 | Naren RamakrishnanThomas L. Phillips Professor of Engineering
|
Research Interests
Naren Ramakrishnan is the Thomas L. Phillips Professor of Engineering in the department of computer science at Virginia Tech. He also serves as an adjunct professor at the Institute of Bioinformatics and Applied Biotechnology (IBAB), Bangalore, India.
At Virginia Tech, Ramakrishnan directs the Discovery Analytics Center, a university-wide effort that brings together researchers from computer science, statistics, mathematics, and electrical and computer engineering to tackle knowledge discovery problems in important areas of national interest, including intelligence analysis, sustainability, and electronic medical records. His research has been supported by NSF, DHS, NIH, NEH, DARPA, ONR, General Motors, HP Labs, NEC Labs, and Advance Auto Parts. His work has been featured in the NIH outreach publication Biomedical Computation Review (twice), the National Science Foundation's Discoveries series (and home page), and ACM Technews (eight times). He serves on the editorial boards of IEEE Computer, Data Mining and Knowledge Discovery, and many other journals.
Ramakrishnan has received an NSF CAREER grant (2000), the New Century Technology Council Innovation Award (2001), DARPA BioSPICE Early Contributor Appreciation Award (2002), Dean's awards for both teaching excellence (2005) and research excellence (2010) at Virginia Tech, and a HP Labs innovation award (2009). He was included in two "40 under 40" lists: Computerworld's innovative IT people to watch (2007) and Purdue University's list of distinguished alumni (2010). Naren is an ACM Distinguished Scientist (2009). He is a recipient of Virginia Tech's Alumni award for research excellence (2011) - the highest research award given at the univerity.
SoftlabURL: http://people.cs.vt.edu/~naren/group.html Softlab's emphasis is on the design of software systems that provide high-level abstractions to their users, in support of problem solving, knowledge discovery, or, information finding. Our work is highly interdisciplinary, both in the domains outside computer science that we support and in the areas within computer science that we integrate. |
2012
Kang, P., M. F. Heffner, N. Ramakrishnan, C. J. Ribbens, and S. Varadarajan,
"Adaptive code collage: a framework to transparently modify scientific codes",
Computing in Science & Engineering, vol. 14, pp. 52-63, 2012.
Kang, P., N. Selvarasu, N. Ramakrishnan, C. J. Ribbens, D. Tafti, Y. Cao, and S. Varadarajan,
"Implementing modular adaptation of scientific software",
Jnl. of Computational Science, vol. 3, pp. 28-45, 2012.
Phillips, R. D., L. T. Watson, R. H. Wynne, and N. Ramakrishnan,
"Continuous iterative guided spectral class rejection classification algorithm",
IEEE Trans. Geoscience Remote Sensing, vol. 50, pp. 2303--2317, 2012.
Hossain, M. S., P. K. R. Ojili, L. T. Watson, and N. Ramakrishnan,
"Scatter/gather clustering: flexibly incorporating user feedback to steer clustering results",
IEEE Trans. Visualization Computer Graphics, vol. 18, pp. 2829--2838, 2012.
2011
Heath, L. S., and N. Ramakrishnan,
The Problem Solving Handbook for Computational Biology and Bioinformatics,
, Berlin, Springer, pp. 347, 2011.
Cao, Y., D. Patnaik, S. Ponce, J. Archuleta, P. Butler, W. - C. Feng, and N. Ramakrishnan,
"Parallel Mining of Neuronal Spike Streams on Graphics Processing Units",
International Journal of Parallel Programming: Springer Netherlands, pp. 1-28, 2011.
Feng, W. - C., Y. Cao, D. Patnaik, and N. Ramakrishnan,
"Temporal Data Mining for Neuroscience",
GPU computing Gems, Emerald Edition: Elsevier Inc., 2011.
Deshpande, S., L. T. Watson, J. Shu, and F. A. Kamke,
"Data driven surrogate-based optimization in the problem solving environment WBCSim",
Engrg. with Computers, vol. 27, pp. 211--223, 2011.
