Epigenetics and Expression

Johns Hopkins Pathology

SMARCA6 and transcriptional regulation in human cancers

Lead investigator: Jane Welch

SMARCA6 is a Snf-family helicase that has been implicated in both transcriptional silencing and activation. Evidence from transgenic mouse models indicates that SMARCA6 is required for somatic silencing of retrotransposons, and SMARCA6 localizes to LINE, SINE, and IAP loci in murine embryonal carcinoma cells. My project is to characterize SMARCA6 target loci in human cancer genomes. I have performed chromatin immunoprecipitation followed by sequencing (ChIP-seq) for SMARCA6 in a number of human cancer cell lines and correlated SMARCA6 binding with RNA expression and publicly available ChIP-seq data for histone modifications and other transcriptional regulators. Currently, I am further characterizing SMARCA6 target loci through gene set enrichment analysis and conducting experiments to test functional requirements for SMARCA6.



Retrotransposon Biology and Mapping          ♦          Functional Effects of Retrotransposons