Yu received his PhD training from a virology lab led by Dr. Jin Zhong at Institut Pasteur of Shanghai, where he aquired solid knowledge in virology and immunology. He identified the lipid synthetase CH25H as an immune response effector, which expands the appreciation of lipid metabolism in the host antiviral immune response (Xiang et al, 2015, JVI). Yu firmly believe that modern biologists must be adept at experimentation as well as computation, then he joined Dr. Leng Han’s lab at UTHealth in 2016 for the training in bioinformatics. He has developed a computational pipeline to characterize alternative polyadenylation (APA) and revealed the important roles of APA in cancer development by analyzing The Cancer Genome Atlas (TCGA) dataset (Xiang et al., 2018, JNCI).
Yu is starting in the Diao lab as a postdoctoral fellow in Oct 2018. He will integrate his comprehensive skillsets in both experimental and computational biology to investigate the gene regulation mechanism that controls skeletal muscle regeneration and aging.
PUBLICATIONS (*co-first author)
1. Xiang, Y*., Ye, Y*., Lou, Y., Yang, Y., Cai, C., Zhang, Z., Mills, T., Chen, N.-Y., Kim, Y., Muge Ozguc, F. et al. (2018) Comprehensive Characterization of Alternative Polyadenylation in Human Cancer. JNCI: Journal of the National Cancer Institute, djx223-djx223.
2. Ye, Y., Xiang, Y., Ozguc, F.M., Kim, Y., Liu, C., Park, P.K., Hu, Q., Diao, L., Lou, Y., Lin, C. et al. (2017) The genomic landscape and pharmacogenomic interactions of circadian genes in cancer chronotherapy. Cell System. Accepted.
3. Zhao, N., Cao, J., Xu, L., Tang, Q., Dobrolecki, L.E., Lu, Y., Wang, X., Shi, Q., Xiang, Y., Wang, Y. et al. (2018) Pharmacological Targeting of MYC-Regulated IRE1α/XBP1 Pathway Suppresses MYC-Driven Breast Cancer. J. Clin. Invest. Accepted.
4. Gong, J*., Li, Y*., Liu, C.-j*., Xiang, Y*., Li, C., Ye, Y., Zhang, Z., Hawke, D.H., Park, P.K., Diao, L. et al. (2017) A Pan-cancer Analysis of the Expression and Clinical Relevance of Small Nucleolar RNAs in Human Cancer. Cell Reports, 21, 1968-1981.
5. Feng, J*., Xiang, Y*., Xia, S., Liu, H., Wang, J., Ozguc, F.M., Lei, L., Kong, R., Diao, L., He, C. et al. (2017) CircView: a visualization and exploration tool for circular RNAs. Briefings in Bioinformatics, bbx070-bbx070.
6. Gong, J., Liu, C., Liu, W., Xiang, Y., Diao, L., Guo, A.Y. and Han, L. (2017) LNCediting: a database for functional effects of RNA editing in lncRNAs. Nucleic Acids Res., 45, D79-D84.
7. Gong, J., Mei, S., Liu, C., Xiang, Y., Ye, Y., Zhang, Z., Feng, J., Liu, R., Diao, L., Guo, A.Y. et al. (2017) PancanQTL: systematic identification of cis-eQTLs and trans-eQTLs in 33 cancer types. Nucleic Acids Res., gkx861-gkx861.
8. Wang, J., Samuels, D., Zhao, S., Xiang, Y., Zhao, Y.-Y. and Guo, Y. (2017) Current Research on NonCoding Ribonucleic Acid (RNA). Genes, 8, 366.
9. Chen, C.A., Zhang, Y., Xiang, Y., Han, L. and Shyu, A.B. (2017) Antagonistic actions of two human Pan3 isoforms on global mRNA turnover. RNA, 23, 1404-1418.
10. Xia, S., Feng, J., Lei, L., Hu, J., Xia, L., Wang, J., Xiang, Y., Liu, L., Zhong, S., Han, L. et al. (2016) Comprehensive characterization of tissue-specific circular RNAs in the human and mouse genomes. Brief Bioinform.
11. Xiang, Y., Tang, J.J., Tao, W., Cao, X., Song, B.L. and Zhong, J. (2015) Identification of Cholesterol 25-Hydroxylase as a Novel Host Restriction Factor and a Part of the Primary Innate Immune Responses against Hepatitis C Virus Infection. J. Virol., 89, 6805-6816.
12. Du, M., Liu, J., Chen, X., Xie, Y., Yuan, C., Xiang, Y., Sun, B., Lan, K., Chen, M., James, S.J. et al. (2015) Casein kinase II controls TBK1/IRF3 activation in IFN response against viral infection. J. Immunol., 194, 4477-4488.
13. Lu, J., Xiang, Y., Tao, W., Li, Q., Wang, N., Gao, Y., Xiang, X., Xie, Q. and Zhong, J. (2014) A novel strategy to develop a robust infectious hepatitis C virus cell culture system directly from a clinical isolate. J. Virol., 88, 1484-1491.
14. Chen, W., Xu, Y., Li, H., Tao, W., Xiang, Y., Huang, B., Niu, J., Zhong, J. and Meng, G. (2014) HCV genomic RNA activates the NLRP3 inflammasome in human myeloid cells. PLoS One, 9, e84953.
15. Qi, Y., Xiang, Y*., Wang, J., Qi, Y., Li, J., Niu, J. and Zhong, J. (2013) Inhibition of hepatitis C virus infection by polyoxometalates. Antiviral Res., 100, 392-398.
16. Lu, J., Tao, W., Li, R., Xiang, Y., Zhang, N., Xiang, X., Xie, Q. and Zhong, J. (2013) Construction and characterization of infectious hepatitis C virus chimera containing structural proteins directly from genotype 1b clinical isolates. Virology, 443, 80-88.
