UbiSite: incorporating two-layered machine learning method with substrate motifs to predict ubiquitin-conjugation site on lysines. - Chien-Hsun Huang; Min-Gang Su; Hui-Ju Kao; Jhih-Hua Jhong; Shun-Long Weng; Tzong-Yi Lee (BMC Syst. Biol., 2016)

dbPTM 2016: 10-year anniversary of a resource for post-translational modification of proteins. - Kai-Yao Huang; Min-Gang Su; Hui-Ju Kao; Yun-Chung Hsieh; Jhih-Hua Jhong; Kuang-Hao Cheng; Hsien-Da Huang; Tzong-Yi Lee (Nucleic Acids Res., 2016)

Identification of natural antimicrobial peptides from bacteria through metagenomic and metatranscriptomic analysis of high-throughput transcriptome data of Taiwanese oolong teas. - Kai-Yao Huang; Tzu-Hao Chang; Jhih-Hua Jhong; Yu-Hsiang Chi; Wen-Chi Li; Chien-Lung Chan; K. Robert Lai; Tzong-Yi Lee (BMC Syst. Biol., 2017)

dbAMP: an integrated resource for exploring antimicrobial peptides with functional activities and physicochemical properties on transcriptome and proteome data. - Jhih-Hua Jhong; Yu-Hsiang Chi; Wen-Chi Li; Tsai-Hsuan Lin; Kai-Yao Huang; Tzong-Yi Lee (Nucleic Acids Res., 2019)

Identifying anti-coronavirus peptides by incorporating different negative datasets and imbalanced learning strategies. - Yuxuan Pang; Zhuo Wang; Jhih-Hua Jhong; Tzong-Yi Lee (Briefings Bioinform., 2021)

AVPIden: a new scheme for identification and functional prediction of antiviral peptides based on machine learning approaches. - Yuxuan Pang; Lantian Yao; Jhih-Hua Jhong; Zhuo Wang; Tzong-Yi Lee (Briefings Bioinform., 2021)

UbiNet 2.0: a verified, classified, annotated and updated database of E3 ubiquitin ligase-substrate interactions. - Zhongyan Li; Siyu Chen; Jhih-Hua Jhong; Yuxuan Pang; Kai-Yao Huang; Shangfu Li; Tzong-Yi Lee (Database J. Biol. Databases Curation, 2021)

CircNet 2.0: an updated database for exploring circular RNA regulatory networks in cancers. - Yigang Chen 001; Lantian Yao; Yun Tang; Jhih-Hua Jhong; Jingting Wan; Jingyue Chang; Shi-Dong Cui; Yijun Luo; Xiao-Xuan Cai; Wenshuo Li; Qi Chen; Hsi-Yuan Huang; et al. (Nucleic Acids Res., 2022)

dbAMP 2.0: updated resource for antimicrobial peptides with an enhanced scanning method for genomic and proteomic data. - Jhih-Hua Jhong; Lantian Yao; Yuxuan Pang; Zhongyan Li; Chia-Ru Chung; Rulan Wang; Shangfu Li; Wenshuo Li; Mengqi Luo; Renfei Ma; Yuqi Huang; Xiaoning Zhu; et al. (Nucleic Acids Res., 2022)

dbPTM in 2022: an updated database for exploring regulatory networks and functional associations of protein post-translational modifications. - Zhongyan Li; Shangfu Li; Mengqi Luo; Jhih-Hua Jhong; Wenshuo Li; Lantian Yao; Yuxuan Pang; Zhuo Wang; Rulan Wang; Renfei Ma; Jinhan Yu; Yuqi Huang; et al. (Nucleic Acids Res., 2022)