Patnaik, D., S. Laxman, and N. Ramakrishnan,
"Discovering Excitatory Relationships using Dynamic Bayesian Networks",
Knowledge and Information Systems, vol. Vol. 29, no. 2, 11/2011.
Hanauer, D. A., K. Zheng, N. Ramakrishnan, and B. J. Keller,
"Opportunities and Challenges in Association and Episode Discovery from Electronic Health Records",
IEEE Intelligent Systems, vol. 26, no. 5, 10/2011.
Marwah, M., A. Shah, C. Bash, and C. Patel,
"Using Data Mining to help design Sustainable Products",
IEEE Computer, vol. Vol. 44, no. 8, 08/2011.
Patnaik, D., M. Marwah, R. Sharma, and N. Ramakrishnan,
"Temporal Data Mining Approaches for Sustainable Chiller Management in Data Centers",
ACM Transactions on Intelligent Systems and Technology, vol. 2, no. 4, 07/2011.
Hossain, M. S., N. Ramakrishnan, C. Bailey-Kellogg, and A. Friedman,
"Using physicochemical properties of amino acids to induce graphical models of residue couplings",
Proceedings of the Tenth International Workshop on Data Mining in Bioinformatics, New York, NY, USA, ACM, pp. 3:1–3:10, 06/2011.
Sundaravaradan, N., M. Marwah, A. Shah, and N. Ramakrishnan,
"Data Mining Approaches to Life Cycle Assessment",
IEEE International Symposium on Sustainable Systems and Technology (ISSST’11): IEEE Press, 05/2011.
Kang, P., E. Tilevich, S. Varadarajan, and N. Ramakrishnan,
"Maintainable and Reusable Scientific Software Adaptation",
10th International Conference on Aspect-Oriented Software Development (AOSD’11), Porto de Galinhas, Brazil, 03/2011.
Shu, J., L. T. Watson, N. Ramakrishnan, and F. A. Kamke,
"Computational steering in the problem solving environment WBCSim",
Engrg. Comput., vol. 28, pp. 888--911, 2011.
2010
Kang, P., N. Selvarasu, N. Ramakrishnan, C. J. Ribbens, D. Tafti, and S. Varadarajan,
"Dynamic tuning of algorithmic parameters of parallel scientific codes",
International Conference on Computational Science (ICCS 2010), Amsterdam, Elsevier, pp. 145-153, 2010.
Ramakrishnan, N., S. Tadepalli, L. T. Watson, R. F. Helm, M. Antoniotti, and B. Mishra,
"Reverse engineering dynamic temporal models of biological processes and their relationships",
Proc. National Academy of Sciences, vol. 107, pp. 12511-12516, 2010.
Hossain, M. S., S. Tadepalli, L. T. Watson, I. Davidson, R. F. Helm, and N. Ramakrishnan,
"Unifying dependent clustering and disparate clustering for nonhomogeneous data",
16th ACM SIGKDD Conf. on Knowledge Discovery and Data Mining, Washington, DC, pp. 593-602, 2010.
,
"Towards Chip-on-Chip Neuroscience: Fast Mining of Neuronal Spike Streams Using Graphics Hardware",
7th ACM International Conference on Computing Frontiers, Bertinoro, Italy, pp. 1-10, 05/2010.
Sundaravaradan, N., J. P. C. Vergara, L. S. Heath, and N. Ramakrishnan,
"Extracting Temporal Signatures for Comprehending Systems Biology Models",
16th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD-2010), Washington, DC, ACM, pp. 453-462, 2010.
Maxwell, E. K., G. Back, and N. Ramakrishnan,
"Diagnosing memory leaks using graph mining on heap dumps",
16th ACM SIGKDD international conference on Knowledge discovery and data mining - KDD '10, Washington, DC, USANew York, New York, USA, ACM Press, pp. 115, 06/2010.
Ramakrishnan, N., D. Hanauer, and B. J. Keller,
"Mining Electronic Health Records,",
IEEE Computer, vol. 43, no. 10, 10/2010.