17. Tao, W., Xu, C., Ding, Q., Li, R., Xiang, Y., Chung, J. and Zhong, J. (2009) A single point mutation in E2 enhances hepatitis C virus infectivity and alters lipoprotein association of viral particles. Virology, 395, 67-76.
Yu is starting in the Diao lab as a postdoctoral fellow in Oct 2018. He will integrate his comprehensive skillsets in both experimental and computational biology to investigate the gene regulation mechanism that controls skeletal muscle regeneration and aging.
PUBLICATIONS (*co-first author)
1. Xiang, Y*., Ye, Y*., Lou, Y., Yang, Y., Cai, C., Zhang, Z., Mills, T., Chen, N.-Y., Kim, Y., Muge Ozguc, F. et al. (2018) Comprehensive Characterization of Alternative Polyadenylation in Human Cancer. JNCI: Journal of the National Cancer Institute, djx223-djx223.
2. Ye, Y., Xiang, Y., Ozguc, F.M., Kim, Y., Liu, C., Park, P.K., Hu, Q., Diao, L., Lou, Y., Lin, C. et al. (2017) The genomic landscape and pharmacogenomic interactions of circadian genes in cancer chronotherapy. Cell System. Accepted.
3. Zhao, N., Cao, J., Xu, L., Tang, Q., Dobrolecki, L.E., Lu, Y., Wang, X., Shi, Q., Xiang, Y., Wang, Y. et al. (2018) Pharmacological Targeting of MYC-Regulated IRE1α/XBP1 Pathway Suppresses MYC-Driven Breast Cancer. J. Clin. Invest. Accepted.
4. Gong, J*., Li, Y*., Liu, C.-j*., Xiang, Y*., Li, C., Ye, Y., Zhang, Z., Hawke, D.H., Park, P.K., Diao, L. et al. (2017) A Pan-cancer Analysis of the Expression and Clinical Relevance of Small Nucleolar RNAs in Human Cancer. Cell Reports, 21, 1968-1981.
5. Feng, J*., Xiang, Y*., Xia, S., Liu, H., Wang, J., Ozguc, F.M., Lei, L., Kong, R., Diao, L., He, C. et al. (2017) CircView: a visualization and exploration tool for circular RNAs. Briefings in Bioinformatics, bbx070-bbx070.
6. Gong, J., Liu, C., Liu, W., Xiang, Y., Diao, L., Guo, A.Y. and Han, L. (2017) LNCediting: a database for functional effects of RNA editing in lncRNAs. Nucleic Acids Res., 45, D79-D84.
7. Gong, J., Mei, S., Liu, C., Xiang, Y., Ye, Y., Zhang, Z., Feng, J., Liu, R., Diao, L., Guo, A.Y. et al. (2017) PancanQTL: systematic identification of cis-eQTLs and trans-eQTLs in 33 cancer types. Nucleic Acids Res., gkx861-gkx861.
8. Wang, J., Samuels, D., Zhao, S., Xiang, Y., Zhao, Y.-Y. and Guo, Y. (2017) Current Research on NonCoding Ribonucleic Acid (RNA). Genes, 8, 366.
9. Chen, C.A., Zhang, Y., Xiang, Y., Han, L. and Shyu, A.B. (2017) Antagonistic actions of two human Pan3 isoforms on global mRNA turnover. RNA, 23, 1404-1418.
10. Xia, S., Feng, J., Lei, L., Hu, J., Xia, L., Wang, J., Xiang, Y., Liu, L., Zhong, S., Han, L. et al. (2016) Comprehensive characterization of tissue-specific circular RNAs in the human and mouse genomes. Brief Bioinform.
11. Xiang, Y., Tang, J.J., Tao, W., Cao, X., Song, B.L. and Zhong, J. (2015) Identification of Cholesterol 25-Hydroxylase as a Novel Host Restriction Factor and a Part of the Primary Innate Immune Responses against Hepatitis C Virus Infection. J. Virol., 89, 6805-6816.
12. Du, M., Liu, J., Chen, X., Xie, Y., Yuan, C., Xiang, Y., Sun, B., Lan, K., Chen, M., James, S.J. et al. (2015) Casein kinase II controls TBK1/IRF3 activation in IFN response against viral infection. J. Immunol., 194, 4477-4488.
13. Lu, J., Xiang, Y., Tao, W., Li, Q., Wang, N., Gao, Y., Xiang, X., Xie, Q. and Zhong, J. (2014) A novel strategy to develop a robust infectious hepatitis C virus cell culture system directly from a clinical isolate. J. Virol., 88, 1484-1491.
14. Chen, W., Xu, Y., Li, H., Tao, W., Xiang, Y., Huang, B., Niu, J., Zhong, J. and Meng, G. (2014) HCV genomic RNA activates the NLRP3 inflammasome in human myeloid cells. PLoS One, 9, e84953.
15. Qi, Y., Xiang, Y*., Wang, J., Qi, Y., Li, J., Niu, J. and Zhong, J. (2013) Inhibition of hepatitis C virus infection by polyoxometalates. Antiviral Res., 100, 392-398.
16. Lu, J., Tao, W., Li, R., Xiang, Y., Zhang, N., Xiang, X., Xie, Q. and Zhong, J. (2013) Construction and characterization of infectious hepatitis C virus chimera containing structural proteins directly from genotype 1b clinical isolates. Virology, 443, 80-88.
17. Tao, W., Xu, C., Ding, Q., Li, R., Xiang, Y., Chung, J. and Zhong, J. (2009) A single point mutation in E2 enhances hepatitis C virus infectivity and alters lipoprotein association of viral particles. Virology, 395, 67-76.