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Zhou F#*, Yu X#, Gan R#, Ren K, Chen C, Ren C, Cui M, Liu Y, Gao Y, Wang S, Yin M, Huang T, Huang Z*, Zhang F.an *. CRISPRimmunity: an interactive web server for CRISPR-associated Important Molecular events and Modulators Used in geNome edIting Tool identifYing. Nucleic Acids Res. 2023 Jul 5;51(W1):W93-W107. (IF: 14.9)
Zhou F, Yang H, Si Y, Gan R, Yu L, Chen C, Ren C, Wu J, Zhang F. PhageTailFinder: A tool for phage tail module detection and annotation. Front Genet. 2023 Jan 23;14:947466. (IF: 3.7)
Gan R, Zhou F, Si Y, Yang H, Chen C, Ren C, Wu J, Zhang F*. DBSCAN-SWA: An Integrated Tool for Rapid Prophage Detection and Annotation. Front Genet. 2022 Apr (IF: 3.7)
Zhou, F.(#), Gan, R.(#), Zhang, F.(#), Ren, C., Jia, Y., Yu, L. and Huang, Z*. (2021)
PHISDetector: A Tool to Detect Diverse in silico Phage-host Interaction Signals for Virome Studies. Genomics, Proteomics & Bioinformatics (2022, co-first author IF: 7.691)
Fan Zhang, Zhiwei Huang*. Mechanistic Insights into the Versatile Class II CRISPR Toolbox. Trends in Biochemical Sciences. (IF: 13.807, invited review 2021)
Shengli Ma(#)*, Fan Zhang(#), Fengxia Zhou(#), Hui Li(#), Wenyu Ge, Rui Gan, Huan Nie, Biao Li, Yindong Wang, Meng Wu, Duo Li, Dongmei Wang, Zheng Wang, Yuhong You & Zhiwei Huang* Metagenomic analysis reveals oropharyngeal microbiota alterations in patients with COVID-19. Sig Transduct Target Ther 6, 191 (2021). https://doi.org/10.1038/s41392-021-00614-3 (IF: 18.187 co-first author)
Ren, X.#,Wen, W.#, Fan, X.#, Hou, W.#, Su, B.#, Cai, P.#, Li, J.#, Liu, Y.#, Tang, F. #, Zhang, F. #, Yang, Y.#, He, J. #, Ma, W. #, He, J. #, Wang, P. #, Cao, Q., Chen, F., Chen, Y., Cheng, X., Deng, G., Deng, X., Ding, W., Feng, Y., Gan, R., Guo, C., Guo, W., He, S., Jiang, C., Liang, J., Li, Y.-m., Lin, J., Ling, Y., Liu, H., Liu, J., Liu, N., Liu, S.-Q., Luo, M., Ma, Q., Song, Q., Sun, W., Wang, G., Wang, F., Wang, Y., Wen, X., Wu, Q., Xu, G., Xie, X., Xiong, X., Xing, X., Xu, H., Yin, C., Yu, D., Yu, K., Yuan, J., Zhang, B., Zhang, P., Zhang, T., Zhao, J., Zhao, P., Zhou, J., Zhou, W., Zhong, S., Zhong, X., Zhang, S., Zhu, L., Zhu, P., Zou, B., Zou, J., Zuo, Z., Bai, F., Huang, X., Zhou, P., Jiang, Q.*, Huang, Z. *, Bei, J.-X. *, Wei, L. *, Bian, X.-W. *, Liu, X. *, Cheng, T. *, Li, X. *, Zhao, P. *, Wang, F.-S. *, Wang, H. *, Su, B. *, Zhang, Z. *,Qu, K. *, Wang, X. *, Chen, J. *, Jin, R. *, Zhang, Z. *, COVID-19 immune features revealed by a large-scale single cell transcriptome atlas, Cell (2021), doi: https://doi.org/10.1016/j.cell.2021.01.053.(co-first author，IF: 41.582)
