Hsi-Yuan Huang

26 papers A 1C 4Journal 20Unranked 1
YearRankTypeTitle / Venue / Authors
2025 J jnl
DeepADR: multimodal prediction of adverse drug reaction frequency by integrating early-stage drug discovery information via Kolmogorov-Arnold networks.
Briefings Bioinform.
Jingting Wan, Chenyang Jia, Danhong Dong, Yigang Chen, Yang-Chi-Dung Lin, Yisheng He, Hsi-Yuan Huang, Hsien-Da Huang
2025 C conf
Integrative Framework for Functional analysis of multiple Traditional Chinese Medicines based on transcriptome-driven systems biology and supervised learning strategy.
CIBCB
Yun Tang, Chia-Ru Chung, Hsi-Yuan Huang, Yang-Chi-Dung Lin, Hua-Li Zuo, Jing Li, Liping Li, Siyao Hu, Hsiao-Chin Hong, Fei Wang, Jinrui Bai, Hsien-Da Huang
2025 J jnl
SCOPE-DTI: Semi-Inductive Dataset Construction and Framework Optimization for Practical Usability Enhancement in Deep Learning-Based Drug Target Interaction Prediction.
CoRR
Yigang Chen, Xiang Ji, Ziyue Zhang, Yuming Zhou, Yang-Chi-Dung Lin, Hsi-Yuan Huang, Tao Zhang, Yi Lai, Ke Chen, Chang Su, Xingqiao Lin, Zihao Zhu, Yanggyi Zhang, Kangping Wei, Jiehui Fu, Yixian Huang, Shi-Dong Cui, Shih-Chung Yen, Ariel Warshel, Hsien-Da Huang
2024 — conf
DeepDrugmiR: a two-stage deep learning method for inferring small molecules' regulatory effects on microRNA expression.
BCB
Yixian Huang, Huacong Wu, Ying Cai, Danhong Dong, Sicong Yu, Yigang Chen, Zihao Zhu, Yang-Chi-Dung Lin, Hsien-Da Huang, Hsi-Yuan Huang
2024 J jnl
DrugRepoBank: a comprehensive database and discovery platform for accelerating drug repositioning.
Database J. Biol. Databases Curation
Yixian Huang, Danhong Dong, Wenyang Zhang, Ruiting Wang, Yang-Chi-Dung Lin, Hua-Li Zuo, Hsi-Yuan Huang, Hsien-Da Huang
2023 J jnl
Extraction of microRNA-target interaction sentences from biomedical literature by deep learning approach.
Briefings Bioinform.
Mengqi Luo, Shangfu Li, Yuxuan Pang, Lantian Yao, Renfei Ma, Hsi-Yuan Huang, Hsien-Da Huang, Tzong-Yi Lee
2023 J jnl
Quantitative model for genome-wide cyclic AMP receptor protein binding site identification and characteristic analysis.
Briefings Bioinform.
Yigang Chen, Yang-Chi-Dung Lin, Yijun Luo, Xiao-Xuan Cai, Peng Qiu, Shi-Dong Cui, Zhe Wang, Hsi-Yuan Huang, Hsien-Da Huang
2022 J jnl
CircNet 2.0: an updated database for exploring circular RNA regulatory networks in cancers.
Nucleic Acids Res.
Yigang Chen, 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, Zhuo Wang, Weiming Chen, Tzu-Hao Chang, Feng-Xiang Wei, Tzong-Yi Lee, Hsien-Da Huang
2022 J jnl
miRTarBase update 2022: an informative resource for experimentally validated miRNA-target interactions.
Nucleic Acids Res.
Hsi-Yuan Huang, Yang-Chi-Dung Lin, Shi-Dong Cui, Yixian Huang, Yun Tang, Jia-Tong Xu, Jiayang Bao, Yulin Li, Jia Wen, Hua-Li Zuo, Weijuan Wang, Jing Li, Jie Ni, Yini Ruan, Liping Li, Yidan Chen, Yue-Yang Xie, Zihao Zhu, Xiao-Xuan Cai, Xin-Yi Chen, Lantian Yao, Yigang Chen, Yijun Luo, Shupeng Luxu, Mengqi Luo, Chih-Min Chiu, Kun Ma, Lizhe Zhu, Gui-Juan Cheng, Chen Bai, Ying-Chih Chiang, Liping Wang, Feng-Xiang Wei, Tzong-Yi Lee, Hsien-Da Huang
2021 J jnl
MethHC 2.0: information repository of DNA methylation and gene expression in human cancer.
Nucleic Acids Res.
Hsi-Yuan Huang, Jing Li, Yun Tang, Yixian Huang, Yigang Chen, Yue-Yang Xie, Zhe-Yuan Zhou, Xin-Yi Chen, Si-Yuan Ding, Meng-Fan Luo, Chen-Nan Jin, Le-Shan Zhao, Jia-Tong Xu, Ying Zhou, Yang-Chi-Dung Lin, Hsiao-Chin Hong, Hua-Li Zuo, Si-Yao Hu, Pei-Yi Xu, Xin Li, Hsien-Da Huang
2020 J jnl
Multi-omics profiling reveals microRNA-mediated insulin signaling networks.
BMC Bioinform.
Yang-Chi-Dung Lin, Hsi-Yuan Huang, Sirjana Shrestha, Chih-Hung Chou, Yen-Hua Chen, Chi-Ru Chen, Hsiao-Chin Hong, Jing Li, Yi-An Chang, Men-Yee Chiew, Ya-Rong Huang, Siang-Jyun Tu, Ting-Hsuan Sun, Shun-Long Weng, Ching-Ping Tseng, Hsien-Da Huang
2020 J jnl
miRTarBase 2020: updates to the experimentally validated microRNA?target interaction database.
