ZFIN Person: Xia, Xiao-Qin

ZFIN ID: ZDB-PERS-170209-2

ZFIN ID: ZDB-PERS-170209-2

Xia, Xiao-Qin

Email:	xqxia@ihb.ac.cn
URL:
Affiliation:	Aquatic Bioinformatics Lab
Address:	Institute of Hydrobiology, the Chinese Academy of Sciences No. 7 Donghu South Road Wuhan, 430072 China
Country:
Phone:	+86 27 68780915
Fax:	+86 27 68780915
ORCID ID:	0000-0002-8034-1096

BIOGRAPHY AND RESEARCH INTERESTS

2011 - Present, Professor, Aquatic Bioinformatics, Institute of Hydrobiology, the Chinese Academy of Sciences, China.
2009 - 2011, Bioinformatics Director, Vaccine Research Institute of San Diego, San Diego, USA.
2010 - 2011, Assistant Project Scientist Step II, University of California, Irvine, USA.
2004 - 2009, Director of Lechner-Haag Genomics Core, Sidney Kimmel Cancer Center, San Diego, USA.
2000 - 2003, Bioinformatics Research Associate, Centre for Communication Systems Research / Department of Genetics, University of Cambridge, Cambridge, UK.
1997 - 2000, Postdoctoral Research Fellow, Associate Professor, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China.
1992 - 1997, Ph.D., Hydrobiology, Institute of Hydrobiology, Chinese Academy of Sciences.
1988 - 1992, Microbiology & Immunology, Department of Biology, Wuhan University, China.

PUBLICATIONS

Zhao, X., Liu, Y., Xie, J., Zhang, L., Zhu, Q., Su, L., Guo, C., Li, H., Wang, G., Zhang, W., Cheng, Y., Wu, N., Xia, X.Q. (2023) The manipulation of cell suspensions from zebrafish intestinal mucosa contributes to understanding enteritis. Frontiers in immunology. 14:11939771193977

Guo, C., Ye, W., Shi, M., Duan, Y., Zhang, W., Cheng, Y., Xia, X.Q. (2023) FishSCT: a zebrafish-centric database for exploration and visualization of fish single-cell transcriptome. Science China. Life sciences. 66(9):2185-2188

Ouyang, G., Yuan, L., Xia, X.Q., Zhang, W., Shi, M. (2023) Transcriptomes of Zebrafish in Early Stages of Multiple Viral Invasions Reveal the Role of Sterols in Innate Immune Switch-On. International Journal of Molecular Sciences. 24(5):

Ye, W., Shi, M., Ren, K., Liu, Y., Duan, Y., Cheng, Y., Zhang, W., Xia, X.Q. (2022) Profiling the Spatial Expression Pattern and ceRNA Network of lncRNA, miRNA, and mRNA Associated with the Development of Intermuscular Bones in Zebrafish. Biology. 12(1):

Li, M., Zhao, X., Xie, J., Tong, X., Shan, J., Shi, M., Wang, G., Ye, W., Liu, Y., Unger, B.H., Cheng, Y., Zhang, W., Wu, N., Xia, X.Q. (2022) Dietary Inclusion of Seabuckthorn (Hippophae rhamnoides) Mitigates Foodborne Enteritis in Zebrafish Through the Gut-Liver Immune Axis. Frontiers in Physiology. 13:831226

Xie, J., Li, M., Ye, W., Shan, J., Zhao, X., Duan, Y., Liu, Y., Unger, B.H., Cheng, Y., Zhang, W., Wu, N., Xia, X.Q. (2021) Sinomenine Hydrochloride Ameliorates Fish Foodborne Enteritis via α7nAchR-Mediated Anti-Inflammatory Effect Whilst Altering Microbiota Composition. Frontiers in immunology. 12:766845

Wu, N., Xu, X., Wang, B., Li, X.M., Cheng, Y.Y., Li, M., Xia, X.Q., Zhang, Y.A. (2019) Anti-foodborne enteritis effect of galantamine potentially via acetylcholine anti-inflammatory pathway in fish. Fish & shellfish immunology. 97:204-215

Xia, H., Zhong, C., Wu, X., Chen, J., Tao, B., Xia, X., Shi, M., Zhu, Z., Trudeau, V.L., Hu, W. (2017) Mettl3 Mutation Disrupts Gamete Maturation and Reduces Fertility in Zebrafish.. Genetics. 208(2):729-743

