# co-first author; * coresponding author.

2026

Jiansong Liu#, Shuo Wang#, Changyu Tao#, Haoyun Liu, Yutong Mao, Xinhui Zhao, Kaiqi Cheng, Guanqun Mu, Meng Wang, Weibin Wang, Ence Yang*, Jiadong Wang*, Yang Yang*. DDX1 crotonylation mediates ACOX1 alternative splicing through HNRNPK to increase peroxisomal oxidative damage. Free Radical Biology and Medicine, 2026.01.01, 242:549-567. (IF2024 8.2) [full text]

Longxuan Zhao*, Tao Wang, Xinlin Zhang, Yuanbin Chen, Ence Yang*, Tong Tong*. MTGT: Multiscale Text Feature-Guided Transformer in medical image segmentation. Image and Vision Computing, 2026.01, 165:105846. (IF2024 4.2) [full text]

2025

Yun Zhang#, Jianqi She#, Xueyan Hu, Yueqi Jin, Jiaming Zhao, Songyan Hou, Changyu Tao, Minghao Du, Ence Yang*. Transposable elements drive species-specific and tissue-specific transcriptomes in human development. Genome Biology, 2025.11.04, 26:379. (IF2024 9.4) [full text]

J. Wang#, C. Tao#, H. Liu, Y. Yang, Y. Zhao, K. Tan, F. Chen*, E. Yang*, Y. Huang*, W Li*. Single-cell atlas of immune microenvironment in orthodontic tooth movement. Journal of Dental Research, 2025.11.01, 104(12):1361-1372. (IF2024 5.9) [full text]

Chenhui Zhao#, Xueyan Hu#, Xiudong Guan#, Xiaojun Fu#, Tingting Wang#, Mengyuan Li, Xinze Liu, Jiarui Zhao, Di Wu, Fan Zhang, Jiaying Fu, Jiang Li, Tieqiang Zhang, Xiaochun Jiang*, Changxiang Yan*, Wang Jia*, Ence Yang*, Jian Chen*. Molecular landscape, subtypes, and therapeutic vulnerabilities of central nervous system solitary fibrous tumors. Nature Communications, 2025.08.23, 16:7870. (IF2024 15.7) [full text]

Di Wu#, Ying Cao#, Hongjie Chen#, Minghao Du, Tingting Wang, Jiarui Zhao, Mengyuan Li, Wenjing Wu, Huixuan Zhang, Ence Yang*, Jing Yang*, Jian Chen*. Common signatures of neutrophils in diverse disease conditions. Cell Discovery, 2025.08.01, 11:66. (IF2024 12.5). [full text]

Xueyan Hu#, Yun Zhang#, Juan Wang#, Minghao Du, Yang Yang*, James J. Cai*, Ence Yang*. Functional diversification of the MADS-box gene family in fine-tuning the dimorphic transition of Talaromyces marneffei. mSystems, 2025.06.03, 10(7):e00464-25. (IF2024 4.6) [full text]

Jingwei Zhang#, Yueqi Jin#, Haodong Lin, Jiaming Deng, Yan Ju, Xueyan Hu, Jianqi She, Zhijian Liang, Kongxu Dai, Mantang Qiu, Kunkun Sun, Jun Wang, Fan Yang*, Jian Chen*, Ence Yang*, Xiao Li*. Amplification of extrachromosomal MYC paralogs shapes immunosuppressive tumor microenvironment in small cell lung cancer. Clinical Cancer Research, 2025.04.29. (IF2024 10.2) [full text]

Meng Wang#, Guanqun Mu#, Bingquan Qiu#, Shuo Wang, Changyu Tao, Yutong Mao, Xinhui Zhao, Jiansong Liu, Keyu Chen, Ziyu Li, Weibin Wang, Ence Yang*, Yang Yang*. Competitive antagonism of KAT7 crotonylation against acetylation affects procentriole formation and colorectal tumorigenesis. Nature Communications, 2025.03.10, 16:2379. (IF2024 15.7) [full text]

Xueyan Hu, Minghao Du, Changyu Tao, Juan Wang, Yun Zhang, Yueqi Jin, Ence Yang*. Species-specific circular RNA circDS-1 enhances adaptive evolution in Talaromyces marneffei through regulation of dimorphic transition. PLoS Genetics, 2025.03.06, 21(3):e1011482. (IF2024 3.7) [full text]

2024

Xiaoyu Ruan, Yundong Xiong, Xiaoman Li*, Ence Yang*, Jiadong Wang*. Lower ratio of IMPDH1 to IMPDH2 sensitizes gliomas to chemotherapy. Cancer Gene Therapy, 2024.06.13, 31(7):1081-1089. (IF2024 5.0) [full text]

