Fengfeng Zhou

Contact:

Address:
120 Green Street, Athens, GA, 30602-7229
Webpage: http://csbl.bmb.uga.edu/~ffzhou/
Work phone: 706-542-9716

My CV could be downloaded from here (update: 2010-01-20). Please refer to my personal webpage for the latest information

• Nature network: http://network.nature.com/profile/ffzhou
• Epernicus: http://www.epernicus.com/users/8124
• Researcher ID: http://www.researcherid.com/rid/A-8932-2008

• Computational Systems Bioinformatics Conference (CSB) 2009, Stanford University, California, USA, August 10-12, 2009.
  Fengfeng Zhou, Victor Olman, Xizeng Mao, Ying Xu. "The intrinsic barcode feature of a genome", Poster.
• 3rd BESC Science Retreat, Asheville, NC, USA, June 22-24, 2009.
  Fengfeng Zhou, Ying Xu. "Comparative glydromics revealed the unexpected diverse distribution of two unconventional glydromes", Poster.
• SMBE 2009, Iowa City, IA, USA, June 3-7, 2009.
  Fengfeng Zhou, Victor Olman, Xizeng Mao, Ying Xu. "The intrinsic barcode feature of a genome and its applications", Poster.
• Invited talk, "Miniature Transposons in Prokaryotes", Department of Biochemistry and Molecular Biology, University of Georgia, Athens, Georgia, January 22, 2009.
• 2nd BESC Science Retreat, Chattanooga, TN, USA, December 1-3, 2008.
  Fenglou Mao, Fengfeng Zhou, Wen-chi Chou, Yanbin Yin, Huiling Chen, Chan Zhou, Ying Xu. "pDAWG: plant Database of Annotated cell Wall Genome", Poster.
• Life Science Society - Computational Systems Bioinformatics Conference (CSB), 2006, Stanford University, California, USA, Aug. 14-18, 2006.
  Fengfeng Zhou, Ying Xu, "Proteins' indel mutations tend to reside in the internal regions", Poster.
• Molecular Evolution, 2006, Gordon Conference, Ventura, California, USA, Feb. 5-10, 2006. Attendee.
• International Symposium on Computational and Information Sciences, 2004, Shanghai, China, Dec. 16-18, 2004.
  Bin Song, Fengfeng Zhou, Guoliang Chen, "Algorithms for Loosely Constrained Multiple Sequence Alignment", Lecture Notes in Computer Science (LNCS) 3314 (CIS'2004), pp. 213-218, 2004.

• Reviewers for journals: Acta Biotheoretica; Genome Biology; Nucleic Acid Research; BMC Genomics; BMC Bioinformatics; Trends in Genetics; FEBS Letters; BMC Evolutionary Biology; Science in China - C; Biophysical Chemistry; PLoS ONE; Bioinformatics; Genomics, Proteomics & Bioinformatics; Journal of Molecular Biology.
• Reviewers for conferences: ACBI 2006, ICIC 2006, IEEE-GRC 2006, PRIB 2006, GIW 2006, GIW 2007, ICIC 2007, CSB 2007, LSMS 2007, APBC 2008, CSB 2008, ICIC 2008, IBW 2009, ICIC 2009, CSB 2009.
• Editorial services:
1. Assosiate editor (2009-now): Sequencing,
2. Member of editorial board (2009-now): BioEnergy Research.
• Program Committee Member:
1. Internal Conference on Intelligent Computing, 2010, Changsha, China, August 18-21, 2010.
2. International Bioinformatics Workshop, 2009, Soochow University, Suzhou, China, June 19-21, 2009.
3. International Conference on Intelligent Computing, 2009, University of Ulsan, Korea, Sept. 16-19, 2009.
4. International Conference on Intelligent Computing, 2008, Shanghai, P.R.China, Sept. 15-18, 2008.
5. International Conference on Intelligent Computing, 2007, Qingdao, Shandong, P.R.China, Aug. 21-24, 2007.
6. Workshop on Intelligent Computing & Bioinformatics of CAS, 2006, Hefei, Anhui, P.R.China, Nov. 12-14, 2006.
7. IEEE International Conference on Granular Computing, 2006. Atlanta, USA, May 10-12, 2006.

