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Gene co-expression analysis for functional classification and gene–disease predictions. Brief Bioinform. 2017.

Dpy30 is critical for maintaining the identity and function of adult hematopoietic stem cells. The Journal of Experimental Medicine. 2016.

The Long Noncoding RNA Landscape of the Ischemic Human Left Ventricle. Circulation: Cardiovascular Genetics. 2017, 10:e001534.

Splicing factor 1 modulates dietary restriction and TORC1 pathway longevity in C. elegans. Nature. 2017, 541:102–106.


Classification and characterization of microsatellite instability across 18 cancer types. Nature Medicine. 2016, 22:1342–1350.

Coordinate redeployment of PRC1 proteins suppresses tumor formation during Drosophila development. Nature Genetics. 2016, 48:1436–1442.

Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters. Cell. 2016, 167(5):1369-1384.

Mining kidney toxicogenomic data by using gene co-expression modules. BMC Genomics. 2016, 17:790.

Local microRNA delivery targets Palladin and prevents metastatic breast cancer. Nature Communications. 2016, 7:12868

Antibiotic-mediated gut microbiome perturbation accelerates development of type 1 diabetes in mice. Nature Microbiology. 2016, 1:16140.

Comprehensive identification of internal structure and alternative splicing events in circular RNAs. Nature Communications. 2016, 7:12060.

Age-related accrual of methylomic variability is linked to fundamental ageing mechanisms. Genome Biology. 2016, 17:191.

TP53 regulates miRNA association with AGO2 to remodel the miRNA–mRNA interaction network. Genome Research. 2016, 26:331-341.

ReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization. Molecular BioSystems. 2016, 12(2):477-479.


ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparision and visualization. Bioinformatics. 2015, 31(14):2382-2383.

DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis. Bioinformatics. 2015, 31(4):608-609.

Aberrant DNA methylation in non-small cell lung cancer-associated fibroblasts. Carcinogenesis. 2015, 36(12):1453-1463.

A neural crest origin for cohesinopathy heart defects. Hum. Mol. Genet. 2015, 24(24): 7005-7016.

Genome-wide disruption of 5-hydroxymethylcytosine in a mouse model of autism. Hum. Mol. Genet. 2015, 24(24):7121-7131.

Correlation of clinical features and genetic profiles of stromal interaction molecule 1 (STIM1) in colorectal cancers. Oncotarget. 2015, 6(39):42169–42182.


Age- and diet-associated metabolome remodeling characterizes the aging process driven by damage accumulation. eLife 2014,3:e02077

Expression Profiling of the Wheat Pathogen Zymoseptoria tritici Reveals Genomic Patterns of Transcription and Host-Specific Regulatory Programs. Genome Biol Evol 2014, 6(6): 1353-1365.

Proteomic analysis of putative heme-binding proteins in Streptococcus pyogenes. Metallomics 2014, 6:1451-1459


Putative cobalt- and nickel-binding proteins and motifs in Streptococcus pneumoniae. Metallomics 2013,5:928-935.

A novel andrographolide derivative AL-1 exerts its cytotoxicity on K562 cells through a ROS-dependent mechanism. Proteomics 2013, 13(1):169–178.