Table of Contents

Papers

Here you can find the latest publications from our group.

2011

Proceedings

[2011, inproceedings]
X. Yang, J. Zola, and S. Aluru, "Parallel Metagenomic Sequence Clustering via Sketching and Maximal Quasi-clique Enumeration on Map-reduce Clouds," in Proc. 25th International Parallel and Distributed Processing Symposium (IPDPS), 2011, pp. 1210-1220.
[2011, inproceedings]
O. Nikolova and S. Aluru, "Parallel Discovery of Direct Causal Relations and Markov Boundaries with Applications to Gene Networks," in Proc. International Conference on Parallel Processing (ICPP), 2011.

Articles

[2011, article]
A. Sarje, J. Zola, and S. Aluru, "Accelerating Pairwise Computations on Cell Processors," IEEE Transactions on Parallel and Distributed Systems, vol. 22, iss. 1, pp. 69-77, 2011.
[2011, article]
X. Yang, S. Aluru, and K. Dorman, "Repeat-aware Modeling and Correction of Short Read Errors," BMC Bioinformatics, vol. 12(Suppl 1), 2011.

2010

Proceedings

[2010, inproceedings]
B. Jackson, M. Regennitter, X. Yang, P. Schnable, and S. Aluru, "Parallel De Novo Assembly of Large Genomes from High-throughput Short Reads," in Proc. 24th International Parallel and Distributed Processing Symposium (IPDPS), 2010, pp. 1-14.
[2010, inproceedings]
A. Sarje and S. Aluru, "A MapReduce Style Framework for Computations on Trees," in Proc. International Conference on Parallel Processing (ICPP), 2010.
[2010, inproceedings]
X. Yang and S. Aluru, "An Improved Model for Gene Cluster Inference," in Proc. ISCA International Conference on Bioinformatics and Computational Biology, 2010, pp. 190-195.

Articles

[2010, article]
X. Yang, K. Dorman, and S. Aluru, "Reptile: Representative Tiling for Short Read Error Correction," Bioinformatics, vol. 26, iss. 20, pp. 2526-2533, 2010.
[2010, article]
J. Zola, M. Aluru, A. Sarje, and S. Aluru, "Parallel Information Theory Based Construction of Genome-wide Gene Regulatory Networks," IEEE Transactions on Parallel and Distributed Systems, vol. 21, iss. 12, pp. 1721-1733, 2010.

2009

Proceedings

[2009, inproceedings]
O. Nikolova, J. Zola, and S. Aluru, "A Parallel Algorithm for Exact Bayesian Network Inference," in Proc. International Conference on High Performance Computing (HiPC), 2009, pp. 342-349.
[2009, inproceedings]
J. Zola, A. Sarje, and S. Aluru, "Constructing Gene Regulatory Networks on Clusters of Cell Processors," in Proc. International Conference on Parallel Processing (ICPP), 2009, pp. 108-115.

Articles

[2009, article]
A. Sarje and S. Aluru, "Parallel Genomic Alignments on the Cell Broadband Engine," IEEE Transactions on Parallel and Distributed Systems, vol. 20, iss. 11, pp. 1600-1610, 2009.
[2009, article]
M. R. Aluru, J. Zola, A. Foudree, and S. R. Rodermel, "Chloroplast Photooxidation-induced Transcriptome Reprogramming in Arabidopsis Immutans White Leaf Sectors," Plant Physiology, vol. 150, iss. 2, pp. 904-923, 2009.

2008

Proceedings

[2008, inproceedings]
A. Sarje and S. Aluru, "Parallel Biological Sequence Alignments on the Cell Broadband Engine," in Proc. IEEE International Parallel and Distributed Processing Symposium (IPDPS), 2008, pp. 1-11.
[2008, inproceedings]
J. Zola, M. Aluru, and S. Aluru, "Parallel Information Theory Based Construction of Gene Regulatory Networks," in Proc. International Conference on High Performance Computing (HiPC), 2008, pp. 336-349.

Articles

[2008, article]
M. Ott, J. Zola, S. Aluru, A. D. Johnson, D. Janies, and A. Stamatakis, "Large-scale Phylogenetic Analysis on Current HPC Architectures," Scientific Programming, vol. 16, iss. 1-2, pp. 255-270, 2008.

2007

Proceedings

[2007, inproceedings]
M. Ott, J. Zola, S. Aluru, and A. Stamatakis, "Large-scale Maximum Likelihood-based Phylogenetic Analysis on the IBM BlueGene/L," in Proc. ACM/IEEE Supercomputing Conference (SC), 2007.
[2007, inproceedings | zola2007.pdf]
J. Zola, X. Yang, S. Rospondek, and S. Aluru, "Parallel T-Coffee: A Parallel Multiple Sequence Aligner," in Proc. ISCA International Conference on Parallel and Distributed Computing Systems (PDCS), 2007, pp. 248-253.

papers.txt · Last modified: 2011/10/05 17:30 by zola