Shaojie Zhang

Office: HEC 311 (building 116)

Phone: (407) 823-6095
Fax: (407) 823-5835
E-mail: shzhang(at)cs.ucf.edu

My research group:Computational Biology and Bioinformatics Group
UCF Bioinformatics Lab:Bioinformatics Lab

Mailing Address:

School of Electrical Engineering and Computer Science
University of Central Florida
Orlando, FL 32816-2362

Educational Background:

Ph.D. in Computer Science, University of California at San Diego.
B.S. in Computer Science, Peking University.

Research Interests:
Computational Biology and Bioinformatics, particularly:

Teaching:

CAP5510 Introduction to Bioinformatics (Fall 2007)
UCF Bioinformatics Seminar (Fall 2007)
CAP6938 Special Topic: Computational Genomics (Spring 2008)
CAP6938 Special Topic: Algorithms in Computational Molecular Biology (Fall 2008)
CAP6938 Computational Genomics (Spring 2009)
CAP6938 Algorithms in Computational Molecular Biology (Fall 2009)
COT3100C Introduction to Discrete Structures (Fall 2009)
CAP6938 Computational Genomics (Spring 2010)

Current Graduate Students:

Dan DeBlasio
Matt Finch
Yuan Li
Cuncong Zhong

Recent Publications:

Daniel DeBlasio, Jocelyne Bruand, and Shaojie Zhang. "PMFastR: A new approach to mulitiple RNA structure alignment", In: Proceedings of the 9th Workshop on Algorithms in Bioinformatics (WABI 2009), Berlin: Springer-Verlag: LNBI Vol. 5724, pp. 49-61, 2009

Buhm Han, Banu Dost, Vineet Bafna and Shaojie Zhang, "Structural alignment of pseudoknotted RNA", Journal of Computational Biology, 15(5) page 489-504, 2008.

Shaojie Zhang, Ilya Borovok, Yair Aharonowitz, Roded Sharan and Vineet Bafna, "A sequence-based filtering method for ncRNA identification and its application to searching for riboswitch elements", Bioinformatics Vol. 22, No. 14, page e557-e565, 2006 (ISMB 2006).

Banu Dost, Buhm Han, Shaojie Zhang and Vineet Bafna, "Structural alignment of pseudoknotted RNA", RECOMB 2006.

Vineet Bafna, Haixu Tang and Shaojie Zhang, "Consensus folding of unaligned RNA sequences revisited", Journal of Computational Biology, Vol. 13, No. 2, page 283-295, 2006.

Vineet Bafna, Haixu Tang and Shaojie Zhang, "Consensus folding of unaligned RNA sequences revisited", RECOMB 2005.

Vineet Bafna and Shaojie Zhang, "FastR: Fast Database Search Tool for Non-Co ding RNA", CSB 2004 page:52-61.

Shaojie Zhang, Brian Haas, Eleazar Eskin and Vineet Bafna, "Searching Genomes for non-coding RNA using FastR", IEEE TCBB , 2005 2(4).

Wen Zhang, Shaojie Zhang, Haixu Tang and Dafu Ding, "Reverse-Translated Alignment of EST Sequence with Protein Sequence", Acta. Biophysica Sinica, 16(2) page 322-333, 2000.