Medstar: a prototype for biomedical
social network
Xiaoli Li
Institute for Infocomm Research
A*Star, Singapore
Some bioinformatics research
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Xiao-Li Li, Soon-Heng Tan, Chuan-Sheng Foo and See-Kiong Ng.
"Interaction Graph Mining for Protein Complexes Using Local Clique
Merging." in Genome Informatics, Vol. 16, No.2. 2005.
(BEST PAPER AWARD)
Kar Leong Tew, Xiao-Li Li and Soon-Heng Tan. "Functional Centrality:
Detecting lethality of proteins in protein interaction networks.", Proceedings
of 18th International Conference on Genome Informatics.
Xiao-Li Li, Chuan-Sheng Foo, See-Kiong Ng, "Discovering Protein
Complexes in Dense Reliable Neighborhoods of Protein Interaction
Networks", LSS 6th Annual International Conference on Computational
Systems Bioinformatics, CSB-2007.
Xiao-Li Li, Jun-Xiang Lee, Bharadwaj Veeravalli, and See-Kiong Ng. "An
HV-SVM Classifier to Infer TF-TF Interactions using Protein Domains and
GO Annotations", Proceedings of the IEEE 7th International Symposium on
Bioinformatics and Bioengineering (BIBE 2007) Boston, USA.
Xiao-Li Li, See-Kiong Ng. " Mining for domain dependency sets from protein
interactions", 12th Annual International Conference Research in
Computational Molecular Biology (RECOMB 2008), Singapore.
(BEST POSTER AWARD).
Some bioinformatics research
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Hon Nian Chua, Kar Leong Tew, Xiao-Li Li, Seekiong Ng, "A Unified Scoring
Scheme for Detecting Essential Proteins in Protein Interaction Networks",
"Proceedings of 20th IEEE Int'l Conference on Tools with Artificial
Intelligence, Australia, Ohio, USA, November 3-5, 2008
Hon Nian Chua, Willy Hugo, Guimei Liu, Xiao-Li Li, Limsoon Wong and
See-Kiong Ng, “A probabilistic graph-theoretic approach to integrate
multiple predictions for the protein-protein subnetwork prediction challenge”,
Annals of the New York Academy of Sciences, Vol 1158:224-33, 2009
Best Performance Award of the Protein-Protein Subnetwork Challenge,
DREAM 2007, USA
Xiao-Li Li, Jun-Xiang. Lee, B. Veeravalli, See-Kiong Ng, “Inferring
Transcription Factor Interactions Using a Novel HV-SVM Classifier,”
International Journal of Computational Biology and Drug Design, 2008
Min Wu, Xiao-Li Li *, Chee-Keong Kwoh and See-Kiong Ng, “A CoreAttachment based Method to Detect Protein Complexes in PPI Networks”,
BMC Bioinformatics, Vol 10:169, 2009
Biomedical social networks
Image Credit: Mathew Pirretti
Medstar
• Understanding the neighborhood of an
organization or individual in a collaborative
network allows one to identify several
characteristics such as:
– Intensity of internal/external collaborative activity
– Clusters of actively collaborating
organization/individuals
– Possible conflict of interest relationships
– Finding potential point of contacts (“middle man”)
to expedite collaborations
People search (example, I2R A*Star)
• Given a researcher’s
name, we mine from
our publication data
and provide the
following information to
describe the
researcher’s profile.
– Research Areas based
on MeSH Terms
– Researcher Associated
Organizations
– Researcher Publication
Listing
Expertise profiling
Research areas, associated organizations and publications
MeSH terms
Organization
Publication
Organization search
• We mine the following information to
profile an organization:
– Organization Research Areas based on Mesh
Terms
– Related Organizations
– Organization Publication Listing
– This search allows for understanding the
working style of an organization based on the
co-authorships of their staffs.
Organization search (example1: SGH)
Example2:Changi general hospital
Example3:Tan Tock Seng hospital
Medstar URL
• http://datam.i2r.astar.edu.sg/medstar/RStar2.swf