Presentation of Research Graph Gephi Toolkit in Open Repository 2017

1. Visualising Research Graph using
Neo4j and Gephi
Amir Aryani - orcid.org/0000-0002-4259-9774
Hao Zhang - orcid.org/0000-0002-1382-0505
Australian National University (ANU)
This presentation on "Creating a Distributed Graph using RD-Switchboard" by Dr. Amir Aryani is licensed under a Creative Commons Attribution-ShareAlike 4.0
International License (http://creativecommons.org/licenses/by-sa/4.0/).

2. Agenda
• What do we try to achive (abstract view) and why?
• Background: What is Research Graph?
• Live demo of Neo4j
• Data pipeline
• Live demo of Gephi
• Gephi filters

3. What & Why?
What do we try to achive and why?

4. • Connect DSpace records to
• ORCID profile records
• Grants
• Visualise the graph in Gephi

5. Background
Challenge of cross-platform discovery

6. {All started here!}
Research Data Australia
Suggested Links
March 2014, Version 12

7. Data Description Registry
Interoperability (DDRI) Working Group
Research Data Alliance
Goal: enabling cross-platform discovery between
research data infrastructures

8. DDRI WG Approach
Connecting datasets on the basis of
co-authorship or other collaboration
models such as joint funding and
grants.
Research Data Alliance

9. https://researchdata.ands.org.au/idmm-immunome-
database-for-marsupials-and-monotremes/11139

12. Show 105 more
publications

13. http://dx.doi.org/10.1371/journal.pone.0079092
One of the 105 articles …

15. doi:10.5061/dryad.4qq0v
Authors: Wong ESW, Nichol
S, Warren WC, Belov K
Dryad Dataset
http://datadryad.org/resource/doi:10.5061/dryad.4qq0v

16. We have found another dataset from
the same author…
Dataset
Researcher
Publication
Dataset

17. Toward an
Automated Solution

18. Research Data Switchboard
Toward automating the process

19. Using machines…

20. http://researchgraph.org/schema/

21. Connecting Datasets by
Three Degrees of Separation

22. Live demo
Neo4j

23. Exploring the graph…

24. Find links to ORCID
match (n:dataset:dryad)- -(o:orcid) return count(n)
match (n:dataset:ands)- -(o:orcid) where n.ands_group='The
University of Sydney' return n limit 10

25. Find Highly Connected
Datasets
match (n:ands:dataset)--(x) return n.key, n.title, count(x) order
by count (x) DESC limit 25

26. Find Shortest Path Between
Two Datasets
MATCH p=shortestPath(
(d1:dryad:dataset {doi: '10.5061/dryad.4qq0v'})-[*]-
(d2:ands:dataset {doi:'10.1186/1471-2172-12-48'})
) RETURN p

27. Data Pipeline

28. 1. DSpace to Neo4j
1.1. Harvest
1.2. Import-XML
2. Synthesis
3. Neo4j to Gephi
3.1. Neo4j Shell
3.2. Gephi Filter program

29. Harvest
https://github.com/rd-switchboard

31. Import-XML

32. Neo4j Result

33. Synthesis

34. Synthesis

35. Synthesis Configuration
• Sync.Source: S3 Bucket
• Sync.Target: S3 Bucket
• Sync.Level
• Sync.Keys

36. Neo4j to Gephi
• Neo4j Shell
• export-graphml -t -r -o out.graphml match
(n)-[r]->() return n,r
• Gephi Filter
• java -jar graph-filter.1.0.jar gephi.conf

38. General track 10: Machine friendly repositories
Time: Thursday, 29/Jun/2017: 9:00am - 10:30am
Research Graph: Building a Distributed Graph of Scholarly
Works using Research Data Switchboard

39. Further information
• Collaborators: http://researchgraph.org/collaborators/
• Schema: http://researchgraph.org/schema/
• GitHub: https://github.com/researchgraph
• Facebook: facebook.com/researchgraph
To get involved in this project please contact
amir.aryani@ands.org.au