Communities and infrastructures to access agricultural knowledge Open Access Open data

Communities and infrastructures to access agricultural knowledge

Open Access

Open data

johannes keizerhttp://aims.fao.org

The Presenter

Johannes Keizer, PhD

• Background Molecular Biology• More than 25 years experience in

data management• Team Leader at United Nations

specialized Agency (FAO)• Expert in Linked Open Data for the

EC Semantic Interoperability Center


Disappearing Data

3

These are the data from my Phd thesis, I started to look for them


https://www.google.de/search?q=johannes+Keizer++Dissertation+Toxizitaet+und+Biotransformation+-+Unterschiede+in+der&aq=f&oq=johannes+Keizer++Dissertation+Toxizitaet+und+Biotransformation+-+Unterschiede+in+der&aqs=chrome.0.57.60915j0&sourceid=chrome&ie=UTF-8




johannes keizerhttp://aims.fao.org 5

2nd Google Searchhttps://www.google.de/search?q=johannes+Keizer++Dissertation+Toxizitaet+und+Biotransformation+-+Unterschiede+in+der&aq=f&oq=johannes+Keizer++Dissertation+Toxizitaet+und+Biotransformation+-+Unterschiede+in+der&aqs=chrome.0.57.60915j0&sourceid=chrome&ie=UTF-8

http://agris.fao.org/agris-search/search/display.do?f=2012%2FOV%2FOV2012002800028.xml%3BDE19940007889





http://agris.fao.org/agris-search/search/display.do?f=2012/OV/OV2012002800028.xml;DE19940007889

http://agris.fao.org/agris-search/search/display.do?f=2012/OV/OV2012002800028.xml;DE19940007889

…at the end I found a record about my PhD thesis, somewhat proud, that I found it through AGRIS, our own service.

But the data could not be found, they were practically lost in the few print copies and microfiche of the thesis

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http://www.fao.org

http://www.fao.org/


Strategic Objectives

FAOsStrategic Objectives


There will be generated more scientific data in the next 5 years than in the history of humankind


The distribution pattern is changing


Data definition (from RDA 1)

Data: digital recorded factual material commonly accepted n the scientific community as necessary to validate research findings


....what is data


The 5 stars of openness


……there is a lot of data



Widgets

Authoring services

Data Discovery Services

Analytics services

OntoServersOntoServers

Cloud CMSCloud CMS

…to RDF APIs…to RDF APIs

AggregatorsAggregators

Mash UpsMash Ups

Structured text (Bibliographie….

Semi structured text…CMS

Unstructured text/HTML…

Prepare data for

meaningful services

SemanticEnrichmentSemanticEnrichment

Highly structured data (data bases)

Semi structured data

LOD –TripleStores

Images

LOD – Infrastructure Services

Dataset DirectoriesDataset Directories

Community/People

Infrastructure/Technology

AGRIS: the hub for agricultural research

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Community

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Community


Community 2004 - AIMS

• Community of practice, 2000 practitioners

2007 - CIARD• Movement for opening access to agricultural knowledge

2013 - GODAN• High level advocacy for open Data in Agriculture and

Nutrition, influencing government, mobilizing resources

And

2012 – RDA, Research Data Alliance• Interdisciplinary Forum for all data related issues


G8 conference (April 2013)“How Open Data can be harnessed to help meet the challenge of sustainably feeding nine billion people by 2050”


Community

https://rd-alliance.org/


Institutional Data Sharing Practice

Data Access and Distribution Policy

Data Discovery Tools

Common Metadata Standards

Digital Object Identifiers

Data CitationStandards

Data Analytics Algorithms

Data Preservation Practice

Data Scientists and Expert Support

Sustainable Economic Models

Curation Practice and Policy

Auditing, Certification and Reporting Practice

RDA: Many Infrastructure Building Blocks Needed to Accelerate Progress



Wheat Data Interoperability Example

Files in a local drive

Files in a shared drive

Local databases

Shared databases

0

20

40

60

SNPs



Local databases

Shared databases

020406080

100

Phenotypes



Local databases

Shared databases

0

10

20

30

Physical maps



Local databases

Shared databases

0

20

40

60

80

Genomic annotations



Local databases

Shared databases

0

20

40

60

Genetic maps



Local databases

Shared databases

020406080

100

Germplasms

(Counts are the number of answers)


