Medstar: a prototype for biomedical social network

Xiaoli Li

Institute for Infocomm Research

A*Star, Singapore

Some bioinformatics research• 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• 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 Core-Attachment based Method to Detect Protein Complexes in PPI Networks”, BMC Bioinformatics, Vol 10:169, 2009

Image Credit: Mathew Pirretti

Biomedical social networks

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 profilingResearch 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.a-star.edu.sg/medstar/RStar2.swf