Fengfeng Zhou

Professor
Research Center for Biomedical Information Technology,
Institute of Biomedical and Health Engineering,
Shenzhen Institutes of Advanced Technology,
Chinese Academy of Sciences.
Shenzhen, Guangdong, P.R. China, 518055.

Contact: my email address in  graph format.

Address:
1068 Xueyuan Avenue, Shenzhen University Town, Shenzhen, P.R.China.
Webpage: http://www.FengfengZhou.org/FengfengZhou/
Work phone: 706-870-0087

Please refer to my personal webpage for the latest information. You may contact me for my updated CV.

Google Scholar    
Education:

My profiles on internet:

Nature network http://network.nature.com/profile/ffzhou
Epernicus http://www.epernicus.com/people/FengfengZhou
Researcher ID http://www.researcherid.com/rid/A-8932-2008
LinkedIn http://www.linkedin.com/in/FengfengZhou
Scopus http://www.scopus.com/authid/detail.url?authorId=8718139300
Google My Citations http://scholar.google.com/citations?user=FL2GqPcAAAAJ&hl=en

Research experience: Invited talks and conference presentations: Academic services:

Research interests:

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.    
         

Papers:

  [30] Po-Yen Wu, John H Phan, Fengfeng Zhou, May D Wang, “Evaluation of Methods for Gene Expression Estimation from RNA-Seq Data”, IEEE International Conference on Bioinformatics & Biomedicine (BIBM) 2011.
  [29] Guoqing Wang, Fengfeng Zhou, Victor Olman, Yingying Su, Ying Xu, Fan Li, “Computational prediction and experimental validation of novel markers for detection of STEC O157:H7”, World Journal of Gastroenterology, 2011 17(14):1910-1914.
  [28] Phuongan Dam, Irina Kataeva, Sung-Jae Yang, Fengfeng Zhou, Yanbin Yin, Wenchi Chou, Farris L., Poole II, Janet Westpheling, Robert Hettich, Richard Giannone, Derrick L. Lewis, Robert Kelly, Harry J. Gilbert, Bernard Henrissat, Ying Xu and Michael W.W. Adams, "Insights into Plant Biomass Conversion from the Genome of the Anaerobic Thermophilic Bacterium Caldicellulosiruptor bescii DSM 6725", Nucleic Acids Research, 2011 39(8):3240-3254.
  [27] Fengfeng Zhou, Ying Xu, "cBar: a computer program to distinguish plasmid-derived from chromosome-derived sequence fragments in metagenomics data", Bioinformatics 2010 26: 2051-2052.
  [26] Fengfeng Zhou, Huiling Chen, Ying Xu, "GASdb: a large-scale and comparative exploration database of glycosyl hydrolysis systems", BMC Microbiology 2010 10:69.
<Highly accessed>
  [25] 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.
  [24] 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.
  [23] 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.
  [22] Fengfeng Zhou and Ying Xu, "Large-scale analyses of glycosylation in cellulases", Genomics, Proteomics & Bioinformatics 2009 7(4):194-199.
  [21] 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.
  [20] 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.
  [19] 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.
  [18] Chan Zhou, Fengfeng Zhou, Ying Xu, "Comparative analyses of distributions and functions of Z-DNA in Arabidopsis and rice", Genomics 2009 93:383-391.
  [17] Fengfeng Zhou, Ying Xu, “RepPop: a database for repetitive elements in Populus trichocarpa”, BMC Genomics 2009 10:14.
  [16] Fengfeng Zhou*, Victor Olman*, Ying Xu, “Barcodes for Genomes and Applications”, BMC Bioinformatics 2008 9:546.
<Highly accessed>
  [15] 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/
  [14] 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/
  [13] 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.
  [12] Yu Xue, Fengfeng Zhou, Ying Xu and Xuebiao Yao, "GPS: A computational protocol for kinase-specific phosphorylation site prediction", Nature Protocol, 2007 (invited).
  [11] 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/
  [10] 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/
  [9] 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/
  [8] 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/
  [7] 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/
  [6] 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.
  [5] Fengfeng Zhou, Yinlong Xu, Guoliang Chen, "No-wait Scheduling in Single-hop Multi-channel LANs", Information Processing Letters 2005 93:19-24.
  [4] 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.
  [3] 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/
  [2] 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.
  [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.
  * means that the indicated authors contribute equally to that paper.
     

Preprints:

  [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.
     


Last update: August 12, 2011.