Publications

Complete List on ‪Google Scholar

2025

1. D Chen*, A Isakova*, ZJ Wan, MJ Wagner, Y Wu, BS Zhao. Connectome-seq: High-throughput Mapping of Neuronal Connectivity at Single-Synapse Resolution via Barcode Sequencing. Nat. Methods, accepted. bioRxiv. https://doi.org/10.1101/2025.02.13.638129 (2025)

2024

1. S Fei*, ZW Fang*, BS Zhao. Unraveling the RNA Tapestry: A Symphony of Innovations in m6A Research Technology. Isr. J. Chem. 64, e202400014. https://doi.org/10.1002/ijch.202400014 (2024)

2023

1. BS Zhao#, & PR Chen#. Opening New Avenues in Bioorganic Chemistry: Prof. Chuan He Receives the Tetrahedron Prize. ACS Chem. Biol. 18, 10, 2097–2100 (2023).

Before coming to UIUC:

1.     BS Zhao, A Isakova, MJ Wagner, SR Quake, AY Ting, L Luo. Connectome-seq: sequencing the mammalian brain connectome using engineered protein and RNA. SciMeetings, https://doi.org/10.1021/scimeetings.3c10021 (2023).

2.     S Lee*, JS Cheah*, BS Zhao, C Xu, ND Udeshi, H Roh, C Kim, K Cho, SA Carr, AY Ting. Engineered light-regulated TurboID enables precise control of spatiotemporal proximity labeling in living cells. Nat. Methods, 20(6), 908-917 (2023).

3.     C He, BS Zhao, P Narkhede, C Liu, X Cui. Method for highly sensitive DNA methylation analysis. US Patent 11,130,991, (2021).

4.     S Han*, BS Zhao*, SA Myers, SA Carr, C He, AY Ting. RNA–protein interaction mapping via MS2- or Cas13-based APEX targeting. Proc. Natl. Acad. Sci. U.S.A., 117(36), 22068-22079 (2020).

5.     C Liu*, X Cui*, BS Zhao*, P Narkhede, Y Gao, J Liu, X Dou, Q Dai, L Zhang, C He. DNA 5-Methylcytosine-Specific Amplification and Sequencing. J. Am. Chem. Soc., 142(10), 4539-4543 (2020).

6.     M Lu, Z Zhang, M Xue, BS Zhao, O Harder, A Li, X Liang, T Gao, Y Xu, J Zhou, Z Feng, S Niewiesk, M Peeples, C He, J Li. N6-methyladenosine modification enables viral RNA to escape recognition by RNA sensor RIG-I, Nat. Microbiol., 5, 584–598 (2020)

7.     M Xue, BS Zhao, M Lu, Z Lu, Y Ma, O Harder, Y Yu, A Li, X Liang, Y Xu, S Niewiesk, M Peeples, C He, J Li. Viral N6-methyladenosine Promotes Replication of Human Respiratory Syncytial Virus by Enhancing Nucleocapsid-Mediated RNA Encapsidation, Nat. Comm., 10(1), 1-18 (2019).

8.     H Huang*, H Weng*, K Zhou*, T Wu*, BS Zhao*, M Sun, Z Chen, X Deng, G Xiao, F Auer, L Klemm, H Wu, Z Zuo, X Qin, Y Dong, Y Zhou, H Qin, S Tao, J Du, Z Lu, H Ying, A Mesquita, CL Yuan, YC Hu, W Sun, R Su, L Dong, C Shen, C Li, Y Qing, X Jiang, X Wu, J Guan, L Qu, M Müschen, M Wei, G Huang, C He, J Yang, J Chen. Histone H3 Trimethylation at Lysine 36 Guides m6A RNA Modification Co-transcriptionally, Nature, 567, 414–419 (2019).

9.     YT Zhao, DY Kwon, BS Johnson, M Fasolino, JM Lamonica, YJ Kim, BS Zhao, C He, G Vahedi, TH Kim, Z Zhou. Long Genes Linked to Autism Spectrum Disorders Harbor Broad Enhancer-Like Chromatin Domains. Genome Res., (2018).

10.  H Huang*, H Weng*, W Sun*, X Qin*, H Shi*, H Wu, BS Zhao, A Mesquita, C Liu, CL Yuan, YC Hu, S Hüttelmaier, JR Skibbe, R Su, L Dong, M Sun, C Li, S Nachtergaele, Y Wang, C Hu, K Ferchen, KD Greis, X Jiang, M Wei, L Qu, JL Guan, C He, J Yang, J Chen. Recognition of RNA N6-methyladenosine by IGF2BP Proteins Enhances mRNA Stability, Nat. Cell Biol.,20 (3), 285-295 (2018).

11.  BS Zhao, S Nachtergaele, IA Roundtree, C He. Our Views of Dynamic N6-methyladenosine RNA Methylation, RNA, 24 (3), 268-272 (2018).

12.  H Weng*, H Huang*, H Wu*, X Qin*, BS Zhao*, L Dong*, J Skibbe, C Hu, Y Wang, L Dore, R Su, K Ferchen, C Li, M Sun, Z Lu, X Jiang, M Wei, C He, J Chen. RNA Methyltransferase METTL14 Blocks Myeloid Differentiation and Promotes Leukemogenesis, Cell Stem Cell, 22 (2), 191-205 (2018).

13.  BS Zhao, C He. “Gamete on” for m6A: YTHDF2 Exerts Essential Functions in Female Fertility, Mol. Cell, 67 (6), 903-905 (2017).