Perugini, S., and N. Ramakrishnan,
"Program Transformations for Information Personalization",
Computer Languages, Systems, & Structures, vol. 36, no. 3, 10/2010.
Zaki, M. J., N. Ramakrishnan, and L. Zhao,
"Mining Frequent Boolean Expressions: Applications to Gene Expression and Regulatory Modeling",
International Journal on Knowledge Discovery in Bioinformatics, vol. 1, no. 3, 07/2010.
Vasquez-Robinet, C., J. I. Watkinson, A. Sioson, and N. Ramakrishnan,
"Differential Expression of Heat Shock Protein Genes in Preconditioning for Photosynthetic Acclimation in Water-Stressed Loblolly Pine",
Plant Physiology and Biochemistry, vol. 48, no. 4, 04/2010.
Goel, N., M. Hsiao, N. Ramakrishnan, and M. J. Zaki,
"Mining Complex Boolean Expressions for Sequential Equivalence Checking",
19th Asian Test Symposium (ATS’10), Shanghai, China, 12/2010.
Hao, M. C., M. Marwah, H. Janetzko, and D. Keim,
"Visual Analysis of Frequent Patterns in Large Time Series",
IEEE Conference on Visual Analytics Science and Technology (IEEE VAST), 10/2010.
Miller, C., F. Quek, and N. Ramakrishnan,
"Structuring Ordered Nominal Data for Event Sequence Discovery",
ACM Multimedia, Firenze, Italy, 10/2010.
Guo, S., and N. Ramakrishnan,
"Finding the Storyteller: Automatic Spoiler Tagging using Linguistic Cues",
23rd International Conference on Computational Linguistics (COLING’10), Beijing, China, 08/2010.
Patnaik, D., M. Marwah, R. Sharma, and N. Ramakrishnan,
"Data Mining for Modeling Chiller Systems in Data Centers",
Ninth International Symposium on Intelligent Data Analysis (IDA’10), Tucson, AZ, 05/2010.
2009
Kang, P., N. Selvarusu, N. Ramakrishnan, C. J. Ribbens, D. Tafti, and S. Varadarajan,
"Modular, Fine-grained Adaptation of Parallel Programs",
International Conference on Computational Science (ICCS 2009): Springer, Heidelberg, pp. 269-279, 2009.
Kang, P., Y. Cao, N. Ramakrishnan, C. J. Ribbens, and S. Varadarajan,
"Modular Implementation of Adaptive Decisions in Stochastic Simulations",
Proceedings of the 24th Annual ACM Symposium on Applied Computing (SAC'09): ACM, New York, pp. 995-1001, 2009.
Perugini, S., M. E. Pinney, N. Ramakrishnan, M. A. Pérez-Quiñones, and M. B. Rosson,
"Exploring Out-of-turn Interactions with Websites",
Journal of Digital Information, vol. 10, no. 4, 2009.
Ramakrishnan, N., and M. J. Zaki,
"Redescription Mining and Applications in Bioinformatics",
Biological Data Mining: Chapman & Hall/CRC Press, pp. 561-585, 2009.
Perugini, S., N. Ramakrishnan, M. A. Pérez-Quiñones, M. E. Pinney, and M. B. Rosson,
"Exploring Out-of-turn Interactions with Web Hierarchies",
Journal of Digital Information, vol. Vol. 10, pp. 18 pages, 10/2009.
Thomas, J., N. Ramakrishnan, and C. Bailey-Kellogg,
"Graphical Models of Protein-Protein Interaction Speci city from Correlated Mutations and Interaction Data",
Proteins: Structure, Function, and Bioinformatics, vol. Vol. 76, pp. 911-929, 09/2009.
Ramakrishnan, N., D. Patnaik, and V. Sreedharan,
"Temporal Process Discovery in many Guises",
IEEE Computer, vol. Vol. 42, pp. 97-101, 08/2009.
