Jan Prins

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2011
44FDM: a graph-based statistical method to detect differential transcription using RNA-seq data. Darshan Singh, Christian F. Orellana, Yin Hu, Corbin D. Jones, Yufeng Liu, Derek Y. Chiang, Jinze Liu, Jan F. Prins. Bioinformatics (27): 2633-2640 (2011). Web SearchBibTeXDownload
2010
43A probabilistic framework for aligning paired-end RNA-seq data. Yin Hu, Kai Wang, Xiaping He, Derek Y. Chiang, Jan F. Prins, Jinze Liu. Bioinformatics (26): 1950-1957 (2010). Web SearchBibTeXDownload
42Functional neighbors: inferring relationships between nonhomologous protein families using family-specific packing motifs. Deepak Bandyopadhyay, Jun Huan, Jinze Liu, Jan Prins, Jack Snoeyink, Wei Wang, Alexander Tropsha. IEEE Transactions on Information Technology in Biomedicine (14): 1137-1143 (2010). Web SearchBibTeXDownload
2009
41Evaluating OpenMP 3.0 Run Time Systems on Unbalanced Task Graphs. Stephen Olivier, Jan Prins. IWOMP 2009, 63-78. Web SearchBibTeXDownload
40Identification of family-specific residue packing motifs and their use for structure-based protein function prediction: I. Method development. Deepak Bandyopadhyay, Jun Huan, Jan Prins, Jack Snoeyink, Wei Wang, Alexander Tropsha. Journal of Computer-Aided Molecular Design (23): 773-784 (2009). Web SearchBibTeXDownload
39Identification of family-specific residue packing motifs and their use for structure-based protein function prediction: II. Case studies and applications. Deepak Bandyopadhyay, Jun Huan, Jan Prins, Jack Snoeyink, Wei Wang, Alexander Tropsha. Journal of Computer-Aided Molecular Design (23): 785-797 (2009). Web SearchBibTeXDownload
2008
38Functional Neighbors: Inferring Relationships between Non-Homologous Protein Families Using Family-Specific Packing Motifs. Deepak Bandyopadhyay, Jun Huan, Jinze Liu, Jan Prins, Jack Snoeyink, Wei Wang, Alexander Tropsha. BIBM 2008, 199-206. Web SearchBibTeXDownload
37Scalable Dynamic Load Balancing Using UPC. Stephen Olivier, Jan Prins. ICPP 2008, 123-131. Web SearchBibTeXDownload
36A message passing benchmark for unbalanced applications. James Dinan, Stephen Olivier, Gerald Sabin, Jan Prins, P. Sadayappan, Chau-Wen Tseng. Simulation Modelling Practice and Theory (16): 1177-1189 (2008). Web SearchBibTeXDownload
35Genotype Sequence Segmentation: Handling Constraints and Noise. Qi Zhang, Wei Wang, Leonard McMillan, Jan Prins, Fernando Pardo-Manuel de Villena, David Threadgill. WABI 2008, 271-283. Web SearchBibTeXDownload
2007
34Dynamic Load Balancing of Unbalanced Computations Using Message Passing. James Dinan, Stephen Olivier, Gerald Sabin, Jan Prins, P. Sadayappan, Chau-Wen Tseng. IPDPS 2007, 1-8. Web SearchBibTeXDownload
33Porting the GROMACS Molecular Dynamics Code to the Cell Processor. Stephen Olivier, Jan Prins, Jeff Derby, Ken V. Vu. IPDPS 2007, 1-8. Web SearchBibTeXDownload
32PoClustering: Lossless Clustering of Dissimilarity Data. Jinze Liu, Qi Zhang, Wei Wang, Leonard McMillan, Jan Prins. SDM 2007. Web SearchBibTeXDownload
2006
31Local Structure Comparison of Proteins. Jun Huan, Jan Prins, Wei Wang. Advances in Computers (68): 180-255 (2006). Web SearchBibTeXDownload
30Clustering pair-wise dissimilarity data into partially ordered sets. Jinze Liu, Qi Zhang, Wei Wang, Leonard McMillan, Jan Prins. KDD 2006, 637-642. Web SearchBibTeXDownload
29UTS: An Unbalanced Tree Search Benchmark. Stephen Olivier, Jun Huan, Jinze Liu, Jan Prins, James Dinan, P. Sadayappan, Chau-Wen Tseng. LCPC 2006, 235-250. Cited by 5Web SearchBibTeXDownload
28Mining Approximate Frequent Itemsets In the Presence of Noise: Algorithm and Analysis. Jinze Liu, Susan Paulsen, Xing Sun, Wei Wang, Andrew B. Nobel, Jan Prins. SDM 2006. Cited by 22Web SearchBibTeXDownload
2005
27Mining Approximate Frequent Itemsets from Noisy Data. Jinze Liu, Susan Paulsen, Wei Wang, Andrew B. Nobel, Jan Prins. ICDM 2005, 721-724. Cited by 13Web SearchBibTeXDownload
26Comparing Graph Representations of Protein Structure for Mining Family-Specific Residue-Based Packing Motifs. Jun Huan, Deepak Bandyopadhyay, Wei Wang, Jack Snoeyink, Jan Prins, Alexander Tropsha. Journal of Computational Biology (12): 657-671 (2005). Cited by 28Web SearchBibTeXDownload
2004
25SPIN: mining maximal frequent subgraphs from graph databases. Jun Huan, Wei Wang, Jan Prins, Jiong Yang. KDD 2004, 581-586. Cited by 95Web SearchBibTeXDownload
