Bioinformatics use case

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Greetings!

Use Case: Protein-protein interaction networks are scale-free and
String (http://string-db.org/) for example, offers cross-species data
to suggest new directions for exploration in a particular species.

"...finding the best scoring path connecting two proteins in the
STRING network is a crucial part of the NetworKIN algorithm ( Linding
et al., 2007)." (1)

Neo4j, a popular property graph database outperformed PostgreSQL by a
factor of 981x on the best scoring path test.

Property graphs, where appropriate, can be the targets of highly
efficient algorithms designed for graph data.

References:

(1) Are graph databases ready for bioinformatics? Christian Theil
Have1 and Lars Juhl Jensen. Bioinformatics (2013) doi:
10.1093/bioinformatics/btt549

http://dx.doi.org/10.1093/bioinformatics/btt549

Hope everyone is having a great day!

Patrick
- -- 
Patrick Durusau
patrick@durusau.net
Technical Advisory Board, OASIS (TAB)
Former Chair, V1 - US TAG to JTC 1/SC 34
Convener, JTC 1/SC 34/WG 3 (Topic Maps)
Editor, OpenDocument Format TC (OASIS), Project Editor ISO/IEC 26300
Co-Editor, ISO/IEC 13250-1, 13250-5 (Topic Maps)

Another Word For It (blog): http://tm.durusau.net
Homepage: http://www.durusau.net
Twitter: patrickDurusau
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Received on Wednesday, 13 November 2013 16:53:09 UTC