# Co-first author. * Corresponding author.
1. Zhang M#, Li K#, Bai J#, Van Damme R, Zhang W, Alba M, Stiles BL, Chen JF and Lu Z*. snoRNA-guided tRNA 2’-O-methylation controls codon-biased gene expression and cellular states.Proceedings of the National Academy of Sciences. 2023. in press.
2. Lee WH, Zhang M and Lu Z*. Integrated analysis of crosslink-ligation data for the detection of RNA 2D/3D conformations in vivo. Methods in Molecular Biology. 2023. in press.
3. Zhang M# Hwang I#, Li K, Bai J, Chen J, Weismann T, Zou J, Lu Z*. Classification and clustering of RNA crosslink-ligation data reveal complex structures and homodimers. Genome Research. 2022 May;32(5):968-985.
4. Damme R#, Li K#, Zhang M#, Bai J, Lee W, Yesselman J, Lu Z*, Velema W*. Chemical Reversible Crosslinking Enables Measurement of RNA 3D Distances and Alternative Conformations in Cells. Nature Communications. 2022 Feb 17;13(1):911. (Recommended article in Faculty Opinions by Dr. Janusz Bujnicki)
5. Zhang M#, Li K#, Bai J#, Velema W, Yu C, Damme R, Lee W, Corpuz M, Chen J, Lu Z*. Optimized photochemistry enables efficient analysis of dynamic RNA structuromes and interactomes in genetic and infectious diseases. Nature Communications. 2021 Apr 20;12(1):2344.
6. Li T, Liu J, Feng J, Liu Z, Liu S, Zhang M, Zhang Y, Hou Y, Wu D, Li C, Chen Y, Chen H, Lu X*. Variation in the life history strategy underlies functional diversity of tumors. National Science Review. 2020 Jun 5;8(2):nwaa124.
7. Chen X, Zhang M, Gan H, Wang H, Lee J, Fang D, Kitange G, He L, Hu Z, Parney I, Meyer F, Giannini C, Sarkaria J, Zhang Z*. A novel enhancer regulates MGMT expression and promotes temozolomide resistance in glioblastoma. Nature Communications. 2018 Jul 27;9(1):2949.
8. Zhang M#, Wang L#, An K#, Cai J, Li G, Yang C, Liu H, Du F, Han X, Zhang Z, Zhao Z, Pei D, Long Y, Xie X, Zhou Q, Sun Y*. Increased Lower genomic stability of induced pluripotent stem cells reflects increased non‐homologous end joining. Cancer Communications. 2018 Jul 25;38(1):49.
9. Li G#, Zhang M#, Chen H, An K, Liu Z, Du F, Yang C, Han X, Jin L, Li H, Zhang Y, Qiao J*, Sun Y*. Deep pedigree analysis reveals family specific ′′fingerprint″ pattern of DNA methylation for men. Science Bulletin. 2018. 63(2018):7-10.
10. Han X#, Zhao Z#, Zhang M#, Li G, Yang C, Du F, Wang J, Zhang Y, Wang Y, Jia Y, Li B, Sun Y*. Maternal trans-general analysis of the human mitochondrial DNA pattern. Biochemical and Biophysical Research Communications. 2017. 493(1):643-649.
11. An K#, Du F#, Meng H#, Li G, Zhang M, Liu Z, Zhao Z, Zhang Z, Yu D, Wang D, Yang C, Ma W, Yuan Li, Zhou M, Duan L, Jin L, Li H, Zhang Y, Qiao J*, Sun Y*. Transgenerational analysis of H3K4me3 and H3K27me3 by ChIP-Seq links epigenetic inheritance to metabolism. Journal of Genetics and Genomics. 2017. S1673-8527(17)30197 -2.
12. Zhang M#, Wang C#, Yang C#, Meng H, Agbagwa I, Wang L, Wang Y, Yan S, Ren S, Sun Y, Pei G, Liu X, Liu J, Jin L, Li H*, Sun Y*. Epigenetic Pattern on the Human Y Chromosome is Evolutionarily Conserved. PLoS ONE. 2016. 11(1):e0146402.
13. Shu J#, Zhang K#, Zhang M#, Yao A, Shao S, Du F, Yang C, Chen W, Wu C, Yang W, Sun Y*, Deng H*. GATA Family Members as Inducers for Cellular Reprogramming to Pluripotency. Cell Research. 2015, 25(2):169-180.
14. Yao L#, Ren S#, Zhang M#, Du F, Zhu Y, Yu H, Zhang C, Li X, Yang C, Liu H, Wang D, Meng H, Chang S, Han X, Sun Y*. Identification of specific DNA methylation sites on the Y-chromosome as biomarker in prostate cancer. Oncotarget. 2015, 6(38):40611-40621.
15. Du F, Zhang M, Li X, Yang C, Meng H, Wang D, Chang S, Xu Y, Brendan P, Sun Y*. Dimer monomer transition and dimer re-formation play important role for ATM cellular function during DNA repair. Biochemical and Biophysical Research Communications. 2014, 452(4):1034-1039.
16. Zhang M, Yang C, Liu H, Sun Y*. Induced Pluripotent Stem Cells Are Sensitive to DNA Damage. Genomics, Proteomics & Bioinformatics. 2013, 11(5): 320-326.