Surya Gupta talks about her work on Proteine Associations - and did a graph dance.

1. THE TABLOID PROTEOME
ORTHOGONAL RE USE OF PUBLIC PROTEOMICS DATA TO
DERIVE BIOLOGICALLY RELATED PROTEIN NETWORK
surya gupta
surya.gupta@vib-ugent.be
@suryagupta08

2. Jennifer Lopez Is ''Having Fun'' With Drake but is it serious?
Last week, Drake and Jennifer went to the
same party at new Los Angeles hot spot
Delilah.

4. Proteins play an important role in cell function and
communication
http://www.axt.com.au/proteomics-proteins-properties-functions/

5. proteins associate with other proteins to perform their
functions
Malley et al., 2016

6. proteins associate with other proteins to perform their
functions
cancerobesity
type 2 diabetes
neurodegeneration
Malley et al., 2016, Laplante et al.,2013

7. Jennifer Lopez Is ''Having Fun'' With Drake but is it serious?
Last week, Drake and Jennifer went to the
same party at new Los Angeles hot spot
Delilah.

9. CC BY-SA 4.0
Protein co-occurrence is used to detect a possible
biological relationship between co-occurring pairs
PRIDE MS experiments
Martens et al., 2005

10. CC BY-SA 4.0
Identified proteins are paired, and these pairs are
further mapped with the existing database knowledge
Reprocess Associations Annotations
Jaccard similarity coefficient
PRIDE datasets Associated
protein pairs
Gupta et al., 2017 JPR

11. CC BY-SA 4.0
Total 2325 protein pairs were found have at least
Jaccard similarity score of 0.4

12. CC BY-SA 4.0
71% of protein pairs were known to be associated
according to five knowledge bases

13. CC BY-SA 4.0
Selection of a good database model is important
to handle complexity of data

14. CC BY-SA 4.0
It is easy to store, query and visualize multiple
association from graph database

15. CC BY-SA 4.0
Neo4j based graph database is used to store this
large amount of protein association
Selection of a good database model is important
to handle complexity of data

16. CC BY-SA 4.0
It is easy to store, query and visualize multiple
association from graph database

17. CC BY-SA 4.0
Graph database also allows fast queries for search
related to shared nodes

18. CC BY-SA 4.0
Graph database also allows fast queries for search
related to shared nodes

19. CC BY-SA 4.0
http://tabloidproteome.com
Tabloid Proteome is an annotated online database
for associated protein pairs
Gupta et al., 2018 NAR

20. CC BY-SA 4.0
Tabloid Proteome is an annotated online database
for associated protein pairs
Gupta et al., 2018 NAR

21. CC BY-SA 4.0
Results in the online Tabloid Proteome is represented
in two forms: table view and graph View
Table View Graph View
Gupta et al., 2018 NAR

22. CC BY-SA 4.0
The results can also be visualized as a graph
Tabloid Proteome: version 1.4 CC BY-SA 4.0

23. CC BY-SA 4.0
With Graph database, it is easy to check for in-direct
relations between two proteins

24. CC BY-SA 4.0
Graph algorithms can be used to detect class of
proteins with related biological function
Müller et al., 2008; Ni et al., 2017

25. http://poy.time.com/2013/12/10/the-year-in-connections-2013/

26. CC BY-SA 4.0
www.compomics.com
@compomics
www.crl-mappit.be