22. N.M. Hiers, T. Li, C.M. Traugot and M. Xie. Target-directed microRNA degradation: Mechanisms, significance, and functional implications. WIREs RNA, 15(2):e1832. (2024).

21. Y. Wang, C.M. Traugot, J. Bubenik, T. Li, P. Sheng, N.M. Hiers, L. Li, P. Fernandez, J. Bian, M.S. Swanson and M. Xie. N6-methyladenosine in 7SK small nuclear RNA underlies RNA Polymerase II transcription regulation. Molecular Cell, 83 (21), 3818-3834 (2023).

20. M. Huang, H. Wang, C. Mackey, M.C. Chung, J. Guan, G. Zheng, A. Roy, M. Xie, C. Vulpe and X. Tang, YAP at the Crossroads of Biomechanics and Drug Resistance in Human Cancer. International Journal of Molecular Sciences, 24 (15), 12491 (2023).

19. C. Liang, M. Huang, M. Tanaka, S. Lightsey, M. Temples, S.E. Lepler, P. Sheng, W.P. Mann, A.E. Widener, D.W. Siemann, B. Sharma, M. Xie, Y. Dai, E. Phelps E, B. Zeng# and X. Tang#. Functional Interrogation of Ca2+ Signals in Human Cancer Cells In Vitro and Ex Vivo by Fluorescent Microscopy and Molecular Tools. Methods in Molecular Biology, 2679, 95-125 (2023).

18. T. Li, W. Zhang and M. Xie, Fluorescent in situ detection of RNA-Protein interactions in intact cells by RNA-PLA. Methods in Molecular Biology, 2666, 165-175 (2023).

17. P. Sheng*, L. Li*#, T. Li, Y. Wang, N.M. Hiers, J.S. Mejia, J.S. Sanchez, L. Zhou# and M. Xie#, Screening of Drosophila microRNA-degradation sequences reveals Argonaute1 mRNA’s role in regulating miR-999. Nature Communications, 14 (1), 2108 (2023).

16. C. Gobin, S. Inkabi, C.C. Lattimore, T. Gu, J.N. Menefee, M. Rodriguez, H. Kates, C.J. Fields, T. Bian, N. Silver, C. Xing, C. Yates, R. Renne, M. Xie and K.M. Fredenburg, Investigating miR-9 as a mediator in laryngeal cancer health disparities. Frontiers in Oncology, 13: 1096882, (2023).

15. M.D. Gibbons, Y. Fang, A.P. Spicola, N. Linzer, S.M. Jones, B.R. Johnson, L. Li, M. Xie and J. Bungert, Enhancer mediated formation of nuclear transcription initiation domains. International Journal of Molecular Sciences, 23 (16), 9290 (2022).

14. Y. Qi*, L. Ding*, M. Xie# and P. Du#, RDR1-mediated broad antitumor response: a novel strategy manipulating miRNAs as a powerful weapon. Life Medicine, lnac007 (2022).

13. C. Liang*, M. Huang*, T. Li*, L. Li*, H. Sussaman, Y. Dai, D. Siemann, M. Xie# and X. Tang#, Towards an Integrative Understanding of Cancer Mechanobiology: Calcium, YAP, and microRNA under Biophysical Forces. Soft Matter, 18 (6), 1112-1148 (2022).

12. C.J. Fields, L. Li, N.M. Hiers, T. Li, P. Sheng, T. Huda, J. Shan, L. Gay, T. Gu, J. Bian, M.S. Kilberg, R. Renne and M. Xie, Sequencing of Argonaute-bound microRNA/mRNA hybrids reveals regulation of the unfolded protein response by microRNA-320a. PLOS Genetics, 17 (12), e1009934 (2021).

11. T. Gu, M. Xie, W.B. Barbazuk and J.-H. Lee, Biological features between miRNAs and their targets are unveiled from deep learning models. Scientific Reports, 11 (1), 23825 (2021).

10. L. Li*, P. Sheng*, T. Li, C.J. Fields, N.M. Hiers, Y. Wang, J. Li, C.M. Guardia, J. D. Licht and M. Xie, Widespread microRNA degradation elements in target mRNAs can assist the encoded proteins. Genes & Development, 35 (23-24), 1595-1609 (2021).

