刘小乐通讯作者,同济第一作者的文章:
A comprehensive view of nuclear receptor cancer cistromes. Tang et al., Cancer Res. (2011) [IF: 9.3]
Computational inference of mRNA stability from histone modification and transcriptome profiles. Wang et al., Nucleic Acids Res. (2012) [IF: 8.8]
Identifying ChIP-seq enrichment using MACS. Feng et al., Nat. Protoc. (2012) [IF: 7.8]
CistromeMap: A knowledgebase and web server for ChIP-Seq and DNase-Seq studies in mouse and human. Qin et al., Bioinformatics. (2012) [IF: 4.6]
GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data. Feng et al., Bioinformatics. (2012) [IF: 4.6]
Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer. Du et al., Nat. Struct. Mol. Biol. (2013) [IF: 11.6]
Target analysis by integration of transcriptome and ChIP-seq data with BETA. Wang et al., Nat. Protoc. (2013) [IF: 7.8]
CistromeFinder for ChIP-seq and DNase-seq data reuse. Sun et al., Bioinformatics. (2013) [IF: 4.6]
Canonical nucleosome organization at promoters forms during genome activation. Zhang et al., Genome Res. (2014) [IF: 13.9]
CR Cistrome: a ChIP-Seq database for chromatin regulators and histone modification linkages in human and mouse. Wang et al., Nucleic Acids Res. (2014) [IF: 8.8]
CaSNP: a database for interrogating copy number alterations of cancer from SNP array data. Cao et al., Nucleic Acids Res. (2011) [IF: 8.8]
Refined DNase-seq protocol and data analysis reveals intrinsic bias in transcription factor footprint identification. He et al., Nat. Methods. (2014) [IF: 26.0]
MethylPurify:tumor purity deconvolution and differential methylation detecton from single tumor DNA methylomes. Zheng et al., Genome Biol. (2014) [IF: 10.5]
刘小乐通讯作者的文章:
Genome-wide analysis of histone modifications: H3K4me2, H3K4me3, H3K9ac, and H3K27ac in oryza sativa L. japonica. Du et al., Mol Plant. (2013) [IF: 6.6]
同济第一单位的文章:
DiNuP: a systematic approach to reveal differential nucleosome positioning. Fu et al., Bioinformatics. (2012) [IF: 4.6]
A systematic approach identifies FOXA1 as a key factor in the loss of epithelial traits during the epithelial-to-mesenchymal transition in lung cancer. Wang et al., BMC Genomics. (2013) [IF: 4.0]
其他:
PHF8 and REST/NRSF co-occupy gene promoters to regulate proximal gene expression. Wang et al., Sci Rep. (2014)[IF: 5.1]
The histone H3 Lys 27 demethylase JMJD3 regulates gene expression by impacting transcriptional elongation. Chen et al, Gene & Dev. (2012) [IF: 12.6]
XBP1 sustains tumor initiating cells in triple negative breast cancer by controlling the hypoxia response. Chen et al, Nature (2014) [IF: 42.4]
JARID1B is a luminal lineage-driving oncogene in breast cancer. Yamamoto et al, Cancer Cell (2014) [IF: 23.9]
SOX2 and p63 colocalize at genetic loci in squamous cell carcinomas. Watanabe et al, J Clin Invest (2014) [IF: 13.8]