Xi Zeng-College of Informatics

Associate Professor in Bioinformatics/Biomedical Sciences

Institute

College of Informatics, Huazhong Agricultural University

Address

Shizishan Street 1#, Wuhan 430070, P. R. China

Email

zengxi@mail.hzau.edu.cn

Research Interest

1. Virus/Bacterial integration in the host genome and human diseases

2. Bioinformatics software/pipeline development

External links

Publons: https://publons.com/researcher/4276611/xi-zeng

Education & academic appointments

12/2018-present	Associate Professor, College of Informatics,Huazhong Agricultural University, Wuhan, China
08/2018-12/2018	Research Associate/Postdoc., School of Biomedical Sciences, The Chinese of University of Hong Kong, Hong Kong, China
07/2011-10/2014	Bioinformatics Analyst, BGI-shenzhen, Shenzhen, China
11/2014-07/2018	Ph.D. in Biomedical Sciences, School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong, China
09/2012-08/2014	MSc in Bioinformatics & Genomics, School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong, China
09/2007-07/2011	Bachelor in Bioinformatics, Department of Bioinformatics, Hunan Agricultural University, Changsha, China

Third-party funding

01/2020-12/2022

National Natural Science Foundation of China (NSFC) grant (31900479): Study HPV integration-mediated cervical carcinogenesis using multi-omics approach (250,000RMB)

01/2019-12/2021

Independent innovation fund of Huazhong Agricultural University (2662019QD019): Regulation of Host Genome Methylation and Expression during HIV Infection of T Lymphocytes (200,000RMB)

Selected publications

(# for co-first authors; * for corresponding authors)

1. Zeng X#, Wang Y#, Liu B#, Rao X#, Cao C, Peng F, Zhi W, Wu P, Peng T, Wei Y, Chu T, Xu Y, Ding W, LI G, Lin S*, Wu P*: Multi-omics data reveals novel impacts of human papillomavirus integration on the epigenomic and transcriptomic signatures of cervical tumorigenesis. Journal of Medical Virology. 2023, 95:e28789. (IF=20.69)

2. Du Q#, Peng F#, Xiong Q#, Xu K, Yang KY, Wang M, Wu Z, Li S, Cheng X, Rao X, Wang Y, Tsui SKW, Zeng X*: Genomic Analysis of Amphioxus Reveals a Wide Range of Fragments Homologous to Viral Sequences. Viruses. 2023, 15(4):909. (IF=5.808)

3. Zhao L#, Wang Y#, Tian T#, Rao X#, Dong W, Zhang J, Yang Y, Tao Q, Peng F, Shen C, Wang S, Liu H, Zeng X*, Zhou W*: Analysis of viral integration reveals new insights of oncogenic mechanism in HBV-infected intrahepatic cholangiocarcinoma and combined hepatocellular-cholangiocarcinoma, Hepatology International. 2022, 16(6):1339-1352. (IF= 9.046)

4. Meng Y#*, Lin S#, Zhou Y#, Yi X#, Wu P, Zhang Q, Ge W, Cao C, Gao P, Zhi W, Peng T, Wei J, Ding W, Ma D, Li G, Yang Q*, Guo T*, Zeng X*, Wu P*: RAB2A promotes cervical cancer progression as revealed by comprehensive analysis of HPV integration and proteome in longitudinal cervical samples. Clinical and Translational Medicine. 2022, Mar:e767. (IF=11.492)

5. Zeng X*, Zhao L*, Shen C, Zhou Y, Li G, Sung WK: HIVID2: an accurate tool to detect virus integrations in the host genome. Bioinformatics. 2021, 37(13):1821-7. (IF=6.931)

6. Rajaby R, Zhou Y, Meng Y, Zeng X, Li G, Wu P*, Sung WK*: SurVirus: a repeat-aware virus integration caller. Nucleic Acids Research. 2021, 49(6):e33. (IF=19.160)