9. M. Xie and J. Bungert, When Pol II sees red. Blood, 138 (18), 1648-1649 (2021).

8. D. Stribling*, Y. Lei*, C.M. Guardia*, L. Li, C.J. Fields, P. Nowialis, R. Opavsky, R. Renne# and M. Xie#, A non-canonical microRNA derived from the snaR-A non-coding RNA targets a metastasis inhibitor. RNA, 27 (6), 694-709 (2021).

7. A. Gurumurthy, D. Yu, J.R. Stees, P. Chamales, E. Gavrilova, P. Wassel, L. Li, D. Stribling, J. Chen,  M. Brackett, A. Ishov, M. Xie and J. Bungert, Super-enhancer mediated regulation of adult β-globin gene expression: the role of eRNA and Integrator. Nucleic Acids Research, 49 (3), 1383-1396 (2021).

6. M. Xie and M.S. Swanson, UTteR control through miRs: fine-tuning ATXN1 levels to prevent ataxia. Genes & Development, 34 (17-18), 1107-1109 (2020).

5. P. Sheng, K.A. Flood and M. Xie, Short hairpin RNAs for strand-specific small interfering RNA production. Frontiers in Bioengineering & Biotechnology, 8, 940  (2020).

4. P. Nowialis*, K. Lopusna*, J. Opavska, S.L. Haney, A. Abraham, P. Sheng, A. Riva, A. Natarajan, O. Guryanova, M.Simpson, R. Hlady, M. Xie and R. Opavsky, Catalytically inactive Dnmt3b rescues mouse embryonic development by accessory and repressive functions. Nature Communications, 10 (1), 4374 (2019).

3. C.J. Fields, P. Sheng, B.R. Miller, T. Wei and M. Xie, Northern blot with IR fluorescent probes: Strategies for probe preparation. Bio-protocol9 (8), e3219 (2019).

2. B.R. Miller*, T. Wei*, C.J. Fields, P. Sheng and M. Xie, Near-infrared fluorescent northern blot. RNA, 24 (12), 1871-1877 (2018).

1. P. ShengC.J. Fields, K. Aadland, T. Wei, O. Kolaczkowski, T. Gu, B. Kolaczkowski# and M. Xie#Dicer cleaves 5′-extended microRNA precursors originating from RNA Polymerase II transcription start sites. Nucleic Acids Research46 (11), 5737-5752 (2018).

(lab members are highlighted in bold)

Ming’s Postdoc Work

9. K.E. Hayes, J.A. Barr, M. Xie, J.A. Steitz and I. Martinez, Immunoprecipitation of Tri-methylated Capped RNA. Bio-protocol, 8 (3): e2717 (2018).

8. I. Martinez, K. Hayes, J. Barr, A. Harold, M. Xie, S.I.A. Bukhari, S. Vasudevan, J.A. Steitz and D. DiMaio, An Exportin-1-dependent microRNA biogenesis pathway during human cell quiescence. Proc. Natl. Acad. Sci. U.S.A. 114 (25), 4961-4970 (2017).

7. W. Zhang*, M. Xie*, M. Shu, J.A. Steitz and D. DiMaio, A proximity-dependent assay for specific RNA-protein interactions in intact cells. RNA, 22 (11), 1785-1792 (2016).

6. M. Xie, W. Zhang, M. Shu, A. Xu, D. Lenis, D. DiMaio and J.A. Steitz, The host Integrator complex acts in transcription-independent maturation of herpesvirus microRNA 3′ ends. Genes & Development, 29 (14), 1552-1564 (2015).

5. K.T. Tycowski*, Y.E. Guo*, N. Lee*, W.N. Moss*, T.K. Vallery*, M. Xie* and J.A. Steitz, Viral noncoding RNAs: more surprises. Genes & Development, 29 (6), 567-584 (2015).

4. M. Xie# and J.A. Steitz, Versatile microRNA biogenesis in animals and their viruses. RNA biology, 11 (6), 673-681 (2014).