Minghao Du#, Changyu Tao#, Xueyan Hu, Yun Zhang, Jun Kan, Juan Wang, Ence Yang*. Unraveling the dynamic transcriptomic changes during the dimorhic transition of Talaromyces marneffei through time-course analysis. Frontiers in Microbiology, 2024.04.24, 15:1369349. (IF2024 4.5) [full text]

2023

Chen Nie#, Xiao Albert Zhou#, Jiadong Zhou, Zelin Liu, Yangyang Gu, Wanchang Liu, Jun Zhan, Shiwei Li, Yundong Xiong, Mei Zhou, Qinjian Shen, Weibin Wang, Ence Yang*, Jiadong Wang*. A transcription-independent mechanism determines rapid periodic fluctuations of BRCA1 expression. EMBO Journal, 2023.08.01, 42:e111951. (IF2023 9.4) [full text]

Guangyi He#, Maiyue Chen#, Yingnan Bian, Ence Yang*. MTM: a multi-task learning framework to predict individualized tissue gene expression profiles. Bioinformatics, 2023.06.05, 39(6):btad363. (IF2023 4.4) [full text]

Xueyan Hu, Jie Zhao, Junhui Zhao, Ence Yang*, Mozhi Jia*. Genome-wide liver transcriptomic profiling of a malaria mouse model reveals disturbed immune and metabolic responses. Parasites & Vectors, 2023.01.30, 16:40 (IF2023 3.0) [full text]

2022

Jianqi She#, Minghao Du#, Zhanzhan Xu, Yueqi Jin, Yu Li, Daoning Zhang, Changyu Tao, Jian Chen, Jiadong Wang, Ence Yang*. The landscape of hervRNAs transcribed from human endogenous retroviruses across human body sites. Genome Biology, 2022.11.03, 23:231. (IF2022 12.3) [full text]

Zelin Liu#, Huiru Ding#, Jianqi She, Chunhua Chen, Weiguang Zhang*, Ence Yang*. DEBKS: a tool to detect differentially expressed circular RNAs. Genomics, Proteomics & Bioinformatics, 2022.06.28, 22:549-556. (IF2022 9.5) [full text]

Zelin Liu, Ence Yang*. circFL-seq, a full-length circRNA sequencing method. Bio-Protocol, 2022.04.20, 12(8):e4384. (IF2022 0.8) [full text]

Xueyan Hu, Yun Zhang, Minghao Du, Ence Yang*. Efficient and specific DNA oligonucleotide rRNA probe-based rRNA removal in Talaromyces marneffei. Mycology, 2022.04.03, 13(2):106-118. (IF2022 4.2) [full text]

Guangyi He, Liming Xiao, Yingnan Bian*, Ence Yang*. (2022). Genome-wide feature selection of robust mRNA biomarkers for body fluid identification. In: Ying Tan, Yuhui Shi. (eds) Data Mining and Big Data. DMBD 2022. Communications in Computer and Information Science, vol 1745. Springer, Singapore.

2021

Zelin Liu, Changyu Tao, Shiwei Li, Minghao Du, Yongtai Bai, Xueyan Hu, Yu Li, Jian Chen, Ence Yang*. circFL-seq reveals full-length circular RNAs with rolling circular reverse transcription and nanopore sequencing. eLife, 2021.10.14, 10:e69457. (IF2021 8.7) [full text]

Xiangmei Zhang#*, Xueyan Hu#, Saad Jan, Syed Majid Rasheed, Yun Zhang, Minghao Du, Ence Yang. Development of CRISPR-Cas9 genome editing system in Talaromyces marneffei. Microbial Pathogenesis, 2021.05, 154:104822. (IF2021 3.8) [full text]

胡雪嫣, 张赟, 杨恩策, 杜明昊*. 真菌环状RNA鉴定及研究展望. 菌物学报, 40(9):2215-2222. // Xueyan Hu, Yun Zhang, Ence Yang, Minghao Du*. CircRNA in fungi: identification procedure and research perspective. Mycosystema, 2021.09.22, 40(9):2215-2222. [full text]

Before 2020

Zelin Liu, Yuan Ran, Changyu Tao, Sichen Li, Jian Chen, Ence Yang*. Detection of circular RNA expression and related quantitative trait loci in the human dorsolateral prefrontal cortex. Genome Biology, 2019.05.20, 20:99. (IF2019 10.8) [full text]

Qiangyi Wang, Minghao Du, Shuai Wang, Linxia Liu, Liming Xiao, Linqi Wang, Tong Li*, Hui Zhuang*, Ence Yang*. MADS-box transcription factor madsA regulates dimorphic transition, conidiation, and germination of Talaromyces marneffei. Frontiers in Microbiology, 2018.08.07, 9:1781. (IF2018 4.3) [full text]

Yizhang Zhu, Likun Wang, Yuxin Yin*, Ence Yang*. Systematic analysis of gene expression patterns associated with postmortem interval in human tissues. Scientific Reports, 2017.07.14, 7:5435. (IF2017 4.1) [full text]