DOI and the Mitteilungen: communicating scientific results in the future

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

Thanks!

Donat Agostiagosti@plazi.org