Scientific societies:

• Sigma Xi - The Scientific Research Society
• International Society for Computational Biology
• Society for Molecular Biology and Evolution
• Biofuels, Biopwer and Biomaterials Initiative at UGA

Research interests:

• Graduate students: Yong Chen (SDU, 2008-2009), Guoqing Wang (JLU, 2009-now), Qin Ma (SDU, 2009-now), Chunbao Zhou (JLU, 2009-now), Zhongbo Cao (JLU, 2009-now).
• Undergraduate students: Celine Hong (UGA, 2007-2008), Hyongsook Kim (UGA, 2007-2008), Farres Obeidin (UGA, 2009).
• Outreach projects: Dylan Clark (GIFT2009, math teacher of the Clark Central High School, 2009).

	Book chapters:
		[1]	Morgan G.I. Langille, Fengfeng Zhou, Amber Fedynak, William W.L. Hsiao, Ying Xu, Fiona S.L. Brinkman, "Mobile genetic elements and their prediction", Chapter 5 in Computational Methods for Understanding Bacterial and Archaeal Genomes. Ying Xu and J Peter Gogarten (eds.) Series on Advances in Bioinformatics and Computational Biology, Vol. 7. Imperial College Press, London, 2008. Approx. 496 pp. ISBN-13: 978-1-86094-982-1. ISBN-10: 1-86094-982-7.
	Peer-reviewed journal papers (the last column shows the number of citations of each paper in GoogleScholar) [Total citations: 284, as of January 20, 2010]:   [23] Guoqing Wang, Fengfeng Zhou, Victor Olman, Fan Li, Ying Xu, “Prediction of pathogenicity islands in enterohemorrhagic Escherichia coli O157:H7 using genomic barcodes”, FEBS Letters 2010 584(1):194-198. 0   [22] Fenglou Mao, Yanbin Yan, Fengfeng Zhou, Wen-Chi Chou, Chan Zhou, Huiling Chen, Ying Xu, "pDAWG: an Integrated Database for Plant Cell-Wall Genes", BioEnergy Research 2009 2(4):209-216. 0   [21] Thao Tran, Fengfeng Zhou, Sarah Marshburn, Mark Stead, Sidney Kushner, and Ying Xu, "De novo computational prediction of non-coding RNA genes in prokaryotic genomes", Bioinformatics 2009 25(22):2897-2905. 0   [20] Fengfeng Zhou and Ying Xu, "Large scale analyses of glycosylation in cellulases", Accepted by Genomics, Proteomics & Bioinformatics. 0   [19] Irina A Kataeva, Sung-Jae Yang, Phuongan Dam, Farris L Poole II, Yanbin Yin, Fengfeng Zhou, Wen-chi Chou, Ying Xu, Lynne Goodwin, David R Sims, John C Detter, Loren J Hausser, Janet Westpheling and Michael WW Adams, "Genome Sequence of the Anaerobic, Thermophilic and Cellulolytic Bacterium Anaerocellum thermophilum DSM 6725", Journal of Bacteriology 2009 191:3760-3761. 1   [18] Yong Chen*, Fengfeng Zhou*, Guojun Li, and Ying Xu, "MUST: a system for identification of miniature inverted repeats transposable elements and applications to Anabaena variabilis and Haloquadratum walsbyi", Gene 2009 436:1-7. 1   [17] Bin Liu, Fengfeng Zhou, Suijie Wu, Ying Xu and Xiaobo Zhang, "Genomic and Proteomic Characterization of a Thermophilic Geobacillus Bacteriophage GBSV1", Research in Microbiology 2009 160:166-171. 1   [16] Chan Zhou, Fengfeng Zhou, Ying Xu, "Comparative analyses of distributions and functions of Z-DNA in Arabidopsis and rice", Genomics 2009 93:383-391. 0   [15] Fengfeng Zhou, Ying Xu, “RepPop: a database for repetitive elements in Populus trichocarpa”, BMC Genomics 2009 10:14. 4   [14] Fengfeng Zhou*, Victor Olman*, Ying Xu, “Barcodes for Genomes and Applications”, BMC Bioinformatics 2008 9:546. 7   [13] Yong Chen*, Fengfeng Zhou*, Guojun Li, and Ying Xu, "A recently active MITE, Chunjie, inserted into an operon without disturbing the operon structure in Geobacter uraniireducens Rf4", Genetics 2008 179:2291-2297. Website: http://csbl.bmb.uga.edu/publications/materials/ffzhou/chunjie/ 2   [12] Fengfeng Zhou, Victor Olman, Ying Xu, "Insertion Sequences show diverse recent activities in Cyanobacteria and Archaea", BMC Genomics 2008 9:36. Website: http://csbl.bmb.uga.edu/~ffzhou/isa_web/ 6   [11] Fengfeng Zhou, Thao Tran, Ying Xu, "Nezha, a novel active miniature inverted-repeat transposable element in cyanobacteria", Biochemical and Biophysical Research Communications 2008 365(4): 790-794. 