Difference between revisions of "Data exchange standards, protocols and formats relevant for the collection data domain within the GFBio network"

Revision as of 14:32, 16 February 2021

The Natural History Collections and Culture Collection BGBM, DSMZ, MfN, SGN, SMNS, SNSB, ZFMK with their evolving GFBio Collection Data Centers/ Data Archives are partners of several national and international initiatives and projects developing and using data exchange protocols and standards. During the first months of the GFBio project the partners collected and evaluated relevant technical documentations of existing domain-specific data exchange formats, interfaces and protocols with relevance for the interaction and harmonization between collection management systems and archive infrastructure as a whole (see table below). This table deals with collection standards, but it was decided to include SDD, EML and GML as well, as they are used and closely connected to the work within GFBio Collection Data Centers/ Data Archives.

This documentation is part of the process to identify existing and to install and integrate new data exchange mechanisms and protocols appropriate for the GFBio network. It provides useful information for software developers and data scientists to set up and run GFBio agreed standard exchange software solutions at the GFBio Collection Data Centers.

Table: Data exchange standards, protocols and formats relevant for the collection data domain within the GFBio network

Note: Cells highlighted in grey indicate standards and protocols for which the GFBio Collection Data Centers/ Archives have expertise or which they use directly or indirectly.

Explanations:

Data Domain (values): Collection Archives; Biodiversity Literature; Literature; Geography; General

Standard/ Protocol Category (values): Data Exchange Standard (Def.: standard schema describing semantic of data elements and in some cases also the syntax, i. e. xml, RDF, CSV); Data Exchange Protocol (Def.: rule of communication enabling data exchange. It uses existing standard schemas); Metadata Standard (Def.: standard schema describing the overall content of a whole data set)

Status: status in standardization, e.g. accepted, under review, proposed, none, draft, published, out-dated; standardization body

GFBio Collection Data Centers/ Data Archives – Expertise: standards and protocols in use by GFBio Collection Data Centers; directly or (indirectly)

References

1. ↑ ABCD 2.06 TDWG Standard
2. ↑ ^{2.0 2.1 2.2} DwC-ABCD Mapping
3. ↑ ABCD 2 Terms on TDWG Terms Wiki (individual concepts are also addressable via LOD compatible short names)
4. ↑ ABCD 3.0 webpage
5. ↑ ABCDDNA TDWG Draft Standard;wiki-page documenting ABCDDNA
6. ↑ Petersen et al. 2018
7. ↑ GeoCASe Website - EFG; Kiessling et al., 2006 Proceedings of TDWG
8. ↑ [Conn, R.J. (ed.) (1996). HISPID3. Herbarium Information Standards and Protocols for Interchange of Data. (Council of Heads of Australian Herbaria at Royal Botanic Gardens: Sydney). Viewed at http://plantnet.rbgsyd.nsw.gov.au/HISCOM/HISPID/HISPID3/H3.html on 18 June 2007]
9. ↑ http://species-id.net/o/media/3/38/03_AudubonCore1.0NonNormative_docV1.93.pdf
10. ↑ usually only referred to as "BioCASE Protocol"
11. ↑ ^{11.0 11.1} BioCASE Protocol and Tapir are very similar
12. ↑ For more information about CDM see https://cybertaxonomy.eu/cdm-uml/latest/ and https://cybertaxonomy.eu/cdmlib/
13. ↑ ^{13.0 13.1} Dublin Core used to consist of 2 different sets of terms: Simple Dublin Core and Qualified Dublin Core. The Simple Dublin Core consists of 15 terms and is also called Dublin Core Metadata Element Set. In 2012 those two sets have been combined and simplified as DCMI Metadata Terms. The Simple Dublin Core set is still valid while the Qualified Dublin Core set has been deprecated.
14. ↑ ^{14.0 14.1} little known fact: Dublin Core is named after Dublin, Ohio, USA and not after Dublin, Ireland
15. ↑ DELTA System Overview
16. ↑ More information about DiGIR, last modification in 2005;Also see the DiGIR collaboration site, for downloadable files, source code (CVS), the developers' email list, etc.
17. ↑ DWC TDWG Standard; Wikipedia Darwin Core; Wieczorek et al. 2012, PLOS; Baker et al. 2014, Biodiversity Data Journal
18. ↑ General information about EAC-CPF
19. ↑ Beschreibung; Documentation
20. ↑ EDM Documentation
21. ↑ EML FAQ
22. ↑ ESE Documentation incl. xsd File, ESE will still be accepted as a metadata format for Europeana. It will be manually converted to EDM for use in the portal.
23. ↑ Website of Global Genome Biodiversity Network (GGBN)
24. ↑ http://www.opengeospatial.org/standards/gml
25. ↑ GML Official Website, Wikipedia Article on GML, Behr, Franz-Josef: GML-basierte Kodierung von Geodaten (German)
26. ↑ ICOM International Council of Museums - LIDO, LIDO (DDB): Lightweight Information Describing Objects (profile for the Deutsche Digitale Bibliothek)
27. ↑ MARCXML Official Website, incorporated into many other standards, e.g. OLEF
28. ↑ METS Official Website, incorporated into many other standards, e.g. OLEF
29. ↑ MIxS,Yilmaz et al., 2011
30. ↑ MIGS, Yilmaz et al.,2008
31. ↑ MOD-CO, Rambold et al., 2018
32. ↑ MOD-CO publication Database, Rambold et al., 2019
33. ↑ MODS Official Website, incorporated into many other standards, e.g. OLEF
34. ↑ NCD TDWG Interest Group Page
35. ↑ Some other complementary XML formats are also provided by the OAI to enhance PHM, like Provenance (XSD), OAI Identifier, Friends, e-prints.
36. ↑ OLEF presentation (Slideshare)
37. ↑ PREMIS Documentation; List of other tools for PREMIS
38. ↑ Overview Rosetta
39. ↑ SDD Wiki Archive
40. ↑ Simple DWC, part of TDWG standard
41. ↑ TAPIR TDWG Standard, Tapir Task Group

Status: January 2020

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