doi and the mitteilungen: communicating scientific results in the future
TRANSCRIPT
DOI and the Mitteilungen: communicating scientific results in the future
Donat AgostiPlazi
Entomo.ch, Neuchâtel
March 4, 2016
Why do we publish?
Communication
Why do we publish?
• Communication
• Documentation: Building up knowledge
• Attribution: getting credit
• Citation: give credit and references
• Ego
• Career
Print: 1450
The Origins of the Mitteilungen (1862)
• Print• Printer produces print• Ship by mail• Library• Bibliographic citation
PDF: 1993
The Begin of the Digital Age of the Mitteilungen: 2006
• Print and PDF (Portable Document Format)• Editor produces print ready PDF• Ship by mail / email• Library / online library (digital archive)• Bibliographic citation
DOI and the begin of linking citations: 2000
DOI: Definition
Digital Object Identifierakaunique, persistent, resolvable identifier for citations in scholarly materials
DOI: 2000
DOI provider: ETHZ / Retroseal
DOI: 10.5169/seals-400145
DOI: 2015
DOI
DOI: 10.5169/seals-402254
DOI: 10.5281/zenodo.27083
DOI provider: Zenodo / Biodiversity Literature Repository
DOI Anbieter: ETHZ / Retroseal / Zenodo
DOI provider Retro.seals Zenodo/ BLR
For MSEG legacy publications
yes no (yes)
For prospective publications
no yes
The future
Beyond the PDF:
from unstructured document to structured, linked, open data
Taxonomic publication
Material citationTreatmentArticleJournal
is part of is part of is part of
citescites cites
Scientific names
is part of cites
Taxonomic publication
FigureTreatmentArticleJournalhas part has part has part
DOI httpURI DOI
Scientific names
has part
LSID
Bold: unique, persistent identifiers
The future: semantic enhanced articles
PDF XML
XML
• Print, PDF, XML• Author/editor produces XML;
PDF conversion automatic• (Ship by mail / email), online• Library / online library (digital
archive) / knowledge system• Extended Journal Production
Workflow• Bibliographic citation
Examples: • Zookeys• Biodiversity Data Journal
The future: semantic enhanced articles
Structured journals: Access and visualization
Structured articles: Access and visualization
Linked data
Structured treatments: Access and visualization
Structured treatments: Access and visualization
Treatment
Linking to external data
NCBI
Ongoing dissemination
Observation record 1
Treatment Article
digital object
BarCode
Data, content (not only metadata)Each element is defined by a vocabulary/ontology
Name (eg Zoobank)
Cited Treatments
Cited Articles
Identifiers
Observation record 2
Treatment
digital object
BarCode
Name (eg Zoobank)
Cited Treatments
Observation
record 4Treatm
entArticle
digital object
BarCode
Nam
e (eg Zoobank)
Cited Treatm
ents
Observation
record 3Treatm
ent
digital object
BarCode
Nam
e (eg Zoobank)
Cited Treatm
ents
Observation record n+1
TreatmentArticle
digital object
BarCode
Name (eg Zoobank)
Cited Treatments
Observation record n
Treatment
digital object
BarCode
Name (eg Zoobank)
Cited Treatments
Observation record 5
digital object
BarCode
Trait
cites
same as ref
ers tosam
e as refers to
The «Mehlwurm» lives in dry bread... or the potential of LOD
has traits
Is pa
rt o
f
is part of
refers to
has traits
“The larva of the mealworm lives in dry bread and can be eaten in Switzerland”
Bridging the gap from name to literature or text and data mining
The near future
Collaboration with ContentMine to extract treatments on a daily basis
http://www.slideshare.net/petermurrayrust/?
BioDiv
The future
How to get there?
from unstructured document to structured, linked, open data
Treatment?
structureedTreatment (1)
Journal run
Atrticle
Treatment
vendor
scientist
Scientist / crowd
Vendor - level
General markup
structured treatment (2) and data
markup programs
services
Domain - level
Domain specific markup
Publication
lega
cypr
ospe
ctive
Taxpub (1) (zookeys)
Taxpub (2) BDJ
scripting scientist
scientist
crowd
Work Data Work OpenAccess
Publication conversion workflows
The future
Where is the future of the Mitteilungen?
It is up to the SEG …
To be considered:• Outreach• Costs • Legacy publications
