Topological-based classification using artificial gene networks. - Chun-Chi Liu; Wen-Shyen E. Chen; Pei-Chun Chang; Jeremy J. W. Chen (IEEE ICCI, 2005)

CRSD: a comprehensive web server for composite regulatory signature discovery. - Chun-Chi Liu; Chin-Chung Lin; Wen-Shyen E. Chen; Hsuan-Yu Chen; Pei-Chun Chang; Jeremy J. W. Chen; Pan-Chyr Yang (Nucleic Acids Res., 2006)

Genome-wide identification of specific oligonucleotides using artificial neural network and computational genomic analysis. - Chun-Chi Liu; Chin-Chung Lin; Ker-Chau Li; Wen-Shyen E. Chen; Jiun-Ching Chen; Ming-Te Yang; Pan-Chyr Yang; Pei-Chun Chang; Jeremy J. W. Chen (BMC Bioinform., 2007)

Discovering Causal and Temporal Relations in Biomedical Texts. - Rutu Mulkar-Mehta; Jerry R. Hobbs; Chun-Chi Liu; Xianghong Jasmine Zhou (AAAI Spring Symposium: Learning by Reading and Learning to Read, 2009)

Identifying Dynamic Network Modules with Temporal and Spatial Constraints. - Ruoming Jin; Scott McCallen; Chun-Chi Liu; Yang Xiang; Eivind Almaas; Xianghong Jasmine Zhou (Pacific Symposium on Biocomputing, 2009)

Integrative disease classification based on cross-platform microarray data. - Chun-Chi Liu; Jianjun Hu; Mrinal Kalakrishnan; Haiyan Huang; Xianghong Jasmine Zhou (BMC Bioinform., 2009)

Integrative Analysis of Many Weighted Co-Expression Networks Using Tensor Computation. - Wenyuan Li 006; Chun-Chi Liu; Tong Zhang 001; Haifeng Li; Michael S. Waterman; Xianghong Jasmine Zhou (PLoS Comput. Biol., 2011)

Identifying multi-layer gene regulatory modules from multi-dimensional genomic data. - Wenyuan Li 006; Shi-Hua Zhang; Chun-Chi Liu; Xianghong Jasmine Zhou (Bioinform., 2012)

Algorithm to Identify Frequent Coupled Modules from Two-Layered Network Series: Application to Study Transcription and Splicing Coupling. - Wenyuan Li 006; Chao Dai; Chun-Chi Liu; Xianghong Jasmine Zhou (J. Comput. Biol., 2012)

miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions. - 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; et al. (Nucleic Acids Res., 2014)

DiseaseConnect: a comprehensive web server for mechanism-based disease-disease connections. - Chun-Chi Liu; Yu-Ting Tseng; Wenyuan Li 006; Chia-Yu Wu; Ilya Mayzus; Andrey Rzhetsky; Fengzhu Sun; Michael S. Waterman; Jeremy J. W. Chen; Preet M. Chaudhary; Joseph Loscalzo; Edward Crandall; et al. (Nucleic Acids Res., 2014)

DPRP: a database of phenotype-specific regulatory programs derived from transcription factor binding data. - David T. W. Tzeng; Yu-Ting Tseng; Matthew Ung; I-En Liao; Chun-Chi Liu; Chao Cheng (Nucleic Acids Res., 2014)

IIIDB: a database for isoform-isoform interactions and isoform network modules. - Yu-Ting Tseng; Wenyuan Li 006; Ching-Hsien Chen; Shi-Hua Zhang; Jeremy J. W. Chen; Xianghong Jasmine Zhou; Chun-Chi Liu (BMC Genom., 2015)

Stackelberg Game Based Optimal Workload Allocation and Pricing Mechanism in Crowdsourcing. - Chun-Chi Liu; Shengling Wang 001; Chenyu Wang; Rongfang Bie; Dongkyoo Shin (BDCloud-SocialCom-SustainCom, 2016)

Crowdsourcing Framework for Acoustic Sound Based Obstacle Echolocation through Smartphones for Visually Impaired. - Chun-Chi Liu; Rong Du; Shengling Wang 001; Chenyu Wang; Rongfang Bie; Cheonshik Kim (BDCloud-SocialCom-SustainCom, 2016)

