Publications
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Papers in Journals and conferences:
D. Yehdego, B. Zhang, Kodimala VKR, Johnson K, Taufer M, Leung MY: Secondary structure predictions for long RNA sequences based on inversion excursions and MapReduce. In Proc. of 12th IEEE International Workshop on High Performance Computational Biology (HiCOMB) 2013, May 2013, Boston, MA, USA.
B. Zhang, D. Yehdego, K. Johnson, M-Y. Leung, and M. Taufer. A modularized MapReduce framework to support RNA secondary structure prediction and analysis workflows. In Proc. of the 2012 Computational Structure Bioinformatics Workshop (CSBW), October 2012, Philadelphia, PA, USA.
T. Estrada, B. Zhang, P. Cicotti, R. Armen, and M. Taufer. Accurate Analysis of Large Datasets of Protein-ligand Binding Geometries using a Linear Clustering Method based on MapReduce. Computers in Biology and Medicine, 2012. (in press)
T. Estrada, B. Zhang, P. Cicotti, R. Armen, and M. Taufer. Reengineering high-throughput molecular datasets for scalable clustering using MapReduce. In Proc. of the 14th IEEE International Conference on High Performance Computing and Communications (HPCC). June 2012, Liverpool, UK.
Peer Reviewed Posters:
D. Yehdego, V. Kodimala, S. Viswakula, B. Zhang, R. Vegesna, K. Johnson, M. Taufer, and M-Y. Leung. Secondary Structure Predictions for Long RNA Sequences Based on Inversion Excursions. Poster to appear in Proceedings of the International Conference On Bioinformatics and Computational Biology (ACM-BCB), October 2012, Orlando, FL, USA.
B. Zhang, P. Cicotti, and M. Taufer. MapReduce clustering on large datasets using SSDs and virtual shared memory. Poster in Proceeding of the Extreme Science and Engineering Discovery Environment (XSEDE), July 2012, Chicago, Illinoi, USA.
B. Zhang. A modularized MapRedcue framework to support RNA secondary structure prediction and analysis workflows. Poster in Grace Hopper Celebration (GHC), October 2012, Baltimore, Maryland, USA.
T. Estrada, B. Zhang, R.S. Armen, and M. Taufer: Study of Protein-ligand Binding Geometries using a Scalable and Accurate Octree-based Algorithm in MapReduce. Poster in Proceedings of the ACM/IEEE International Conference for High Performance Computing and Communications conference (SC), November 2011, Seattle, Washington, USA.