Thomas, J., N. Ramakrishnan, and C. Bailey-Kellogg,
"Protein Design by Sampling an Undirected Graphical Model of Residue Constraints",
IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. Vol. 6, pp. 506-516, 07/2009.
Patnaik, D., S. Laxman, and N. Ramakrishnan,
"Discovering Excitatory Networks from Discrete Event Streams with Applications to Neuronal Spike Train Analysis",
Proceedings of the 9th IEEE International Conference on Data Mining (ICDM'09), Miami, FL, pp. 407-416, 12/2009.
Ponce, S., D. Patnaik, Y. Cao, and N. Ramakrishnan,
"Accelerator-Oriented Algorithm Transformation for Temporal Data Mining",
Proceedings of 6th IFIP International Con- ference on Network and Parallel Computing (NPC'09), Gold Coast, Australia, 10/2009.
Conry, D., Y. Koren, and N. Ramakrishnan,
"Recommender Systems for the Conference Paper Assignment Problem",
Proceedings of the 3rd ACM Conference on Recommender Systems (RecSys'09), New York, NY, pp. 357-360, 10/2009.
Phillips, R. D., L. T. Watson, R. H. Wynne, and N. Ramakrishnan,
"An Iterative Framework for the Improvement of Soft Clusters for Classi cation",
Proceedings of the International Conference on Image Processing, Computer Vision and Pattern Recognition , Las Vegas, NV, 07/2009.
Phillips, R. D., L. T. Watson, R. H. Wynne, and N. Ramakrishnan,
"A Hypothesis Test for the Evaluation of Soft Clusters in Classi cation",
Proceedings of the International Conference on Image Processing, Computer Vision, and Pattern Recognition (IPCV'09), Las Vegas, NV, pp. 672-678, 07/2009.
Patnaik, D., M. Marwah, R. Sharma, and N. Ramakrishnan,
"Sustainable Operation and Management of Data Center Chillers using Temporal Data Mining",
Proceedings of the 15th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD'09), Paris, France, pp. 1305-1314, 06/2009.
Bhattacharjee, P., N. Ramakrishnan, L. S. Heath, and A. V. Onufriev,
"Correlation Between Computed Equilibrium Secondary Structure Free Energy and siRNA Efficiency",
IEEE International Conference on Bioinformatics and Biomedicine Workshop, Washington, DC, pp. pp. 351–351, 2009.
Cao, Y., D. P. S. abd Ponce, J. Archuleta, P. Butler, W. - C. Feng, and N. Ramakrishnan,
"Towards Chip-on-Chip Neuroscience: Fast Mining of Frequent Episodes Using Graphics Processors",
arXiv.org: Virginia Polytechnical Institute and State University, May, 2009.
Patnaik, D., S. P. Ponce, Y. Cao, and N. Ramakrishnan,
"Accelerator-Oriented Algorithm Transformation for Temporal Data Mining",
Network and Parallel Computing Workshops, IFIP International Conference on, Los Alamitos, CA, USA, IEEE Computer Society, pp. 93-100, 2009.
Perugini, S., N. Ramakrishnan, M. A. Pérez-Quiñones, and M. Pinney,
"Exploring Out-of-turn Interactions with Web Hierarchies",
Journal of Digital Information, vol. 10, no. 4, 10/2009.
Tadepalli, S., N. Ramakrishnan, L. T. Watson, and B. Mishra,
"Simultaneously Segmenting Multiple Gene Expression Time Courses by Analyzing Cluster Dynamics",
Journal of Bioinformatics and Computational Biology, vol. 7, no. 2, 04/2009.
Ramakrishnan, N., U. S. Bhalla, and J. J. Tyson,
"Computing with Proteins",
IEEE Computer, vol. 42, no. 1, 01/2009.
Sundaravaradan, N., D. Patnaik, N. Ramakrishnan, and M. Marwah,
"Discovering Life Cycle Assessment (LCA) Trees from Impact Factor Databases",
Twenty-Fifth Conference on Artificial Intelligence (AAAI’11), 08/2011, 2009.