Fan Zhang(#), Rui Gan(#), Ziqi Zhen(#), Xiaoli Hu(#), Xiang Li, Fengxia Zhou, Ying Liu, Chuangeng Chen, Shuangyu Xie, Bailing Zhang, Xiaoke Wu & Zhiwei Huang*. Adaptive immune responses to SARS-CoV-2 infection in severe versus mild individuals. Sig Transduct Target Ther 5, 156 (2020). https://doi.org/10.1038/s41392-020-00263-y (IF: 18.187 cover story)
Zhang, R.(#), F. Zhang(#), Z. Sun(#), P. Liu, X. Zhang, Y. Ye, B. Cai, M. J. Walsh, X. Ren, X. Hao, W. Zhang* and J. Yu* (2019). "LINE-1 Retrotransposition Promotes the Development and Progression of Lung Squamous Cell Carcinoma by Disrupting the Tumor Suppressor Gene FGGY." Cancer Research: canres.0076.2019. （co-first author, IF：12.701）
Dong, L.#, Guan, X.#, Li, N.#, Zhang, F., Zhu, Y., Ren, K., Yu, L., Zhou, F., Han, Z., Gao, N. Huang, Z*. (2019) An anti-CRISPR protein disables type V Cas12a by acetylation. Nature Structural & Molecular Biology. （IF：15.369）
Zhang, F.(#), Zhao, S.(#), Ren, C.(#), Zhu, Y., Zhou, H., Lai, Y., Zhou, F., Jia, Y., Zheng, K. and Huang, Z*. (2018) CRISPRminer is a knowledge base for exploring CRISPR-Cas systems in microbe and phage interactions. Commun Biol, 1, 180. (IF：6.268)
Fan Zhang*, Chunyan Ren, Kwun Kit Lau, Zihan Zheng, Geming Lu, Zhengzi Yi, Yongzhong Zhao, Fei Su, Shaojun Zhang, Bin Zhang, Eric A. Sobie, Weijia Zhang*, Martin J. Walsh*, A network medicine approach to build a comprehensive atlas for the prognosis of human cancer, BRIEFINGS IN BIOINFORMATICS, 2016.11, 17(6): 1044~1059 （IF：11.622）
Ka Lung Cheung(#), Fan Zhang(#), Anbalagan Jaganathan(#), Rajal Sharma, Qiang Zhang, Tsuyoshi Konuma, Tong Shen, June-Yong Lee, Chih-Hung Chen, Geming Liu, Weijia Zhang, Dan R. Littman, Martin J. Walsh, Huabao Xiong, & Ming-Ming Zhou* Distinct Roles of Brd2 and Brd4 in Potentiating the Transcriptional Program for Th17 Cell Differentiation, MOLECULAR CELL, 2017.3.16, 65(6): 1068~+ （co-first author IF：17.970）
Zhu, Y., Zhang, F. & Huang, Z*. Structural insights into the inactivation of CRISPR-Cas systems by diverse anti-CRISPR proteins. BMC Biol 16, 32, doi:10.1186/s12915-018-0504-9 (2018).