NON-ZEBRAFISH PUBLICATIONS
[1] Zhang J, Zheng Y, Xia X-Q, Chen Q, Bade SA, Yoon K-J, Harmon KM, Gauger PC, Main RG, Li G. High-throughput whole genome sequencing of Porcine reproductive and respiratory syndrome virus from cell culture materials and clinical specimens using next-generation sequencing technology. Journal of Veterinary Diagnostic Investigation, 2017, 29(1):41-50.
[2] Clifton BD, Librado P, Yeh S-D, Solares E, Real D, Jayasekera S, Zhang W, Shi M, Park R, Magie R, Ma H-C, Xia X-Q, Marco A, Rozas J, Ranz JM. Rapid Functional And Sequence Differentiation of a Tandemly-Repeated Species-Specific Multigene Family in Drosophila. Molecular Biology and Evolution, 2017, 34:51-65.
[3] Wu N, Song Y-L, Wang B, Zhang X-Y, Zhang X-J, Wang Y-L, Cheng Y-Y, Chen D-D, Xia X-Q, Lu Y-S, Zhang Y-A. Fish gut-liver immunity during homeostasis or inflammation revealed by integrative transcriptome and proteome studies. Scientific Reports, 2016, 6:36048.
[4] Zhang N, Zhang X-J, Song Y-L, Lu X-B, Chen D-D, Xia X-Q, Sunyer JO Zhang Y-A. Preferential combination between the light and heavy chain isotypes of fish immunoglobulins. Developmental and Comparative Immunology, 2016, 61:169-179.
[5] 石米娟，程莹寅，张婉婷，夏晓勤*。浅析基因组大小的进化机制。科学通报, 2016, 61(30): 3188-3195.
[6] Yang H-J, Bogomolnaya LM, Elfenbein JR, Endicott-Yazdani T, Reynolds MM, Porwollik S, Cheng P, Xia X-Q, McClelland M, Andrews-Polymenis H. Novel two-step hierarchical screening of mutant pools reveals mutants under selection in chicks. Infection and Immunity, 2016, 84:1226-1238.
[7] Tang Q, Song Y, Shi M, Cheng Y, Zhang W, Xia XQ*. Inferring the hosts of coronavirus using dual statistical models based on nucleotide composition. Scientific Reports, 2015, 5:17155.
[8] Luo D, Liu Y, Chen J, Xia X, Cao M, Cheng B, Wang X, Gong W, Qiu C, Zhang Y, Cheng CHK, Zhu Z, Hu W. Direct production of XYDMY− sex reversal female medaka (Oryzias latipes) by embryo microinjection of TALENs. Scientific Reports, 2015, 5:14057.
[9] Wang Y, Lu Y, Zhang Y, Ning Z, Li Y, Zhao Q, Lu H, Huang R, Xia X, Feng Q, et al, Lin H, Han B, Zhu Z. The draft genome of the grass carp (Ctenopharyngodon idellus) provides insights into its evolution and vegetarian adaptation. Nature Genetics, 2015, 47:625-631.
[10] Datta S, Xia X-Q, Bhattacharjee S, Jia Z. Advances in statistical medicine. Computational and Mathematical Methods in Medicine, 2014, 2014:1-2 , doi:10.1155/2014/316153.
[11] Yeh SD, von Grotthuss M, Gandasetiawan KA, Jayasekera S, Xia X-Q, Chan C, Jayaswal V, Ranz JM. Functional Divergence of the miRNA Transcriptome at the Onset of Drosophila Metamorphosis. Molecular Biology and Evolution, 2014, 31(10): 2557-2572. doi:10.1093/molbev/msu195.
[12] Jia Z, Lilly MB, Koziol JA, Chen X, Xia X-Q, Wang Y, Skarecky D, Sutton M, Sawyers A, Ruckle H, Carpenter PM, Wang-Rodriguez J, Jiang J, Deng M, Pan C, Zhu J, McLaren CE, Gurley MJ, Lee C, McClelland M, Ahlering T, Kattan MW, Mercola D. Generation of “Virtual” Control Groups for Single Arm Prostate Cancer Adjuvant Trials. PLoS ONE. 2014, 9(1): e85010.
[13] Jia Z, Wang Y, Hu Y, McLaren C, Yu Y, Ye K, Xia X-Q, Koziol, Lernhardt W, McClelland M, Mercola D. A Sample Selection Strategy to Boost the Statistical Power of Signature Detection in Cancer Expression Profile Studies. Anti-Cancer Agents in Medicinal Chemistry. 2013, 13(2):203-211.