2008
Pati, A., Y. Jin, K. Klage, R. Helm, L. S. Heath, and N. Ramakrishnan,
"CMGSDB: Integrating Heterogeneous Caenorhabditis elegans Data Sources Using Compositional Data Mining",
Nucleic Acids Research, vol. 36, pp. D69-76, 2008.
Jin, Y., T. M. Murali, and N. Ramakrishnan,
"Compositional Mining of Multi-relational Biological Datasets",
ACM Transactions on Knowledge Discovery from Data, vol. 2, no. 1, March, 2008.
Cho, Y. J., N. Ramakrishnan, and Y. Cao,
"Reconstructing Chemical Reaction Networks: Data Mining meets System Identification",
14th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD'08), Feb, 2008.
Fox, E. A., C. Andrews*, W. Fan, J. Jiao*, A. Kassahun, S. - C. Lu*, Y. Ma*, C. North, N. Ramakrishnan, A. Scarpa, et al.,
"A Digital Library for Recovery, Research, and Learning from April 16, 2007 at Virginia Tech",
Traumatology, vol. 14, no. 1, pp. 20 pages, April, 2008.
Shu, J., L. T. Watson, N. Ramakrishnan, F. A. Kamke, and C. North,
"Unification of problem solving environment implementation layers with XML-based specifications",
Advances in Engineering Software, vol. 39, no. 3, pp. 189-201, March, 2008.
Ramakrishnan, N., and U. S. Bhalla,
"Memory Switches in Chemical Reaction Space",
PLoS Computational Biology, vol. 4, no. 7, 07/2008.
Kumar, D., N. Ramakrishnan, M. Potts, and R. F. Helm,
"Algorithms for Storytelling",
IEEE Transactions on Knowledge and Data Engineering, vol. 20, no. 6, 06/2008.
Thomas, J., N. Ramakrishnan, and C. Bailey-Kellogg,
"Graphical Models of Residue Coupling in Protein Families",
IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 5, no. 2, 06/2008.
Jin, Y., T. M. Murali, and N. Ramakrishnan,
"Compositional Mining of Multirelational Biological Datasets",
ACM Transactions on Knowledge Discovery from Data, vol. 2, no. 1, 03/2008.
2007
Ramakrishnan, N., M. A. Perez-Quinones, and A. Shenoy,
"Compositional Specification and Realization of Mixed-Initiative Web Dialogs",
International Journal of Web Engineering and Technology, Special Issue Special Issue on User Interface Description Languages, 2007.
Mishra, D., C. A. Shaffer, N. Ramakrishnan, L. T. Watson, K. K. Bae, J. He, A. A. Verstak, and W. H. Tranter,
"S4W: a problem-solving environment for wireless system design",
Software: Practice & Experience, vol. 37, no. 14, New York, NY, USA, John Wiley & Sons, Inc., pp. 1539–1558, 2007.
Saha, N., L. T. Watson, K. Kafadar, N. Ramakrishnan, A. Onufriev, S. P. Mane, and C. Vasquez-Robinet,
"Validation and estimation of parameters for a general probabilistic model of the PCR process",
J. Comp. Biol., vol. 14, pp. 102–117, 2007.
2006
Vass, M., C. A. Shaffer, N. Ramakrishnan, L. T. Watson, and J. J. Tyson,
"The JigCell Model Builder: A Spreadsheet Interface for Creating Biochemical Reaction Network Models",
IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. Vol. 3, no. 2, pp. 155–164, April-June, 2006.
Bailey-Kellogg, C., N. Ramakrishnan, and M. Marathe,
"Spatial data mining to support pandemic preparedness. ",
SIGKDD Explorations, vol. 8, no. 1, pp. 80-82, 2006.
2005
Liu, R., E. Lloyd, M. Marathe, R. Ramanathan, and S. Ravi,
"Algorithmic Aspects of Topology Control Problems For Ad-hoc Networks",
ACM/Baltzer J. Mobile Networks and Applications (MONET), vol. 10, pp. 19-34, 2005.
