within it, as it can make searching and filtering easier.
The controlled terminology systems in the MDR system are as follows.
| id | name | description and / or url | use_in_data_entry | source | |
|---|---|---|---|---|---|
| 11 | Generated by authors | Free text, not intentionally part of any controlled vocabulary | false | ECRIN | |
| 12 | ICD 10 | https://icd.who.int/browse10/2016/en | true | ECRIN | |
| 13 | ICD 11 | https://icd.who.int/browse11/l-m/en | true | ECRIN | |
| 14 | MESH | https://www.nlm.nih.gov/mesh/meshhome.html | true | ECRIN | |
| 15 | SnoMed CT | http://www.snomed.org/ | true | ECRIN | |
| 16 | MedDRA | https://www.meddra.org/ | true | ECRIN | |
| 17 | NCI thesaurus | https://ncit.nci.nih.gov/ncitbrowser/ | true | ECRIN | |
| 18 | Cochrane PICO terminology | https://linkeddata.cochrane.org/pico-ontology | true | ECRIN | |
| 19 | CDISC controlled terminology | https://www.cdisc.org/standards/terminology | true | ECRIN | |
| 20 | LOINC | https://loinc.org/ | true | ECRIN | |
| 21 | ATC drug classification | https://www.whocc.no/atc/structure_and_principles/ | true | ECRIN | |
| 22 | WHO Drug | https://www.who-umc.org/whodrug/whodrug-portfolio/ | true | ECRIN | |
| 23 | IUPAC chemical names | and biochemical names. https://iupac.org/what-we-do/nomenclature/ | true | ECRIN | |
| 24 | InChI chemical identifier | https://iupac.org/who-we-are/divisions/division-details/inchi/ | true | ECRIN | |
| 25 | Enzyme Commission numbers / names | https://www.qmul.ac.uk/sbcs/iubmb/ | true | ECRIN | |
| 26 | HGNC human genome codes / names | and related proteins. https://www.genenames.org/ | true | ECRIN | |
| 27 | Taxonomic names | e.g. Linnaean binominals. http://www.iczn.org/iczn/index.jsp | true | true | ECRIN |
| 0 | Not yet known | Dummy value supplied by default on entity creation. | false | ECRIN |