A Mechanism Design Solution for DTN Routing. - Zhi Lin; Shengling Wang 001; Chun-Chi Liu; Madiha Ikram (IIKI, 2016)

Stackelberg Game Based Tasks Assignment Mechanism Using Reputation in Crowdsourcing. - Xiaosheng Wu; Shengling Wang 001; Chun-Chi Liu; Weiman Sun; Chenyu Wang (IIKI, 2016)

Circle-Covering Algorithm for Multiple-POI Searching. - Xuan Yu; Shengling Wang 001; Chun-Chi Liu; Chenyu Wang; Weiman Sun (IIKI, 2016)

RiceATM: a platform for identifying the association between rice agronomic traits and miRNA expression. - Wei-Ting Liu; Chia-Chun Yang; Rong-Kuen Chen; Woei-Shyuan Jwo; Chih-Wen Wu; Wen-Yen Ting; Dah-Pyng Shung; Chun-Chi Liu; Jeremy J. W. Chen (Database J. Biol. Databases Curation, 2016)

miRTarBase 2016: updates to the experimentally validated miRNA-target interactions database. - Chih-Hung Chou; Nai-Wen Chang 001; Sirjana Shrestha; Sheng-Da Hsu; Yu-Ling Lin; Wei-Hsiang Lee; Chi-Dung Yang; Hsiao-Chin Hong; Ting-Yen Wei; Siang-Jyun Tu; Tzi-Ren Tsai; Shu-Yi Ho; et al. (Nucleic Acids Res., 2016)

Cancer RNA-Seq Nexus: a database of phenotype-specific transcriptome profiling in cancer cells. - Jianrong Li; Chuan-Hu Sun; Wenyuan Li 006; Rou-Fang Chao; Chieh-Chen Huang; Xianghong Jasmine Zhou; Chun-Chi Liu (Nucleic Acids Res., 2016)

CircNet: a database of circular RNAs derived from transcriptome sequencing data. - Yu-Chen Liu; Jianrong Li; Chuan-Hu Sun; Erik Andrews; Rou-Fang Chao; Feng-Mao Lin; Shun-Long Weng; Sheng-Da Hsu; Chieh-Chen Huang; Chao Cheng; Chun-Chi Liu; Hsien-Da Huang (Nucleic Acids Res., 2016)

Mechanism design games for thwarting malicious behavior in crowdsourcing applications. - Chun-Chi Liu; Shengling Wang 001; Liran Ma; Xiuzhen Cheng 001; Rongfang Bie; Jiguo Yu (INFOCOM, 2017)

Cooperative Stackelberg game based optimal allocation and pricing mechanism in crowdsensing. - Chun-Chi Liu; Rong Du; Shengling Wang 001; Rongfang Bie (Int. J. Sens. Networks, 2018)

CMEP: a database for circulating microRNA expression profiling. - Jianrong Li; Chun-Yip Tong; Tsai-Jung Sung; Ting-Yu Kang; Xianghong Jasmine Zhou; Chun-Chi Liu (Bioinform., 2019)

NormaChain: A Blockchain-Based Normalized Autonomous Transaction Settlement System for IoT-Based E-Commerce. - Chun-Chi Liu; Yinhao Xiao; Vishesh Javangula; Qin Hu 001; Shengling Wang 001; Xiuzhen Cheng 001 (IEEE Internet Things J., 2019)

Edge Computing Security: State of the Art and Challenges. - Yinhao Xiao; Yizhen Jia; Chun-Chi Liu; Xiuzhen Cheng 001; Jiguo Yu; Weifeng Lv (Proc. IEEE, 2019)

Tokoin: A Coin-Based Accountable Access Control Scheme for Internet of Things. - Chun-Chi Liu; Minghui Xu 001; Hechuan Guo; Xiuzhen Cheng 001; Yinhao Xiao; Dongxiao Yu; Bei Gong; Arkady Yerukhimovich; Shengling Wang 001; Weifeng Lv (CoRR, 2020)

HomeShield: A Credential-Less Authentication Framework for Smart Home Systems. - Yinhao Xiao; Yizhen Jia; Chun-Chi Liu; Arwa Alrawais; Molka Rekik; Zhiguang Shan (IEEE Internet Things J., 2020)