2004
He, J., A. Verstak, L. T. Watson, C. A. Stinson, N. Ramakrishnan, C. A. Shaffer, T. S. Rappaport, C. R. Anderson, K. Bae, J. Jiang, et al.,
"Globally Optimal Transmitter Placement for Indoor Wireless Communication Systems",
IEEE Transactions on Wireless Communications, vol. 3, no. 6, pp. 1906–1911, November, 2004.
Vass, M., N. Allen, C. A. Shaffer, N. Ramakrishnan, L. T. Watson, and J. J. Tyson,
"The JigCell Model Builder and Run Manager",
Bioinformatics, vol. 20, no. 18, Oxford, UK, Oxford University Press, pp. 3680–3681, 2004.
Skidmore, R. R., A. Verstak, N. Ramakrishnan, T. S. Rappaport, L. T. Watson, J. He, S. Varadarajan, C. A. Shaffer, J. Chen, K. K. Bae, et al.,
"Towards integrated PSEs for wireless communications: experiences with the S4W and SitePlanner\textregistered projects",
SIGMOBILE Mob. Comput. Commun. Rev., vol. 8, no. 2, New York, NY, USA, ACM, pp. 20–34, 2004.
Perugini, S., K. McDevitt, R. Richardson, M. A. Pérez-Quiñones, R. Shen, N. Ramakrishnan, C. Williams, and E. A. Fox,
"Enhancing Usability in CITIDEL: Multimodal, Multilingual, and Interactive Visualization Interfaces",
Proceedings of the Fourth ACM/IEEE Joint Conference on Digital Libraries: Global Reach and Diverse Impact, JCDL 2004, Tucson, AZ, pp. 315-324, June 2004.
2003
Rubin, E. J., C. A. Shaffer, N. Ramakrishnan, L. T. Watson, R. Dymond, D. Kibler, R. Dietz, J. Chanat, V. Lohani, D. Bosch, et al.,
"From Landscapes to Waterscapes: A PSE for Landuse Change Analysis",
Engineering with Computers, vol. 19, no. 1, pp. 9–25, July, 2003.
Allen, N. A., C. A. Shaffer, M. T. Vass, N. Ramakrishnan, and L. T. Watson,
"Improving the Development Process for Eukaryotic Cell Cycle Models with a Modeling support environment",
Simulation, vol. 79, no. 12, pp. 674–688, December, 2003.
Allen, N., L. Calzone, K. C. Chen, A. Ciliberto, N. Ramakrishnan, C. A. Shaffer, J. C. Sible, J. J. Tyson, M. Vass, L. T. Watson, et al.,
"Modeling Regulatory Networks at Virginia Tech",
Omics Journal of Integrative Biology, vol. Vol. 7, no. 3, pp. pages 285–300, Fall, 2003.
Verstak, A., N. Ramakrishnan, L. T. Watson, J. He, C. A. Shaffer, K. K. Bae, J. Jiang, W. H. Tranter, and T. S. Rappaport,
"BSML: A binding schema markup language for data interchange in problem solving environments",
Sci. Program., vol. 11, no. 3, Amsterdam, The Netherlands, The Netherlands, IOS Press, pp. 199–224, 2003.
Allen, N. A., C. A. Shaffer, M. T. Vass, N. Ramakrishnan, and L. T. Watson,
"Improving the development process for eukaryotic cell cycle models with a modeling support environment",
WSC '03: Proceedings of the 35th conference on Winter simulation: Winter Simulation Conference, pp. 782–790, 2003.
Watkinson, J. I., A. A. Sioson, C. Vasquez-Robinet, M. Shukla, D. Kumar, M. Ellis, L. S. Heath, N. Ramakrishnan, B. I. Chevone, L. T. Watson, et al.,
"Photosynthetic Acclimation is Reflected in Specific Patterns of Gene Expression in Drought-Stressed Loblolly Pine",
Plant Physiology , vol. 133, no. 4, pp. pp. 1702-1716, 2003.