24Accurate Classification of Protein Structural Families Using Coherent Subgraph Analysis. Jun Huan, Wei Wang, Anglina Washington, Jan Prins, Ruchir Shah, Alexander Tropsha. Pacific Symposium on Biocomputing 2004, 411-422. Cited by 39Web SearchBibTeXDownload
23Mining protein family specific residue packing patterns from protein structure graphs. Jun Huan, Wei Wang, Deepak Bandyopadhyay, Jack Snoeyink, Jan Prins, Alexander Tropsha. RECOMB 2004, 308-315. Web SearchBibTeXDownload
2003
22Reconstruction of Ancestral Gene Order after Segmental Duplication and Gene Loss. Jun Huan, Jan Prins, Wei Wang, Todd J. Vision. CSB 2003, 484-485. Cited by 1Web SearchBibTeXDownload
21Efficient Mining of Frequent Subgraphs in the Presence of Isomorphism. Jun Huan, Wei Wang, Jan Prins. ICDM 2003, 549-552. Cited by 219Web SearchBibTeXDownload
20Evaluating the Impact of Programming Language Features on the Performance of Parallel Applications on Cluster Architectures. Konstantin Berlin, Jun Huan, Mary Jacob, Garima Kochhar, Jan Prins, William Pugh, P. Sadayappan, Jaime Spacco, Chau-Wen Tseng. LCPC 2003, 194-208. Cited by 25Web SearchBibTeXDownload
2000
19A Design Methodology for Data-Parallel Applications. Lars S. Nyland, Jan Prins, Allen Goldberg, Peter Mills. IEEE Trans. Software Eng. (26): 293-314 (2000). Web SearchBibTeXDownload
18Flattening Is an Improvement. James Riely, Jan Prins. SAS 2000, 360-376. Web SearchBibTeXDownload
1999
17A virtual environment for steered molecular dynamics. Jan Prins, Jan Hermans, Geoffrey Mann, Lars S. Nyland, Martin Simons. Future Generation Comp. Syst. (15): 485-495 (1999). Web SearchBibTeXDownload
16Irregular computations in Fortran - expression and implementation strategies. Jan Prins, Siddhartha Chatterjee, Martin Simons. Scientific Programming (7): 313-326 (1999). Web SearchBibTeXDownload
1998
15Modeling Dynamic Load Balancing in Molecular Dynamics to Achieve Scalable Parallel Execution. Lars S. Nyland, Jan Prins, Ru Huai Yun, Jan Hermans, Hye-Chung Kum, Lei Wang. IRREGULAR 1998, 356-365. Web SearchBibTeXDownload
14Expressing Irregular Computations in Modern Fortran Dialects. Jan Prins, Siddhartha Chatterjee, Martin Simons. LCR 1998, 1-16. Web SearchBibTeXDownload
1997
13KHEPERA: A System for Rapid Implementation of Domain Specific Languages. Rickard E. Faith, Lars S. Nyland, Jan Prins. DSL 1997. Web SearchBibTeXDownload
12Achieving Scalable Parallel Molecular Dynamics Using Dynamic Spatial Domain Decomposition Techniques. Lars S. Nyland, Jan Prins, Ru Huai Yun, Jan Hermans, Hye-Chung Kum, Lei Wang. J. Parallel Distrib. Comput. (47): 125-138 (1997). Web SearchBibTeXDownload
1996
11A Refinement Methodology for Developing Data-Parallel Applications. Lars S. Nyland, Jan Prins, Allen Goldberg, Peter Mills, John H. Reif, Robert A. Wagner. Euro-Par, Vol. I 1996, 145-150. Web SearchBibTeXDownload
1995
10Piecewise Execution of Nested Data-Parallel Programs. Daniel W. Palmer, Jan Prins, Siddhartha Chatterjee, Rickard E. Faith. LCPC 1995, 346-361. Web SearchBibTeXDownload
1993
9Transforming High-Level Data-Parallel Programs into Vector Operations. Jan Prins, Daniel W. Palmer. PPOPP 1993, 119-128. Web SearchBibTeXDownload
1992
8Prototyping N-Body Simulation in Proteus. Peter Mills, Lars S. Nyland, Jan Prins, John H. Reif. IPPS 1992, 476-482. Web SearchBibTeX
7Implementations of Randomized Sorting on Large Parallel Machines. William L. Hightower, Jan Prins, John H. Reif. SPAA 1992, 158-167. Web SearchBibTeXDownload
1991
6Prototyping parallel and distributed programs in Proteus. Peter Mills, Lars S. Nyland, Jan Prins, John H. Reif, Robert A. Wagner. SPDP 1991, 26-34. Web SearchBibTeXDownload
1989
5Integrating Noninterfering Versions of Programs. Susan Horwitz, Jan Prins, Thomas W. Reps. ACM Trans. Program. Lang. Syst. (11): 345-387 (1989). Web SearchBibTeXDownload
1988
4Integrating Non-Interfering Versions of Programs. Susan Horwitz, Jan Prins, Thomas W. Reps. POPL 1988, 133-145. Web SearchBibTeXDownload
3On the Adequacy of Program Dependence Graphs for Representing Programs. Susan Horwitz, Jan Prins, Thomas W. Reps. POPL 1988, 146-157. Web SearchBibTeXDownload
2Support for Integrating Program Variants in an Environment for Programming in the Large. Thomas W. Reps, Susan Horwitz, Jan Prins. SCM 1988, 197-216. Web SearchBibTeX
1987
1McLaren's Masterpiece. David Gries, Jan Prins. Sci. Comput. Program. (8): 139-145 (1987). Web SearchBibTeXDownload
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