BLOWN: A Blockchain Protocol for Single-Hop Wireless Networks under Adversarial SINR. - Minghui Xu 001; Feng Zhao 002; Jiguo Yu; Yifei Zou; Chun-Chi Liu; Xiuzhen Cheng 001; Falko Dressler (CoRR, 2021)

Extending On-chain Trust to Off-chain - A Trustworthy Vaccine Shipping Example. - Chun-Chi Liu; Hechuan Guo; Minghui Xu 001; Shengling Wang 001; Dongxiao Yu; Jiguo Yu; Xiuzhen Cheng 001 (CoRR, 2021)

wChain: A Fast Fault-Tolerant Blockchain Protocol for Multihop Wireless Networks. - Minghui Xu 001; Chun-Chi Liu; Yifei Zou; Feng Zhao 002; Jiguo Yu; Xiuzhen Cheng 001 (IEEE Trans. Wirel. Commun., 2021)

Extending On-Chain Trust to Off-Chain - Trustworthy Blockchain Data Collection Using Trusted Execution Environment (TEE). - Chun-Chi Liu; Hechuan Guo; Minghui Xu 001; Shengling Wang 001; Dongxiao Yu; Jiguo Yu; Xiuzhen Cheng 001 (IEEE Trans. Computers, 2022)

BLOWN: A Blockchain Protocol for Single-Hop Wireless Networks Under Adversarial SINR. - Minghui Xu 001; Feng Zhao 002; Yifei Zou; Chun-Chi Liu; Xiuzhen Cheng 001; Falko Dressler (IEEE Trans. Mob. Comput., 2023)

FileDAG: A Multi-Version Decentralized Storage Network Built on DAG-Based Blockchain. - Hechuan Guo; Minghui Xu 001; Jiahao Zhang 003; Chun-Chi Liu; Dongxiao Yu; Schahram Dustdar; Xiuzhen Cheng 001 (IEEE Trans. Computers, 2023)

New Ensemble Domain Decomposition Method for the Steady-state Random Stokes-Darcy Coupled Problems with Uncertain Parameters. - Chunchi Liu; Yao Rong; Yizhong Sun; Jiaping Yu; Haibiao Zheng (CoRR, 2024)

BFT-DSN: A Byzantine Fault-Tolerant Decentralized Storage Network. - Hechuan Guo; Minghui Xu 001; Jiahao Zhang 003; Chunchi Liu; Rajiv Ranjan 001; Dongxiao Yu; Xiuzhen Cheng 001 (IEEE Trans. Computers, 2024)

TBAC: A Tokoin-Based Accountable Access Control Scheme for the Internet of Things. - Chunchi Liu; Minghui Xu 001; Hechuan Guo; Xiuzhen Cheng 001; Yinhao Xiao; Dongxiao Yu; Bei Gong; Arkady Yerukhimovich; Shengling Wang 001; Weifeng Lyu (IEEE Trans. Mob. Comput., 2024)

Exploring Blockchain Technology through a Modular Lens: A Survey. - Minghui Xu 001; Yihao Guo; Chunchi Liu; Qin Hu 001; Dongxiao Yu; Zehui Xiong; Dusit Tao Niyato; Xiuzhen Cheng 001 (ACM Comput. Surv., 2024)

EC-Chain: Cost-Effective Storage Solution for Permissionless Blockchains. - Minghui Xu 001; Hechuan Guo; Ye Cheng; Chunchi Liu; Dongxiao Yu; Xiuzhen Cheng 001 (INFOCOM, 2025)

SAV unconditional stable estimate of parallel decoupled stabilized finite element algorithm for the fully mixed Stokes-Darcy problems. - Chunchi Liu; Yizhong Sun; Jiaping Yu (Appl. Math. Lett., 2025)

LIFT: Automating Symbolic Execution Optimization with Large Language Models for AI Networks. - Ruoxi Wang; Kun Li; Minghui Xu 001; Yue Zhang 025; Kaidi Xu; Chunchi Liu; Yinhao Xiao; Xiuzhen Cheng 001 (CoRR, 2025)