Aguilo, Francesca(*); Zhang, Fan; et.al, Coordination of m(6)A mRNA Methylation and Gene Transcription by ZFP217 Regulates Pluripotency and Reprogramming, CELL STEM CELL, 2015.12.3, 17(6): 689~704 （IF：24.633）
Guo, Haiyang(#); Ahmed, Musaddeque(#); Zhang, Fan et.al, Modulation of long noncoding RNAs by risk SNPs underlying genetic predispositions to prostate cancer, NATURE GENETICS, 2016.10, 48(10): 1142~1150 （IF：38.330）
Rengasamy, Madhumitha; Zhang, Fan et.al, The PRMT5/WDR77 complex regulates alternative splicing through ZNF326 in breast cancer, NUCLEIC ACIDS RESEARCH, 2017.8.21, 45(19): 11106~11120 （IF：16.971）
Di Cecilia, Serena; Zhang, Fan et.al, RBM5-AS1 Is Critical for Self-Renewal of Colon Cancer Stem-like Cells., Cancer Res, 2016.10.1, 76(19): 5615~5627 （IF：12.701）
Zhang, Fan(#) et. al Allele-Specific Behavior of Molecular Networks: Understanding Small-Molecule Drug Response in Yeast, PLos One, 2013.1.4, 8(1) （IF：3.24）
Wu, Chao(#); Zhang, Fan(#) et.al Composite functional module inference: detecting cooperation between transcriptional regulation and protein interaction by mantel test, BMC Systems Biology, 2010.6.10, 4:1~11
Haines, Jeffery D.(#); Vidaurre, Oscar G.(#); Zhang, Fan(#); et.al, Multiple sclerosis patient-derived CSF induces transcriptional changes in proliferating oligodendrocyte progenitors, MULTIPLE SCLEROSIS JOURNAL, 2015.11, 21(13): 1655~1669 （co-first author, IF：6.312）
Chen DiJun(#); Zhang Fan(#) et.al , A web-based platform for rice microarray annotation and data analysis, Science China Life Sciences, 2010.12, 53(12): 1467~1473 （co-first author, IF：6.038）
Zhang, Fan(#); et.al, The enhancer landscape involves a core noncoding RNA protein interaction network for C-MYC expression, AACR Special Conference on Noncoding RNAs and Cancer - Mechanisms to Medicines, Boston, MA, 2015.12.4-2015.12.7 (会议论文)
Zhang, Fan(#); et.al, A heuristic approach for target SNP mining based on genome-wide IBD profile, 3rd International Conference on Natural Computation (ICNC 2007), Haikou, PEOPLES R CHINA, 2007.8.24-2007.8.27 (会议论文)
Liu, Jia; Magri, Laura; Zhang, Fan et.al, Chromatin Landscape Defined by Repressive Histone Methylation during Oligodendrocyte Differentiation, JOURNAL OF NEUROSCIENCE, 2015.1.7, 35(1): 352~365 （IF：6.167）
Moyon, Sarah; Huynh, Jimmy L.; Dutta, Dipankar; Zhang, Fan et.al, Functional Characterization of DNA Methylation in the Oligodendrocyte Lineage, CELL REPORTS, 2016.4.26, 15(4): 748~760 （IF：9.423）
Li, Chunquan; Li, Xia; Miao, Yingbo; Wang, Qianghu; Jiang, Wei; Xu, Chun; Li, Jing; Han, Junwei; Zhang, Fan et.al, SubpathwayMiner: a software package for flexible identification of pathways, Nucleic Acids Research, 2009.10, 37(19) （IF：10.162）
Sancho, Ana; Li, SiDe; Paul, Thankam; Zhang, Fan et.al, CHD6 regulates the topological arrangement of the CFTR locus, HUMAN MOLECULAR GENETICS, 2015.5.15, 24(10): 2724~2732 （IF：6.150）
Shaojun Zhang(#); Fang Wang(#); Hongzhi Wang; Fan Zhang; Bin Xu; Xia Li(*); Yadong Wang(*), Genome-wide identification of allele-specific effects on gene expression for single and multiple individuals, Gene, 2014.1.1, 533(1): 366~373 （IF：2.415）
Han, Junwei; Liu, Siyao; Sun, Zeguo; Zhang, Yunpeng; Zhang, Fan et.al, LncRNAs2Pathways: Identifying the pathways influenced by a set of lncRNAs of interest based on a global network propagation method, SCIENTIFIC REPORTS, 2017.4.20, 7 （IF：4.259）