7. Zeng X, Tsui JC, Shi M, Peng J, Cao CY, Kan LL, Lau CP, Liang Y, Wang L, Liu L, Chen Z, Tsui SKW*; Genome-Wide Characterization of Host Transcriptional and Epigenetic Alterations During HIV Infection of T Lymphocytes. Frontiers in Immunology. 2020, 11:2131. (IF=8.787)

8. Zeng X, Kwok JS, Yang KY, Leung KS, Shi M, Yang Z, Yam WC, Tsui SKW*: Whole genome sequencing data of 1110 Mycobacterium tuberculosis isolates identifies insertions and deletions associated with drug resistance. BMC Genomics, 2018, 19:365. (IF=3.969)

9. Zhao L#, Liu X#, Yan HX#, Li W#, Zeng X#, Yang Y#, Zhao J, Liu S, Zhuang X, Lin C, Qin CJ, Zhao Y, Pan ZY, Huang G, Liu H, Zhang J, Wang RY, Yang Y, Wen W, Lv GS, Zhang HL, Wu H, Huang S, Wang MD, Tang L, Cao HZ, Wang L, Lee TL, Jiang H, Tan YX, Yuan SX, Hou GJ, Tao Q, Xu QG, Zhang X, Wu MC, Xu X, Wang J, Yang H*, Zhou WP*, Wang HY*. Genomic and Oncogenic Preference of HBV Integration in Hepatocellular Carcinoma [J]. Nature Communications. 2016;7:12992.(IF=17.694)

10. Hu Z, Zhu D, Wang W, Li W, Jia W, Zeng X, Xu X, Wang H, Ma D: Reply to Artifacts in the data of Hu et al. Nature Genetics, 2016, 48:3-4. (IF=41.376)

11. Hu Z#, Zhu D#, Wang W#, Li W#, Jia W#, Zeng X#, Ding W, Yu L, Wang X, Wang L, Shen H, Zhang C, Liu H, Liu X, Zhao Y, Fang X, Li S, Chen W, Tang T, Fu A, Wang Z, Chen G, Gao Q, Li S, Xi L, Wang C, Liao S, Ma X, Wu P, Li K, Wang S, Zhou J, Wang J, Xu X*, Wang H*, Ma D*. Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism [J]. Nature Genetics. 2015, 47:158-163. (IF=41.376)

12. Liu XY#, Yang KY#, Wang MQ#, Kwok JS, Zeng X, Yang Z, Xiao XJ, Lau CP, Li Y, Huang ZM, Ba JG, Yim AKY, Quyang CY, Ngai SM, Chan TF, Leung ELH, Liu L, Liu ZG*, Tsui SK*: High-quality assembly of Dermatophagoides pteronyssinus genome and transcriptome reveals a wide range of novel allergens. Journal of Allergy and Clinical Immunology. 2018, 141:2268-2271 e2268. (IF=14.290)

13. Wang T#, Zeng X#, Li W#, Zhu H#, Wang G#, Liu X, Lv Y, Wu J, Zhuang X, Zhang J, Zhao Y, Huang H, Fan J, Yao Q, He C, Zhang X, Huang C, Chen J*, Wang L*. Detection and analysis of human papillomavirus (HPV) DNA in breast cancer patients by an effective method of HPV capture. PLoS One. 2014, 9:e90343. (IF=3.24)

14. Li W#, Zeng X#, Lee NP#, Liu X, Chen S, Guo B, Yi S, Zhuang X, Chen F, Wang G, Poon RT, Fan ST, Mao M, Li Y, Li S, Wang J, Wang J, Xu X*, Jiang H*, Zhang X*. HIVID: an efficient method to detect HBV integration using low coverage sequencing. Genomics. 2013, 102:338-344. (IF=5.736)

15. Yang Z, Wang M, Zeng X, Wan AT, Tsui SK*: In silico analysis of proteins and microRNAs related to human African trypanosomiasis in tsetse fly. Computational Biology and Chemistry. 2020, 88:107347. (IF=2.877)

16. Yang Z, Zeng X, Tsui SK*: Investigating function roles of hypothetical proteins encoded by the Mycobacterium tuberculosis H37Rv genome. BMC Genomics. 2019, 20:394. (IF=3.969)