7   [10] Fengfeng Zhou*, Yu Xue*, Xuebiao Yao, Ying Xu, "A general user interface for prediction servers of proteins' post-translational modification sites", Nature Protocols 2006 1(3):1318-1321. Web site: http://csbl.bmb.uga.edu/~ffzhou/PTMP-UI/ or http://bioinformatics.lcd-ustc.org/PTMP-UI/ 11   [9] Yu Xue*, Fengfeng Zhou*, Chuanhai Fu, Ying Xu, Xuebiao Yao, "SUMOsp: a web server for sumoylation site prediction", Nucl Acids Res 2006 34:W254-W257. Web site: http://csbl.bmb.uga.edu/~ffzhou/sumosp/ or http://bioinformatics.lcd-ustc.org/sumosp/old1/ 42   [8] Fengfeng Zhou*, Yu Xue*, Xuebiao Yao, Ying Xu, "CSS-Palm: palmitoylation site prediction with a clustering and scoring strategy (CSS)", Bioinformatics 2006 22(7):894-896. Web site: http://csbl.bmb.uga.edu/~ffzhou/css_palm/ or http://bioinformatics.lcd-ustc.org/css_palm/old1/ 38   [7] Fengfeng Zhou*, Yu Xue*, Hualei Lu, Guoliang Chen, Xuebiao Yao, "A genome-scale analysis of sumoylation-related biological processes and functions in human nucleus", FEBS Letters 2005 579:3369-3375. Web site: http://bioinformatics.lcd-ustc.org/sumo/ 24   [6] Yu Xue*, Fengfeng Zhou*, Minjie Zhu, Kashif Ahmed, Guoliang Chen, Xuebiao Yao, "GPS: A comprehensive www server for phosphorylation sites prediction", Nucleic Acids Research 2005 33:W184-W187. Web site: http://csbl.bmb.uga.edu/~ffzhou/gps_web/ or http://bioinformatics.lcd-ustc.org/gps_web/ 70   [5] Zuozhou Chen, Chenghai Xue, Sheng Zhu, Fengfeng Zhou, Xuefeng Bruce Ling, Guoping Liu, Liangbiao Chen, "GoPipe: Streamlined Gene Ontology Annotation for Batch Anonymous Sequences with Statistics", Progress in Biochemistry and Biophysics 2005 32:187-191. 9   [4] Fengfeng Zhou, Yinlong Xu, Guoliang Chen, "No-wait Scheduling in Single-hop Multi-channel LANs", Information Processing Letters 2005 93:19-24. 0   [3] Fengfeng Zhou, Yinlong Xu, Guoliang Chen, "A Scheduling Algorithm on Symmetric Fiber Trees with Tunable ADMs", (in Chinese), Journal of Computer Science 2005 28:774-781.   [2] Fengfeng Zhou*, Yu Xue*, Guoliang Chen, Xuebiao Yao, "GPS: A Novel Group-based Phosphorylation Prediction and Scoring Method", Biochemical and Biophysical Research Communications 2004 325:1443-1448. Web site: http://csbl.bmb.uga.edu/~ffzhou/gps_web/ or http://bioinformatics.lcd-ustc.org/gps_web/ 57   [1] Fengfeng Zhou, Guoliang Chen, Yinlong Xu, J. Gu, "Minimizing ADMs on WDM Directed Fiber Trees", J. Comput. Sci. & Technol. 2003 18(6):725-731. 4   * means that the indicated authors contribute equally to that paper.   Non-peer-reviewed papers:   [3] Yu Xue, Fengfeng Zhou, Ying Xu and Xuebiao Yao, "GPS: A computational protocol for kinase-specific phosphorylation site prediction", Nature Protocol, 2007.   [2] Yu Xue*, Fengfeng Zhou*, Hualei Lu, Guoliang Chen, Xuebiao Yao, "SUMO Substrates and Sites Prediction Combining Pattern Recognition and Phylogenetic Conservation", arXiv:q-bio.GN/0409011   [1] Fengfeng Zhou, Guoliang Chen, Yinlong Xu, "Construction of Small Worlds in the Physical Topology of Wireless Networks", arXiv:cs.NI/0503051   * means that the indicated authors contribute equally to that paper.   Favorite links: Ding Xiang Yuan: http://www.dxy.cn/bbs My research space: http://www.myresearchspace.cn/ UGA: http://www.uga.edu/ Science Board: http://www.scienceboard.net/ HighWire: http://intl.highwire.org/