Liu, Wei; Li, Chunquan; Xu, Yanjun; Yang, Haixiu; Yao, Qianlan; Han, Junwei; Shang, Desi; Zhang, Chunlong; Su, Fei; Li, Xiaoxi; Xiao, Yun; Zhang, Fan; Dai, Meng; Li, Xia, Topologically inferring risk-active pathways toward precise cancer classification by directed random walk, Bioinformatics, 2013.9.1, 29(17): 2169~2177 （IF：7.307）
Li, Jiang; Gong, Binsheng; Chen, Xi; Liu, Tao; Wu, Chao; Zhang, Fan; Li, Chunquan; Li, Xiang; Rao, Shaoqi(*); Li, Xia, DOSim: An R package for similarity between diseases based on Disease Ontology, BMC Bioinformatics, 2011.6.29, 12 （IF：2.448）
Cheung, Kalung(#); Lu, Geming(#); Sharma, Rajal; Vincek, Adam; Zhang, Ruihua; Plotnikov, Alexander N.; Zhang, Fan; et.al, BET N-terminal bromodomain inhibition selectively blocks Th17 cell differentiation and ameliorates colitis in mice, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2017.3.14, 114(11): 2952~2957 （IF：11.205）
Aguilo, Francesca(#); Li, SiDe(#); Balasubramaniyan, Natarajan(#); Sancho, Ana; Benko, Sabina; Zhang, Fan; et.al, Deposition of 5-Methylcytosine on Enhancer RNAs Enables the Coactivator Function of PGC-1 alpha, CELL REPORTS, 2016.1.26, 14(3): 479~492 (IF: 8.282 )
Vidaurre, Oscar G.; Haines, Jeffery D.; Sand, Ilana Katz; Adula, Kadidia P.; Huynh, Jimmy L.; McGraw, Corey A.; Zhang, Fan et.al, Cerebrospinal fluid ceramides from patients with multiple sclerosis impair neuronal bioenergetics, BRAIN, 2014.8, 137: 2271~2286 （IF：13.501）
Sun, Jie(#); Gao, Bo(#); Zhou, Meng(#)(*); Wang, Zhen-zhen; Zhang, Fan; Deng, Jia-en; Li, Xia, Comparative genomic analysis reveals evolutionary characteristics and patterns of microRNA clusters in vertebrates, Gene, 2013.1.10, 512(2): 383~391
Zhang, Shaojun; Xu, Liangde; Wang, Fang; Wang, Hongzhi; Gong, Binsheng; Zhang, Fan; Li, Xia(*); Wang, Yadong, Genetic control of primary microRNA insight into cis- and trans-regulatory variations by RNA-seq, Gene, 2013.4.1, 517(2): 224~229
Kuo, P-Y; Leshchenko, V. V.; Fazzari, M. J.; Perumal, D.; Gellen, T.; He, T.; Iqbal, J.; Baumgartner-Wennerholm, S.; Nygren, L.; Zhang, F.; et.al, High-resolution chromatin immunoprecipitation (ChIP) sequencing reveals novel binding targets and prognostic role for SOX11 in mantle cell lymphoma, ONCOGENE, 2015.3.5, 34(10): 1231~1240 （IF：7.519）
Sullivan, Josefa M.; Badimon, Ana; Schaefer, Uwe; Ayata, Pinar; Gray, James; Chung, Chun-wa; von Schimmelmann, Melanie; Zhang, Fan; et.al, Autism-like syndrome is induced by pharmacological suppression of BET proteins in young mice, JOURNAL OF EXPERIMENTAL MEDICINE, 2015.10.19, 212(11): 1771~1781 （IF：14.307）
Zhang RuiJie; Li Xia; Jiang YongShuai; Liu GuiYou; Li ChuanXing; Zhang Fan; et.al, Novel strategies to mine alcoholism-related haplotypes and genes by combining existing knowledge framework, Science China Life Sciences, 2009.2, 52(2): 163~172
Mathur, Deepali; Riffo-Campos, Angela L.; Castillo, Josefa; Haines, Jeffery D.; Vidaurre, Oscar G.; Zhang, Fan; et.al, Bioenergetic Failure in Rat Oligodendrocyte Progenitor Cells Treated with Cerebrospinal Fluid Derived from Multiple Sclerosis Patients, FRONTIERS IN CELLULAR NEUROSCIENCE, 2017.7.18, 11
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