Slotta, D. J., L. S. Heath, N. Ramakrishnan, R. Helm, and M. Potts,
"Clustering Mass Spectrometry Data using Order Statistics",
Proteomics, vol. 3, no. 9, pp. pp. 1687-1691. , 2003.
Sioson, A. A., J. I. Watkinson, C. Vasquez-Robinet, M. Ellis, M. Shukla, D. Kumar, N. Ramakrishnan, L. S. Heath, R. Grene, B. I. Chevone, et al.,
"Expresso and Chips: Creating a Next Generation Microarray Experiment Management Systems",
Proceedings of the Next Generation Software Workshop, 17th International Parallel and Distributed Processing Symposium (IPDPS'03),, Nice, France, IEEE Computer Society, 2003.
Krumke, S., R. Liu, E. Lloyd, M. Marathe, R. Ramanathan, and S. Ravi,
"Topology Control Problems Under Symmetric and Asymmetric Thresholds",
Proc. International Conference on Ad hoc and Wireless Networks (ADHOC-NOW'03) , Montreal, Canada, pp. 187--198, October , 2003.
Dymond, R., V. Lohani, D. Kibler, D. Bosch, E. J. Rubin, R. Dietz, J. Chanat, C. Speir, C. A. Shaffer, N. Ramakrishnan, et al.,
"From landscapes to waterscapes: a PSE for landuse change analysis",
Engineering with Computers, vol. 19, pp. 9–25, 2003.
2002
Watkinson, J. I., A. A. Sioson, M. Shukla, L. S. Heath, N. Ramakrishnan, B. I. Chevone, L. T. Watson, J. W. Weller, R. R. Sederoff, L. M. van Zyl, et al.,
"Identifying Changes in Gene Expression During Drought Stress Using Expresso (Poster)",
ASPB (American Society of Plant Biologists) Plant Biology 2002, Denver, CO, 08/2002.
Heath, L. S., and N. Ramakrishnan,
"The Emerging Landscape of Bioinformatics Software Systems",
IEEE Computer , vol. 35, pp. pp. 41-45. , 07/2002.
Watson, L. T., V. K. Lohani, D. F. Kibler, R. L. Dymond, N. Ramakrishnan, and C. A. Shaffer,
"Integrated Computing Environments for Watershed Management",
ASCE Journal of Computing in Civil Engineering, vol. 16, no. 4, pp. 259–268, October, 2002.
Ramakrishnan, N., L. T. Watson, D. G. Kafura, C. J. Ribbens, and C. A. Shaffer,
"Programming Environments for Multidisciplinary Grid Communities",
Concurrency and Computation: Practice and Experience, vol. 13–15, pp. 1241–1273, Nov–December, 2002.
He, J., L. T. Watson, N. Ramakrishnan, C. A. Shaffer, A. Verstak, J. Jiang, K. Bae, and W. H. Tranter,
"Dynamic Data Structures for a Direct Search Algorithm",
Comput. Optim. Appl., vol. 23, no. 1, Norwell, MA, USA, Kluwer Academic Publishers, pp. 5–25, 2002.
Slotta, D. J., L. S. Heath, N. Ramakrishnan, R. Helm, and M. Potts,
"Computational Approaches to Combining Predictive Biological Models",
Advanced Simulation Technologies Conference (HPC 2002), 2002, , pp. pp. 75-80. , 2002.
Slotta, D. J., L. S. Heath, and N. Ramakrishnan,
"Clustering Mass Spectrometry Data using Order Statistics (Abstract)",
First Annual Proteomics Data Mining Conference, Duke University, Durham, NC, 09/2002.
2001
Robert G. Capra, I. I. I., M. A. Pérez-Quiñones, and N. Ramakrishnan,
WebContext: remote access to shared context,
, Orlando, Florida, ACM Press, pp. 1-9, 2001.
Alscher, R. G., B. I. Chevone, L. S. Heath, and N. Ramakrishnan,
"Expresso -- A Problem Solving Environment for Bioinformatics: Finding Answers With Microarray Technology",
Advanced Simulation Technologies Conference (HPC 2001), 2001, , pp. pp. 64-69., 2001.