14.  S Zhang, BS Zhao, A Zhou, K Lin, Y Chen, K Xie, O Bögler, S Majumder, Z Lu, C He, S Huang. The m6A Demethylase ALKBH5 Maintains Tumorigenicity of Glioblastoma Stem-Like Cells by Sustaining FOXM1 Expression and Cell Proliferation Program, Cancer Cell, 31 (4), 591-606 (2017).

15.  BS Zhao*, X Wang*, AC Beadell*, Z Lu, H Shi, RK Ho, C He. m6A-dependent Maternal mRNA Clearance Facilitates Maternal-to-Zygotic Transition in Zebrafish, Nature, 542 (7642), 475-478 (2017).

16.  L Ma, BS Zhao, K Chen, A Thomas, JH Tuteja, X He, C He, KP White. Evolution of Transcript Modification by N6-methyladenosine in Primates, Genome Res., 27 (3), 385-392 (2017).

17.  H Shi, X Wang, Z Lu, BS Zhao, H Ma, P Hsu, C Liu, C He. YTHDF3 Facilitates Translation and Decay of the N6-Methyladenosine-Modified RNA, Cell Res., 27 (3), 315-328 (2017).

18.  BS Zhao, IA Roundtree, C He. Post-Transcriptional Gene Regulation by the Messenger RNA Modification Marks, Nat. Rev. Mol. Cell Biol., 18, 31-42 (2017).

19.  H Huang*, H Weng*, X Qin*, BS Zhao, L Dore, J Strong, R Su, K Ferchen, C Li, L Dong, X Jiang, C He, J Chen. The N6-Adenine Methyltransferase METTL14 Plays an Oncogenic Role in Acute Myeloid Leukemia, Blood, 128 (22), 1536-1536 (2016).

20.  G Lichinchi*, BS Zhao*, Y Wu, Z Lu, Y Qin, C He, TM Rana. Dynamics of Human and Viral RNA Methylation during ZIKA Virus Infection, Cell Host Microbe, 20(5), 666-673 (2016).

21.  N Tirumuru*, BS Zhao*, Z Lu, C He, L Wu. YTHDF Proteins Bind to N6-methyladenosines of HIV-1 RNA and Regulate Viral Infection, Elife., 5:e15528 (2016).

22.  O Zahid, BS Zhao, C He, A Hall. Quantifying Mammalian Genomic DNA Hydroxymethylcytosine Content Using Solid-State Nanopores, Sci. Rep., 6:29565 (2016).

23.  K Chen, BS Zhao, C He. Nucleic Acid Modifications in Regulation of Gene Expression, Cell Chem. Biol., 23(1), 74-85 (2016).

24.  X Wang*, BS Zhao*, IA Roundtree, Z Lu, D Han, H Ma, X Weng, K Chen, H Shi, C He. N6-methyladenosine Modulates Messenger RNA Translation Efficiency, Cell, 161(6), 1388–1399 (2015).

25.  BS Zhao, C He. Fate by RNA Methylation: m6A Steers Stem Cell Pluripotency, Genome Biol., 16, 43 (2015).

26.  X Lu, BS Zhao, C He. TET Family Proteins: Oxidation Activity, Interacting Molecules, and Functions in Diseases, Chem. Rev., 115 (6), 2225–2239 (2015).

27.  X Lu*, D Han*, BS Zhao*, CX Song, LS Zhang, LC Doré, C He. Base-Resolution Maps of 5-Formylcytosine and 5-Carboxylcytosine Reveal Genome-Wide DNA Demethylation Dynamics, Cell Res., 25, 386–389 (2015).

28.  BS Zhao, C He. Pseudouridine in a New Era of RNA Modifications, Cell Res., 25, 153–154 (2015). 

29.  GC Hon, CX Song, T Du, F Jin, S Selvaraj, AY Lee, C Yen, Z Ye, SQ Mao, BA Wang, S Kuan, LE Edsall, BS Zhao, G Xu, C He, B Ren. 5mC Oxidation by Tet2 Modulates Enhancer Activity and Timing of Transcriptome Reprogramming During Differentiation. Mol. Cell, 56(2), 286-297 (2014).  

30.  Z Hao, H Lou, R Zhu, J Zhu, D Zhang, BS Zhao, S Zeng, X Chen, J Chan, C He, PR Chen. The Multiple Antibiotic Resistance Regulator MarR is a Copper Sensor in Escherichia coli, Nat. Chem. Biol., 10, 21-28 (2014).

31.  BS Zhao, G Zhang, S Zeng, C He, PR Chen. Probing Subcellular Organic Hydroperoxide Formation via a Genetically Encoded Ratiometric and Reversible Fluorescent Indicator, Integr. Biol., 5(12), 1485-1489 (2013).

32.  Q Ji*, BS Zhao*, C He. A Highly Sensitive Fluorescent Reporter for Ratiometric Monitoring of Cellular Quinones, Chem. Comm., 49(73), 8027-8029 (2013).

33.  J Wang, J Karpus, BS Zhao, Z Luo, PR Chen, C He. A Selective Fluorescent Probe for Carbon Monoxide Imaging in Living Cells, Angew. Chem. Int. Ed., 51 (38), 9652–9656 (2012). 

34.  BS Zhao, Y Liang, Y Song, C Zheng, Z Hao, PR Chen. A Highly Selective Fluorescent Probe for Visualization of Organic Hydroperoxides in Living Cells, J. Am. Chem. Soc., 132(48), 17065–17067 (2010). 

(*co-first authors, #co-coresponding authors)