Bruce A. Shapiro

2008
30	EE	Eckart Bindewald, Robert Hayes, Yaroslava G. Yingling, Wojciech Kasprzak, Bruce A. Shapiro: RNAJunction: a database of RNA junctions and kissing loops for three-dimensional structural analysis and nanodesign. Nucleic Acids Research 36(Database-Issue): 392-397 (2008)
2007
29	EE	Jason Tsong-Li Wang, Dongrong Wen, Bruce A. Shapiro, Katherine G. Herbert, Jing Li, Kaushik Ghosh: Toward an Integrated RNA Motif Database. DILS 2007: 27-36
28	EE	Mugdha Khaladkar, Vivian Bellofatto, Jason Tsong-Li Wang, Bin Tian, Bruce A. Shapiro: RADAR: a web server for RNA data analysis and research. Nucleic Acids Research 35(Web-Server-Issue): 300-304 (2007)
2006
27	EE	Eckart Bindewald, Thomas D. Schneider, Bruce A. Shapiro: CorreLogo: an online server for 3D sequence logos of RNA and DNA alignments. Nucleic Acids Research 34(Web-Server-Issue): 405-411 (2006)
2003
26		Moon K. Kim, Robert L. Jernigan, Bruce A. Shapiro, Gregory S. Chirikjian: A Study of Conformational Changes in Macromolecules: The Coarse-Grained Elastic Network Interpolation Method. METMBS 2003: 140-145
25		Bruce A. Shapiro, David Bengali, Wojciech Kasprzak, Jin Chu Wu: Exploring RNA Intermediate Conformations with the Massively Parallel Genetic Algorithm. Computational Biology and Genome Informatics 2003: 1-33
2002
24	EE	Xiong Wang, Jason Tsong-Li Wang, Dennis Shasha, Bruce A. Shapiro, Isidore Rigoutsos, Kaizhong Zhang: Finding Patterns in Three-Dimensional Graphs: Algorithms and Applications to Scientific Data Mining. IEEE Trans. Knowl. Data Eng. 14(4): 731-749 (2002)
2001
23	EE	Bruce A. Shapiro, David Bengali, Wojciech Kasprzak: Determination of RNA folding pathway functional intermediates using a massively parallel genetic algorithm (abstract of invited talk). BIOKDD 2001: 1
22		Bruce A. Shapiro, Jin Chu Wu, David Bengali, Mark J. Potts: The massively parallel genetic algorithm for RNA folding: MIMD implementation and population variation. Bioinformatics 17(1): 137-148 (2001)
2000
21	EE	Jason Tsong-Li Wang, Xiong Wang, Dennis Shasha, Bruce A. Shapiro, Kaizhong Zhang, Xinhuan Zheng, Qicheng Ma, Zasha Weinberg: An Approximate Search Engine for Structural Databases. SIGMOD Conference 2000: 584
20	EE	Xiong Wang, Jason Tsong-Li Wang, King-Ip Lin, Dennis Shasha, Bruce A. Shapiro, Kaizhong Zhang: An Index Structure for Data Mining and Clustering. Knowl. Inf. Syst. 2(2): 161-184 (2000)
1999
19		Jason Tsong-Li Wang, Bruce A. Shapiro, Dennis Shasha: Pattern Discovery in Biomolecular Data: Tools, Techniques and Applications Oxford University Press 1999
18	EE	Jason Tsong-Li Wang, Xiong Wang, King-Ip Lin, Dennis Shasha, Bruce A. Shapiro, Kaizhong Zhang: Evaluating a Class of Distance-Mapping Algorithms for Data Mining and Clustering. KDD 1999: 307-311
17		Bruce A. Shapiro, Wojciech Kasprzak, Jin Chu Wu, Kathleen M. Currey: RNA Structure Analysis: A Multifaceted Approach. Pattern Discovery in Biomolecular Data 1999: 183-215
16		Wojciech Kasprzak, Bruce A. Shapiro: Stem Trace: an interactive visual tool for comparative RNA structure analysis. Bioinformatics 15(1): 16-31 (1999)
15		Jason Tsong-Li Wang, Steve Rozen, Bruce A. Shapiro, Dennis Shasha, Zhiyuan Wang, Maisheng Yin: New Techniques for DNA Sequence Classification. Journal of Computational Biology 6(2): 209-218 (1999)
1998
14	EE	Jason Tsong-Li Wang, Bruce A. Shapiro, Dennis Shasha, Kaizhong Zhang, Kathleen M. Currey: An Algorithm for Finding the Largest Approximately Common Substructures of Two Trees. IEEE Trans. Pattern Anal. Mach. Intell. 20(8): 889-895 (1998)
13		Jih-H. Chen, Shu-Yun Le, Bruce A. Shapiro, Jacob V. Maizel: Optimization of an RNA Folding Algorithm for Parallel Architectures. Parallel Computing 24(11): 1617-1634 (1998)
1997
12		Xiong Wang, Jason Tsong-Li Wang, Dennis Shasha, Bruce A. Shapiro, Sitaram Dikshitulu, Isidore Rigoutsos, Kaizhong Zhang: Automated Discovery of Active Motifs in Three Dimensional Molecules. KDD 1997: 89-95
11		Kathleen M. Currey, Bruce A. Shapiro: Secondary structure computer prediction of the poliovirus 5' non-coding region is improved by a genetic algorithm. Computer Applications in the Biosciences 13(1): 1-12 (1997)
10		Bruce A. Shapiro, Jin Chu Wu: Predicting RNA H-type pseudoknots with the massively parallel genetic algorithm. Computer Applications in the Biosciences 13(4): 459-471 (1997)
1996
9		Jason Tsong-Li Wang, Bruce A. Shapiro, Dennis Shasha, Kaizhong Zhang, Chia-Yo Chang: Automated Discovery of Active Motifs in Multiple RNA Secondary Structures. KDD 1996: 70-75
8		Bruce A. Shapiro, Jin Chu Wu: An annealing mutation operator in the genetic algorithms for RNA folding. Computer Applications in the Biosciences 12(3): 171-180 (1996)
1994
7	EE	Jason Tsong-Li Wang, Gung-Wei Chirn, Thomas G. Marr, Bruce A. Shapiro, Dennis Shasha, Kaizhong Zhang: Combinatorial Pattern Discovery for Scientific Data: Some Preliminary Results. SIGMOD Conference 1994: 115-125
1990
6		Jih-H. Chen, Shu-Yun Le, Bruce A. Shapiro, Kathleen M. Currey, Jacob V. Maizel: A computational procedure for assessing the significance of RNA secondary structure. Computer Applications in the Biosciences 6(1): 7-18 (1990)
5		Bruce A. Shapiro, Kaizhong Zhang: Comparing multiple RNA secondary structures using tree comparisons. Computer Applications in the Biosciences 6(4): 309-318 (1990)
1989
4		Shu-Yun Le, J. Owens, Ruth Nussinov, Jih-H. Chen, Bruce A. Shapiro, Jacob V. Maizel: RNA secondary structures: comparison and determination of frequently recurring substructures by consensus. Computer Applications in the Biosciences 5(3): 205-210 (1989)
1988
3		Bruce A. Shapiro: An algorithm for comparing multiple RNA secondary structures. Computer Applications in the Biosciences 4(3): 387-393 (1988)
1986
2		Bruce A. Shapiro, Ruth Nussinov, L. E. Lipkin, Jacob V. Maizel: A sequence analysis system encompassing rules for DNA helical distortion. Nucleic Acids Research 14(1): 75-86 (1986)
1984
1		Bruce A. Shapiro, Jacob V. Maizel, L. E. Lipkin, Kathleen M. Currey, Colin G. Whitney: Generating non-overlapping displays of nucleic acid secondary structure. Nucleic Acids Research 12(1): 75-88 (1984)