Nucleic Acids Res.
Hsi-Yuan Huang, Yang-Chi-Dung Lin, Jing Li, Kai-Yao Huang, Sirjana Shrestha, Hsiao-Chin Hong, Yun Tang, Yigang Chen, Chen-Nan Jin, Yuan Yu, Jia-Tong Xu, Yue-Ming Li, Xiao-Xuan Cai, Zhen-Yu Zhou, Xiao-Hang Chen, Yuan-Yuan Pei, Liang Hu, Jin-Jiang Su, Shi-Dong Cui, Fei Wang, Yue-Yang Xie, Si-Yuan Ding, Meng-Fan Luo, Chih-Hung Chou, Nai-Wen Chang, Kai-Wen Chen, Yu-Hsiang Cheng, Xin-Hong Wan, Wen-Lian Hsu, Tzong-Yi Lee, Feng-Xiang Wei, Hsien-Da Huang
2018 C conf
Mutation Analysis of Second Primary Tumors in the Head and Neck Cancer by Next Generation Sequencing.
BIBE
Ting-Yuan Liu, Chien-Chin Lee, Hsi-Yuan Huang, Jan-Gowth Chang
2018 J jnl
The aquatic animals' transcriptome resource for comparative functional analysis.
BMC Genom.
Chih-Hung Chou, Hsi-Yuan Huang, Wei-Chih Huang, Sheng-Da Hsu, Chung-Der Hsiao, Chia-Yu Liu, Yu-Hung Chen, Yu-Chen Liu, Wei-Yun Huang, Meng-Lin Lee, Yi-Chang Chen, Hsien-Da Huang
2017 J jnl
Semiconductor Supply Chain Planning With Decisions of Decoupling Point and VMI Scenario.
IEEE Trans. Syst. Man Cybern. Syst.
Mu-Chen Chen, Yu-Hsiang Hsiao, Hsi-Yuan Huang
2016 C conf
An Integrative Analysis for Cancer Studies.
BIBE
Hsi-Yuan Huang, Chien-Yu Lin, Chin-An Yang, Cheng-Mao Ho, Ya-Sian Chang, Jan-Gowth Chang
2016 C conf
Establish Reporting Format of Gene Related Rare-Diseases by Exome Sequencing in the Clinical Medical Laboratory.
BIBE
Cheng-Mao Ho, Hsi-Yuan Huang, Chin-An Yang, Ya-Sian Chang, Chien-Yu Lin, Jan-Gowth Chang
2015 J jnl
Integrated analyses to reconstruct microRNA-mediated regulatory networks in mouse liver using high-throughput profiling.
BMC Genom.
Sheng-Da Hsu, Hsi-Yuan Huang, Chih-Hung Chou, Yi-Ming Sun, Ming-Ta Hsu, Ann-Ping Tsou
2015 J jnl
MethHC: a database of DNA methylation and gene expression in human cancer.
Nucleic Acids Res.
Wei-Yun Huang, Sheng-Da Hsu, Hsi-Yuan Huang, Yi-Ming Sun, Chih-Hung Chou, Shun-Long Weng, Hsien-Da Huang
2014 J jnl
miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions.
Nucleic Acids Res.
Sheng-Da Hsu, Yu-Ting Tseng, Sirjana Shrestha, Yu-Ling Lin, Anas Khaleel, Chih-Hung Chou, Chao-Fang Chu, Hsi-Yuan Huang, Ching-Min Lin, Shu-Yi Ho, Ting-Yan Jian, Feng-Mao Lin, Tzu-Hao Chang, Shun-Long Weng, Kuang-Wen Liao, I-En Liao, Chun-Chi Liu, Hsien-Da Huang
2013 J jnl
An enhanced computational platform for investigating the roles of regulatory RNA and for identifying functional RNA motifs.
BMC Bioinform.
Tzu-Hao Chang, Hsi-Yuan Huang, Justin Bo-Kai Hsu, Shun-Long Weng, Jorng-Tzong Horng, Hsien-Da Huang
2009 J jnl
sRNAMap: genomic maps for small non-coding RNAs, their regulators and their targets in microbial genomes.
Nucleic Acids Res.
Hsi-Yuan Huang, Heng-Yi Chang, Chih-Hung Chou, Ching-Ping Tseng, Shinn-Ying Ho, Chi-Dung Yang, Yih-Wei Ju, Hsien-Da Huang
2007 J jnl
Primer design for multiplex PCR using a genetic algorithm.
Soft Comput.
Li-Cheng Wu, Jorng-Tzong Horng, Hsi-Yuan Huang, Feng-Mao Lin, Hsien-Da Huang, Meng-Feng Tsai
2006 J jnl
RegRNA: an integrated web server for identifying regulatory RNA motifs and elements.
Nucleic Acids Res.
Hsi-Yuan Huang, Chia-Hung Chien, Kuan-Hua Jen, Hsien-Da Huang
2006 J jnl
dbPTM: an information repository of protein post-translational modification.
Nucleic Acids Res.
Tzong-Yi Lee, Hsien-Da Huang, Jui-Hung Hung, Hsi-Yuan Huang, Yuh-Shyong Yang, Tzu-Hao Wang
2005 A conf
Primer design for multiplex PCR using a genetic algorithm.
GECCO
Feng-Mao Lin, Hsien-Da Huang, Hsi-Yuan Huang, Jorng-Tzong Horng