Map courtesy traveltip.org

Austral-pacific

4%

Africa

2% SouthAmerica

1%

The RDA Community Today: Over 1950 members from 80+ countries (July 14)

Asia4%

EU49%

AU3%

US37%

Other11%

http://traveltip.org/

Infrastructure

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Widgets

Authoring services

Data Discovery Services

Analytics services

OntoServersOntoServers

Cloud CMSCloud CMS

…to RDF APIs…to RDF APIs

AggregatorsAggregators

Mash UpsMash Ups

Structured text (Bibliographie….

Semi structured text…CMS

Unstructured text/HTML…

Prepare data for

meaningful services

SemanticEnrichmentSemanticEnrichment

Highly structured data (data bases)

Semi structured data

LOD –TripleStores

Images

LOD – Infrastructure Services

Dataset DirectoriesDataset Directories


Infrastructure elements

The RING• http://ring.ciard.net

Vocabulary Server• AGROVOC, CABT, NALT

• http://www.agrisemantics.org

The “VEST registry” (Tools, metadata)

Customized Content Management on the cloud• Agridrupal, AgriOcean Dspace

Tools and Methodologies to produce LOD

http://ring.ciard.net/

http://www.agrisemantics.org/


Infrastructure: Agrisemantics

Creating a common access point for Ontologies, taxonomies, vocabularies

Aligning the 3 agricultural thesauri (Agrovoc, NALT, CABT) Global Agricultural Concept Scheme

Cutting edge editing environments (VocBench and Skosmos) have already been deployed

GACS prototype to be released in spring 2015


Applications

AGRIS• Basis bibliographical database with more than 7 million

records

• Uses AGROVOC and bib metadata to link to other open datasets

AgriProfiles• Based on the “Vivo” application,

• Harvests Expert data from different sources and gives the possibility for semantic searches

AgriFeeds• Aggregated News and Events Feeds semantically organized


Content Coverage

International System for Agricultural Science and Technology

Food science, forestry, aquaculture, fisheries

Grey literature, small and big publishers

7,802,156 multilingual bibliographic records

200,585,375 triples


AGRIS’ users

Accessed from more than 200 countries and territories

Peaks of 250,000 visits/month (G.A.)

Users’ categories:• Researchers, professors, graduated students

• Librarians, cataloguers

• Small journal publishers, professional associations, conference organizers

• Government officers asking for reports on a certain topic


AGRIS Mash UP


AGRIS RDFbibo:Articlebibo:doibibo:isbndct:languagebibo:presentedAt -> bibo:Conference -> dct:titlebibo:uridct:alternativedct:creator -> foaf:organization -> foaf:namedct:creator -> foaf:Person -> foaf:namebibo:authorList -> rdf:Seq-> rdf:lidct:dateSubmitteddct:descriptionbibo:abstract

dct:extentdct:identifierdct:mediumdct:isPartOfdct:issueddct:publisher -> foaf:Organization -> foaf:namedct:sourcedct:subjectdc:subjectdct:titlebibo:volumebibo:issuedct:typedct:rights


AGRIS RDF RECORD

AGROVOC

There is a lot to do!

Some problems need to be resolved, especially on interoperability standards

But there is an enormous potential in making linked open data available

From government, science and business…

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..and more

http://rd-alliance.org/

http://www.aginfra.eu

http://agris.fao.org/http://aims.fao.orghttp://ring.ciard.nethttp://www.ciard.net

http://agris.fao.org/





http://aims.fao.org/



http://www.ciard.net/

http://www.ciard.net/

Documents

Communities and infrastructures to access agricultural knowledge Open Access Open data