The goal of this study is to compare gene expression differences between WT and tPA KO mice 4 weeks after overexpression of human alpha-synuclein in the substantia nigra

We generated single cell transcriptomes from full thickness skin biopsies in naked mole-rat to quantify the skin cell types found in this species (control samples). To study if and how naked mole-rat skin changes upon exposure to a carcinogen, we performed a classical two-stage skin carcinogenesis experiment traditionally performed in mice, wherein cancer is initiated by a single application of 7,12-dimethylbenz[a]-anthracene (DMBA) followed by repeated treatment with 12-O-tetradecanoylphorbol-13-acetate (TPA) to drive cell proliferation. After 12 weeks, full thickness skin biopsies were collected and used to generate single cell transcriptomes (treatment samples).

The human myeloid leukemia cell line HL-60 differentiate into monocytes following treatment with 12-O-tetradecanoylphorbol-13-acetate (TPA). However, the mechanism underlying the differentiation of these cells in response to TPA has not been fully elucidated. In this study, we performed ChIP-seq profiling of RNA Pol II, HDAC2, Acetyl H3 (AcH3), and H3K27me3 and analyzed differential chromatin state changes during TPA-induced differentiation of HL-60 cells. We focused on atypically active genes, which showed enhanced H3 acetylation despite increased HDAC2 recruitment. We found that HDAC2 positively regulates the expression of these genes in a histone deacetylase activity-independent manner. HDAC2 interacted with and recruited paired box 5 (PAX5) to the promoters of the target genes and regulated HL-60 cell differentiation by PAX5-mediated gene activation. Taken together, these data elucidated the specific-chromatin status during HL-60 cell differentiation following TPA exposure and suggested that HDAC2 can activate transcription of certain genes through interactions with PAX5 in a deacetylase activity-independent pathway.

Images and data from rice phenotyping studies (RNA seq) performed at the APPF Plant Accelerator (TPA), University of Adelaide, on behalf of KAUST (Tester)

This dataset contains three experiments, designed for interrogating the effect of DETC on epithelial keratinocytes: Dataset 1) steady state ear epithelial cells (live, CD45-) from C57BL6/N (n=3) and Tcrd-GDL (n=3), after DETC deletion. Dataset 2) untreated and topical TPA-treated ear epithelial cells (live, CD45-, Vg5-) from C57BL6/J (n=3 untreated ears, n=3 treated ears). Dataset 3) steady state ear epithelial cells (GFP+) from CD1 (n=6) mice at age p8 weeks, following transduction with IL13Ra1-shRNA-GFP at e9.5.