[14] Jia Z, Rahmatpanah F, Chen X, Lernhardt W, Wang Y, Xia X-Q, Sawyers A, McClelland M & Mercola D. Expression changes in the stroma of prostate cancer predict subsequent relapse. PLoS ONE. 2012, 7(8):e41371.
[15] Canals R, Xia X-Q, Fronick C, Clifton SW, Ahmer B, Andrews-Polymenis HL, Porwollik S & McClelland M. High-throughput comparison of gene fitness among related bacteria. BMC Genomics, 2012, 13:212.
[16] Díaz-Castillo C, Xia X-Q, Ranz JM. Evaluation of the Role of Functional Constraints on the Integrity of an Ultra-conserved Region in the Genus Drosophila. PLoS Genetics, 2012, 8(2): e1002475.
[17] Bie, L, Zhao G, Cheng P, Rondeau G, Porwollik S, Ju Y, Xia X-Q* & McClelland M*. The Accuracy of Survival Time Prediction for Patients with Glioma Is Improved by Measuring Mitotic Spindle Checkpoint Gene Expression. PLoS ONE, 2011, 6(10): e25631.
[18] Jia Z, Wang Y, Sawyers A, Yao H, Rahmatpanah F, Xia X-Q, Xu Q, Pio R, Turan T, Koziol J, Goodison S, Carpenter P, Wang-Rodriguez J, Simoneau A, Meyskens F, Sutton M, Lernhardt W, Beach T, McClelland M & Mercola D. Diagnosis of prostate cancer using differentially expressed genes in stroma. Cancer Research, 2011, 71(14):2476-2487.
[19] Xia X-Q*, McClelland M*, Wang Y*. TabSQL - a MySQL tools to facilitate data queries with public databases. BMC Bioinformatics, 2010, 11: 342.
[20] Wang Y#, Xia X-Q#, Jia Z#, Sawyers A, Yao H, Wang-Rodriquez J, Mercola D & McClelland M. In silico estimates of tissue components in surgical samples based on expression profiling data. Cancer Research, 2010, 70(16): 6448-6455.
[21] Xia X-Q*, McClelland M, Wang Y. PypeR, a Python package for using R in Python. Journal of Statistical Software, 2010, 35(Code Snippets 2): 1-8.
[22] Kucerova E, Clifton SW, Xia X-Q, Long F, Porwollik S, Fulton L, Fronick C, Minx P, Kyung K, Warren W, Fulton R, Feng D, Wollam A, Shah N, Bhonagiri V, Nash WE, Hallsworth-Pepin K, Wilson RK, McClelland M & Forsythe SJ. Genome sequence of Cronobacter sakazakii BAA-894 and Comparative Genomic Hybridization Analysis with Other Cronobacter Species. PLoS ONE, 2010, 5(3):e9556.
[23] Xia XQ* #, Jia Z#, Porwollik S, Long F, Hömme C, Ye K, Müller-Tidow C, McClelland M* & Wang Y*. Evaluating Oligonucleotide Probe Properties for DNA Microarray Probe Design. Nucleic Acid Research, 2010, 38(11): e121. doi: 10.1093/nar/gkq039.
[24] Xia X-Q*, McClelland M*, Porwollik S, Song W, Cong X & Wang Y*. WebArrayDB: cross-platform microarray data analysis and public data repository. Bioinformatics, 2009, 25(18): 2425 – 2429.
[25] Wang Y, McClelland M & Xia X-Q*. Analyzing microarray data using WebArray. Cold Spring Harbor Protocols, 2009, 4(8), doi:10.1101/pdb.prot5260.
[26] Tang Y, Akbulut H, Maynard J, Petersen L, Fang X, Zhang WW, Xia X-Q, Koziol J, Linton PJ & Deisseroth A. Vector Prime/Protein Boost Vaccine That Overcomes Defects Acquired during Aging and Cancer. Journal of Immunology, 2006, 177: 5697 - 5707.
[27] Xia X-Q, McClelland M & Wang Y. WebArray: an online platform for microarray data analysis. BMC Bioinformatics, 2005, 6(1): 306.
[28] Xia X-Q & Wise M. DiMSim: a discrete-event simulator of metabolic networks. Journal of Chemical Information and Computer Science, 2003, 43:1011-1019.