EXPath 2.0: An Updated Database for Integrating High-Throughput Gene Expression Data with Biological Pathways, Plant and Cell Physiology, 61(10):1818–1827.

Long-term effects of fertilizers with regional climate variability on yield trends of sweet corn, Sustainability, 12(9):3528.

sRIS: a small RNA illustration system for plant next-generation sequencing data analysis, Plant and Cell Physiology, 61(6):1204–1212.

PlantPAN3.0: a comprehensive resource for gene regulatory networks and protein binding features of regulatory factors in plants.,  BSGC 2019.

PlantPAN3.0: an upgraded resource for protein structure based features and genome wide map of regulatory factors in plants, 2019 多體學及精準醫學聯合會議.

EXPath 2.0: an update database for revealing critical plant metabolic pathways from high throughput gene expression data, 2019 多體學及精準醫學聯合會議.

PlantPAN 3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants. Nucleic Acids Research, 47(D1):D1155-1163.

Paddy-upland rotation for sustainable agriculture with regards to diverse soil microbial community, Scientific Reports, 22;8(1):7966.

Delineation of condition specific cis- and trans- acting elements in plant promoters under various endo- and exogenous stimuli, BMC Genomics, vol.19 (Suppl 2):85.

microRPM: A microRNA Prediction Model based only on plant small RNA sequencing data, Bioinformatics, 34(7), 1108-1115.

EXPath 2.0: an update version of database for identifying regulatory interactions in plant biological pathways, APBC 2018.

Identification of Condition Specific Cis- and Trans-acting Elements in Plant Promoters under Various Endo- and Exogenous Stimuli, 2017 生物資訊暨生技產業發展經驗分享研討會.

Identification of Condition Specific Cis- and Trans-acting Elements in Plant Promoters under Various Endo- and Exogenous Stimuli, 2017 生農環境及多樣性學門成果發表會.

A database for identifying regulatory interactions in biological pathways from plant high-throughput gene expression data, ISEGB 2017.

EXPath tool-a system for comprehensively analyzing regulatory pathways and coexpression networks from high-throughput transcriptome data, DNA Research, 24(4):371-375.

Development of a system for small RNA next-generation sequencing data analysis, APBC 2017.

PlantPAN 2.0: an update of Plant Promoter Analysis Navigator for reconstructing transcriptional regulatory networks in plants". Nucleic Acids Research, 44(D1):D1154-60.

Construction of microRNA prediction model and regulatory networks in plants, APBC 2015.

EXPath: a database of comparative expression analysis inferring metabolic pathways for plants, APBC 2015.

EXPath: a database for identifying the variation of gene expression in different metabolic pathways under various environments in plants, 2015 高雄儀器展.

Construction of microRNA prediction model and regulatory networks in plants, 2015 高雄儀器展.

AtmiRNET: a web-based resource for reconstructing regulatory networks of Arabidopsis microRNAs,Database (Oxford), 2015:bav042.

EXPath: a database of comparative expression analysis inferring metabolic pathways for plants,BMC Genomics, 16(Suppl 2):S6:page10.

Large-Scale Investigation of Human TF-miRNA Relations Based on Coexpression Profiles,BioMed Research International, 2014:page8.

EXPath: a database for investigating the variation of plant gene expression in different metabolic pathways under various environments, ISEGB 2014.

AlgaePath: comprehensive analysis of metabolic pathways using transcript abundance data from next-generation sequencing in green algae,BMC Genomics, 15:196.

Reconstruction of microRNA regulatory networks in Arabidopsis, ISEGB 2013.

Metabolic Pathway Analysis and Gene Discovery for Biofuels Production in Neodesmus danubialis (UTEX 2219-4) by Transcriptome Sequencing Data, AYRCOB 2012.

Transcriptome analysis under stress conditions in Neodesmus danubialis, GIW 2012.

AtPAN: an integrated system for reconstructing transcriptional regulatory networks in Arabidopsis thaliana,BMC Genomics, 13:85.