medstar: a prototype for biomedical social network xiaoli li institute for infocomm research a*star,...
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Medstar: a prototype for biomedical social network
Xiaoli Li
Institute for Infocomm Research
A*Star, Singapore
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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).
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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
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Image Credit: Mathew Pirretti
Biomedical social networks
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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
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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
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Expertise profilingResearch areas, associated organizations and publications
MeSH terms Organization
Publication
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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.
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Organization search (example1: SGH)
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Example2:Changi general hospital
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Example3:Tan Tock Seng hospital
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Medstar URL
• http://datam.i2r.a-star.edu.sg/medstar/RStar2.swf