2023
Tianyu Lei#, Yue Chang#, Chao Yao, Hong Zhang (2023) A systematic evaluation of computational methods for predicting translated non-canonical ORFs from ribosome profiling data. Journal of Genetics and Genomics. doi: https://doi.org/10.1016/j.jgg.2023.08.010 [Full Text]
Yue Chang#, Tianyu Lei#, Hong Zhang (2023) PSite: inference of read-specific P-site offsets for ribosomal footprints. bioRxiv 2023.06.27.546788; doi: https://doi.org/10.1101/2023.06.27.546788
2022
Tianyu Lei#, Yue Chang#, Chao Yao, Hong Zhang (2022) A systematic evaluation revealed that detecting translated non-canonical ORFs from ribosome profiling data remains challenging. bioRxiv 2022.12.11.520003; doi: https://doi.org/10.1101/2022.12.11.520003
2021
Hu B#, Liu R#, Tang X#, Pan Y#, Wang M#, Tong Y#, Ye G#, Shen G#, Ying R#, Fu A, Li D, Zhao W, Peng J, Guo J, Men D, Yao X, Wang Y, Zhang H, Feng Z, Yu J, Chen L, Deng Z, Lu X, Zhang YP*, Li Y*, Liu B*, Yu L*, Li Y*, Lu J*, Liu T* (2021) The concordance between the evolutionary trend and the clinical manifestation of the two SARS-CoV-2 variants. National Science Review. nwab073. [Full Text]
Zhang H, Wang Y, Wu X, Tang X, Wu C, Lu J* (2021) Determinants of genome-wide distribution and evolution of uORFs in eukaryotes. Nature Communications. 12: 1076. [Full Text]
Zhang H#, Wang Y#, Tang X, Dou S, Sun Y, Zhang Q, Lu J* (2021) Combinatorial regulation of gene expression by uORFs and microRNAs in Drosophila. Science Bulletin. 66(3): 225–228. [Full Text]
2020
Tang X#, Wu C#, Li X#, Song Y#, Yao X, Wu X, Duan Y, Zhang H, Wang Y, Qian Z, Cui J*, Lu J* (2020) On the origin and continuing evolution of SARS-CoV-2. National Science Review 7(6): 1012–1023. [Full Text]
Luo S#, Zhang H#, Duan Y#, Yao X, Clark AG*, Lu J* (2020) The evolutionary arms race between transposable elements and piRNAs in Drosophila melanogaster. BMC Evolutionary Biology 20: 14. [Full Text]
2019
Zhang H#, Wang Y#, Lu J* (2019) Function and evolution of upstream ORFs in eukaryotes. Trends in Biochemical Sciences 44(9): 782–794. [Full Text]
Wang Y#, Zhang H#, Lu J* (2019) Recent advances in ribosome profiling for deciphering translational regulation. Methods 176: 46–54. [Full Text]
2018
Zhang H#, Wang Y#, Li J, Chen H, He X, Zhang HW, Liang H*, Lu J* (2018) Biosynthetic energy cost for amino acids decreases in cancer evolution. Nature Communications 9: 4124. [Full Text]
Zhang H#, Dou S#, He F, Luo J, Wei L, Lu J* (2018) Genome-wide maps of ribosomal occupancy provide insights into adaptive evolution and regulatory roles of uORFs during Drosophila development. PLoS Biology 16(7): e2003903. [Full Text]
Duan Y#, Dou S#, Zhang H#, Wu C, Wu M, Lu J* (2018) Linkage of A-to-I RNA editing in metazoans and the impact on genome evolution. Molecular Biology and Evolution 35(1): 132–148. [Full Text]
2017
Duan Y#, Dou S#, Luo S#, Zhang H, Lu J* (2017) Adaptation of A-to-I RNA editing in Drosophila. PLoS Genetics 13(3): e1006648. [Full Text]
2016
Wang Y, Luo J, Zhang H, Lu J* (2016) MicroRNAs in the same clusters evolve to coordinately regulate functionally related genes. Molecular Biology and Evolution 33(9): 2232–2247. [Full Text]
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