Wingrave, C., D. Bowman, and N. Ramakrishnan,
"A First Step Towards Nuance-Oriented Interfaces for Virtual Environments",
Proceedings of the Virtual Reality International Conference, pp. 181-188, 2001.
2000
Shaffer, C. A., L. T. Watson, D. G. Kafura, N. Ramakrishnan, and A. Tentner,
"Features of Problem Solving Environments for Computational Science",
Proceedings of the 2000 High Performance Computing Symposium (HPC'00), San Diego, CA, Society for Computer Simulation International, pp. 242–247, April 2000.
Heath, L. S., N. Ramakrishnan, R. R. Sederoff, L. M. van Zyl, D. Chen, Y. - H. Sun, B. I. Chevone, S. - H. Li, K. Ye, R. Whetten, et al.,
"Effects of Drought Stress on Gene Expression Patterns in the Needles of Loblolly Pine Trees: Towards a PSE for the Analysis of Microarray Data (Poster)",
Gordon Conference on Biological Regulatory Mechanisms, Holderness, NH, 07/2000.
Ramakrishnan, N., and C. J. Ribbens,
"Mining and visualizing recommendation spaces for elliptic PDEs with continuous attributes",
ACM Trans. Math. Softw., vol. 26, pp. 254–273, 2000.
Please see projects at: http://people.cs.vt.edu/~ramakris/
A Digital Library Testbed for Research Related to 4/16/2007 at Virginia Tech
Granting Institution: NSF IIS Special Projects Program
Amount: $199,993
Collaborative Research: Deep Insights Anytime, Anywhere (DIA2) - Central Resource for Characterizing the TUES Portfolio through Interactive Knowledge Mining and Visualizations
Granting Institution: National Science Foundation
Amount: $710,036
Computational Models for Gene Silencing: Elucidating A Pervasive Biological Defense
Granting Institution: National Science Foundation
Amount: $1,267,410
Critical Thinking with Data Visualization
Granting Institution: National Science Foundation
Amount: $52,000 out of total university award of $200,000
Discovering the Neural Code: Data Mining Algorithms For Network Reconstruction
Granting Institution: General Motors Corporation
Amount: $220,262
Dryophile Genes To Engineer Stasis-Recovery Of Human Cells
Granting Institution: Office of Naval Research
Amount: $78,358
EMBERS: Early Model Based Event Detection using Surrogates
Granting Institution: Intelligence Advanced Research Projects Activity (IARPA)
Amount: $13,361,062
Formal Models, Algorithms, and Visualizations for Storytelling Analytics
Granting Institution: National Science Foundation
Amount: $710,100
III: Medium: Collaborative Research: Integration, Prediction, and Generation of Mixed Mode Information using Graphical Models, with Applications to Protein-Protein Interactions
Granting Institution: National Science Foundation
Amount: $353,671
Integrated Digital Library Support for Crisis, Tragedy, and Recovery, Co-Principal Investigator
Granting Institution: National Science Foundation: Information Integration and Informatics
Amount: $500,000
Novel Knowledge Discovery Techniques for Sustianable Energy System Modeling
Granting Institution: NEC Laboratores
Amount: $132,000
Participation on the Town Square in the Era of Web 2.0, Principal Investigator
Granting Institution: National Science Foundation, Social-Computational Systems Program
Amount: $749,999
Storytelling in the National Nuclear Archive
Granting Institution: Idaho National Labs
Amount: $10,866
Temporal Data Mining Solutions for Sustainable Data Centers
Granting Institution: Hewlett-Packard Labs Innovation Research
Amount: $321,000
The Adaptive Code Kitchen & Flexible Tools for Dynamic Application Composition
Granting Institution: National Science Foundation
Amount: $470,047
The Eukaryotic Cell Cycle as a Test Case for Modeling Cellular Regulation in a Collaborative PSE
Granting Institution: DARPA
Amount: $2,442,399