3. M. Xie, M. Li, A.Vilborg, N. Lee, M. Shu, V. Yartseva, N. Sestan and J.A. Steitz, Mammalian 5′-capped microRNA precursors that generate a single microRNA. Cell, 155 (7), 1568-1580 (2013).

2. C. Qiao, J. Ma, J. Xu, M. Xie, W. Ma and Y. Huang, Drosha mediates destabilization of Lin28 mRNA targets. Cell Cycle, 11 (19), 3590-3598 (2012).

1. D. Cazalla, M. Xie and J.A. Steitz, A primate Herpesvirus uses the Integrator complex to generate viral microRNAs. Molecular Cell, 43 (6), 982-992 (2011).


8. A.F. Brown, J.D. Podlevsky, X. Qi, Y. Chen, M. Xie and J.J.-L. Chen, A self-regulating template in human telomerase. Proc. Natl. Acad. Sci. U.S.A. 111 (31), 11311-11316 (2014).

7.   X. Qi*, M. Xie*,  A.F. Brown*, C.J. Bley, J.D. Podlevsky and J.J.-L. Chen, RNA/DNA hybrid binding affinity determines telomerase template translocation efficiency. EMBO Journal, 31 (1), 150-161 (2012).

6. M. Xie, J.D. Podlevsky, X. Qi, C.J. Bley and J.J.-L. Chen, A novel motif in telomerase reverse transcriptase regulates telomere repeat addition rate and processivity. Nucleic Acids Research, 38 (6), 1982-1996 (2010).

5. M. Xie, A. Mosig, X. Qi, Y. Li, P.F. Stadler and J.J.-L. Chen, Structure and function of the smallest vertebrate telomerase RNA from teleost fish. Journal of Biological Chemistry, 283 (4), 2049-2059 (2008).

4. J.K. Alder, J.J.-L. Chen, L. Lancaster, S. Danoff, S.C. Su, M. Prince, I. Vulto, M. Xie, X. Qi, R.M. Tuder, J.A. Phillips, P.M. Lansdorp, J.E. Loyd, and M.Y. Armanios, Short telomeres are a risk factor for idiopathic pulmonary fibrosis. Proc. Natl. Acad. Sci. U.S.A. 105 (35), 13051-13056 (2008).

3. Y. Xiang, M. Xie, R. Bash, J.J.-L. Chen, and J. Wang, Ultrasensitive label-free aptamer-based electronic detection. Angew. Chem. Int. Ed., 46 (47), 9054-9056(2007).

2. M. Armanios, J.J.-L. Chen, W.E. Lawson, J.K. Alder, R.G. Ingersoll, C. Markin, M. Xie, J. Cogan, J.A. Philips III, P.M. Lansdorp, C.W. Greider and J.E. Loyd, Telomerase mutations in families with idiopathic pulmonary fibrosis.  New England Journal of Medicine, 356 (13), 1317-1326 (2007).

1.  C. Lin, M. Xie, J.J.-L. Chen, Y. Liu, and H. Yan, Rolling-circle amplification of a DNA nanojunction. Angew. Chem. Int. Ed., 45 (45), 7537-7539(2006).


3. X. Zhu, Z. Li, M. Xie, A. Song, and Y. Liu. [Effect of illumination through simulated forest gap on the germination of seed bank in Hexi subtropical rainforest in Nanjing, China. in Chinese] Journal of Xiamen University (Natural Sci.), 45,125-130 (2006).

2. J. Zheng, Y. Gao, Q. Wei, J. Ouyang, C. Tang and M. Xie, Optimization of cultivation technique for Ca-enriched Spirulina maxima. Journal of Jimei University (Natural Sci.), 9, 205-209(2004).

1. J. Zheng, Y. Gao, Q. Wei, J. Ouyang, C. Tang and M. Xie, [Distribution of calcium and changes of the major biochemical components in Spiraling maxima after the addition of CaCO3. in Chinese] Chinese Fishery Sciences, 11, 462-466(2004).

(* equal contribution, # corresponding author)