Data mining for biomedical informatics at the UMN

Brian Van Ness, Christine Ramos, Majda Haznadar, Antje Hoering, Jeff Haessler, John Crowley, Susanna Jacobus, Martin Oken, Vincent Rajkumar, Philip Greipp, Bart Barlogie, Brian Durie, Michael Katz, Gowtham Atluri, Gang Fang, Rohit Gupta, Michael Steinbach, Vipin Kumar, Richard Mushlin, David Johnson and Gareth Morgan, Genomic Variation in Myeloma: Design, content and initial application of the Bank On A Cure SNP Panel to detect associations with progression free survival, BMC Medicine, Volume 6, pp 26, 2008.

Gang Fang, Rui Kuang, Gaurav Pandey, Michael Steinbach, Chad L. Myers and Vipin Kumar, Subspace Differential Coexpression Analysis: Problem Definition and A General Approach, Proceedings of the 15th Pacific Symposium on Biocomputing (PSB), in press, 2010.

Gaurav Pandey, Gowtham Atluri, Michael Steinbach, Chad L. Myers and Vipin Kumar, An Association Analysis Approach to Biclustering, Proceedings of the ACM International Conference on Knowledge Discovery and Data Mining (SIGKDD), in press, 2009.

Gaurav Pandey, Gowtham Atluri, Gang Fang, Rohit Gupta, Michael Steinbach and Vipin Kumar, Association Analysis Techniques for Analyzing Complex Biological Data Sets, Proceedings of the IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS), in press, 2009.

Gowtham Atluri, Gang Fang, Gaurav Pandey, Rohit Gupta, Michael Steinbach and Vipin Kumar, Association Analysis Techniques for Bioinformatics Problems, Proceedings of the 1st International Conference on Bioinformatics and Computational Biology (BICoB), pp 1-13, 2009 (Invited paper).

Rohit Gupta, Michael Steinbach, Karla Ballman, Vipin Kumar, Petrus C. de Groen, "Colorectal Cancer Despite Colonoscopy: Critical Is the Endoscopist, Not the Withdrawal Time", [Abstract] Gastroenterology, Volume 136, Issue 5, Supplement 1, May 2009, Pages A-55. (Selected for presentation in clinical science plenary session in DDW 2009) [Recipient of Student Abstract Prize]

Rohit Gupta, Michael Steinbach, Karla Ballman, Vipin Kumar, Petrus C. de Groen, "Colorectal Cancer Despite Colonoscopy: Estimated Size of the Truly Missed Lesions". [Abstract] Gastroenterology, Volume 136, Issue 5, Supplement 1, May 2009, Pages A-764. (Presented in DDW 2009)

Rohit Gupta, Brian N. Brownlow, Robert A. Domnick, Gavin Harewood, Michael Steinbach, Vipin Kumar, Piet C. de Groen, Colon Cancer Not Prevented By Colonoscopy, American College of Gastroenterology (ACG) Annual Meeting, 2008 (Recipient of the 2008 ACG Olympus Award and the 2008 ACG Presidential Award)

Gaurav Pandey, Lakshmi Naarayanan Ramakrishnan, Michael Steinbach and Vipin Kumar, Systematic Evaluation of Scaling Methods for Gene Expression Data, Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM), pp 376-381, 2008.
Gaurav Pandey, Gowtham Atluri, Michael Steinbach and Vipin Kumar, Association Analysis Techniques for Discovering Functional Modules from Microarray Data , Proceedings of the ISMB satellite meeting on Automated Function Prediction 2008 (Also published as Nature Precedings 10.1038/npre.2008.2184.1)

Rohit Gupta, Gang Fang, Blayne Field, Michael Steinbach and Vipin Kumar, Quantitative Evaluation of Approximate Frequent Pattern Mining Algorithms, Proceedings of the ACM International Conference on Knowledge Discovery and Data Mining (SIGKDD), pp 301-309, 2008.

Gaurav Pandey, Michael Steinbach, Rohit Gupta, Tushar Garg and Vipin Kumar, Association Analysis-based Transformations for Protein Interaction Networks: A Function Prediction Case Study, Proceedings of the ACM International Conference on Knowledge Discovery and Data Mining (SIGKDD), pp 540-549, 2007 (Also selected for a Highlight talk at ISMB 2008).
Gaurav Pandey and Vipin Kumar, Incorporating Functional Inter-relationships into Algorithms for Protein Function Prediction, Proceedings of the ISMB satellite meeting on Automated Function Prediction 2007
Rohit Gupta, Tushar Garg, Gaurav Pandey, Michael Steinbach and Vipin Kumar, Comparative Study of Various Genomic Data Sets for Protein Function Prediction and Enhancements Using Association Analysis, Proceedings of the Workshop on Data Mining for Biomedical Informatics, held in conjunction with SIAM International Conference on Data Mining, 2007
Hui Xiong, X. He, Chris Ding, Ya Zhang, Vipin Kumar and Stephen R. Holbrook, Identification of Functional Modules in Protein Complexes via Hyperclique Pattern Discovery, pp 221-232, Proc. of the Pacific Symposium on Biocomputing, 2005
Benjamin Mayer, Huzefa Rangwala, Rohit Gupta, Jaideep Srivastava, George Karypis, Vipin Kumar and Piet de Groen, Feature Mining for Prediction of Degree of Liver Fibrosis, Proc. Annual Symposium of American Medical Informatics Association (AMIA), 2005

Gowtham Atluri, Gaurav Pandey, Jeremy Bellay, Chad Myers and Vipin Kumar, Two-Dimensional Association Analysis For Finding Constant Value Biclusters In Real-Valued Data, Technical Report 09-020, July 2009, Department of Computer Science, University of Minnesota
Gaurav Pandey, Gowtham Atluri, Michael Steinbach and Vipin Kumar, Association Analysis for Real-valued Data: Definitions and Application to Microarray Data, Technical Report 08-007, March 2008, Department of Computer Science, University of Minnesota
Gaurav Pandey, Lakshmi Naarayanan Ramakrishnan, Michael Steinbach, Vipin Kumar, Systematic Evaluation of Scaling Methods for Gene Expression Data, Technical Report 07-015, August 2007, Department of Computer Science, University of Minnesota
Gaurav Pandey, Vipin Kumar and Michael Steinbach, Computational Approaches for Protein Function Prediction: A Survey, Technical Report 06-028, October 2006, Department of Computer Science, University of Minnesota