Coauthor Index

1	Vivian Bellofatto	[28]
2	David Bengali	[22] [23] [25]
3	Eckart Bindewald	[27] [30]
4	Chia-Yo Chang	[9]
5	Jih-H. Chen	[4] [6] [13]
6	Gregory S. Chirikjian	[26]
7	Gung-Wei Chirn	[7]
8	Kathleen M. Currey	[1] [6] [11] [14] [17]
9	Sitaram Dikshitulu	[12]
10	Kaushik Ghosh	[29]
11	Robert Hayes	[30]
12	Katherine G. Herbert	[29]
13	Robert L. Jernigan	[26]
14	Wojciech Kasprzak	[16] [17] [23] [25] [30]
15	Mugdha Khaladkar	[28]
16	Moon K. Kim	[26]
17	Shu-Yun Le	[4] [6] [13]
18	Jing Li	[29]
19	King-Ip Lin	[18] [20]
20	L. E. Lipkin	[1] [2]
21	Qicheng Ma	[21]
22	Jacob V. Maizel	[1] [2] [4] [6] [13]
23	Thomas G. Marr	[7]
24	Ruth Nussinov	[2] [4]
25	J. Owens	[4]
26	Mark J. Potts	[22]
27	Isidore Rigoutsos	[12] [24]
28	Steve Rozen	[15]
29	Thomas D. Schneider	[27]
30	Dennis Shasha	[7] [9] [12] [14] [15] [18] [19] [20] [21] [24]
31	Bin Tian	[28]
32	Jason Tsong-Li Wang (Jason T. L. Wang)	[7] [9] [12] [14] [15] [18] [19] [20] [21] [24] [28] [29]
33	Xiong Wang	[12] [18] [20] [21] [24]
34	Zhiyuan Wang	[15]
35	Zasha Weinberg	[21]
36	Dongrong Wen	[29]
37	Colin G. Whitney	[1]
38	Jin Chu Wu	[8] [10] [17] [22] [25]
39	Maisheng Yin	[15]
40	Yaroslava G. Yingling	[30]
41	Kaizhong Zhang	[5] [7] [9] [12] [14] [18] [20] [21] [24]
42	Xinhuan Zheng	[21]

Colors in the list of coauthors