Featured Articles

2019

Healthy infants harbor intestinal bacteria that protect against food allergy. Nature Medicine

2018

Comprehensive functional genomic resource and integrative model for the human brain. Science. 2018, 362(6420):eaat8464.

RIG-I like receptor sensing of host RNAs facilitates the cell-intrinsic immune response to KSHV infection. Nature Communications. 2018, 9:4841.

Disease-relevant transcriptional signatures identified in individual smooth muscle cells from healthy mouse vessels. Nature Communications. 2018, 9:4567.

RNA polymerase II activity revealed by GRO-seq and pNET-seq in Arabidopsis. Nature Plants.

Identification of the RNA polymerase I-RNA interactome. Nucleic Acids Research. gky779

Epidermal Tissue Adapts to Restrain Progenitors Carrying Clonal p53 Mutations. Cell Stem Cell.

PRMT2 links histone H3R8 asymmetric dimethylation to oncogenic activation and tumorigenesis of glioblastoma. Nature Communications. 2018, 9:4552.

Disrupted alternative splicing for genes implicated in splicing and ciliogenesis causes PRPF31 retinitis pigmentosa. Nature Communications. 2018, 9:4234.

Structural Remodeling of the Human Colonic Mesenchyme in Inflammatory Bowel Disease. Cell. 2018, 175(2):372-386.

Cell cycle-resolved chromatin proteomics reveals the extent of mitotic preservation of the genomic regulatory landscape. Nature Communications. 2018, 9:4048.

Lysine benzoylation is a histone mark regulated by SIRT2. Nature Communications. 2018, 9:3374.

IL-1β inflammatory response driven by primary breast cancer prevents metastasis-initiating cell colonization. Nature Cell Biology. 2018, 20:1084–1097.

Risk SNP-Mediated Promoter-Enhancer Switching Drives Prostate Cancer through lncRNA PCAT19. Cell. 2018, 174(3):564-575.

A Single-Cell Transcriptome Atlas of the Aging Drosophila Brain. Cell. 2018.

Whole-genome sequencing reveals genomic signatures associated with the inflammatory microenvironments in Chinese NSCLC patients. Nature Communications. 2018, 9:2054.

p38-MK2 signaling axis regulates RNA metabolism after UV-light-induced DNA damage. Nature Communications. 2018, 9:1017.

Transcription factor Hoxb5 reprograms B cells into functional T lymphocytes. Nature Immunology. 2018.

The effects of death and post-mortem cold ischemia on human tissue transcriptomes. Nature Communications. 2018, 9:490.

Haploinsufficiency leads to neurodegeneration in C9ORF72 ALS/FTD human induced motor neurons. Nature Medicine. 2018

High-resolution spatiotemporal transcriptome mapping of tomato fruit development and ripening. Nature Communications. 2018, 364.

The prolyl isomerase FKBP25 regulates microtubule polymerization impacting cell cycle progression and genomic stability. Nucleic Acids Research. 2018

Microbiome Influences Prenatal and Adult Microglia in a Sex-Specific Manner. Cell. 2018.

Gene co-expression analysis for functional classification and gene–disease predictions. Brief Bioinform. 2018.

The landscape of miRNA editing in animals and its impact on miRNA biogenesis and targeting. Genome Research. 2018, 28:132-143 .

Proteomic analysis of postsynaptic proteins in regions of the human neocortex. Nature Neuroscience. 2018, 21(1):130-138.

Mutant-IDH1-dependent chromatin state reprogramming, reversibility, and persistence. Nature Genetics. 2018, 50:62–72.

2017

EGFR feedback-inhibition by Ran-binding protein 6 is disrupted in cancer Nature Communications. 2017, 8:2035.

FMRFamide-like peptides expand the behavioral repertoire of a densely connected nervous system. PNAS. 2017, 114(50):E10726–E10735.

Regeneration of the entire human epidermis using transgenic stem cells. Nature. 2017, 551:327–332.

RNA editing by ADAR1 leads to context-dependent transcriptome-wide changes in RNA secondary structure. Nature Communications. 2017, 8:1440.

Mediator subunit MED25 links the jasmonate receptor to transcriptionally active chromatin. PNAS. 2017, 114(42):E8930-E8939.

qSVA framework for RNA quality correction in differential expression analysis. PNAS. 2017, 114(27):7130-7135.

H2A monoubiquitination in Arabidopsis thaliana is generally independent of LHP1 and PRC2 activity. Genome Biology. 2017, 18:69

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.

2016

Dpy30 is critical for maintaining the identity and function of adult hematopoietic stem cells. The Journal of Experimental Medicine. 2016, 213(11):2349-2364

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.

2015

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.

2014

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

2013

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.