Project description:We over-expressed an epigenetic regulator in a glioblastoma (GBM) primary culture from an adult patient. These GBM cells have cancer stem cell phenotypes, as they have self-renewal properties and tumor initiation potential when transplanted in immunocompromised mice. ATAC-seq was performed on cells over-expressing the epigenetic regulator and control cells expressing EGFP. ATAC-Seq on glioblastoma cells that over-express EGFP or an epigenetic regulator.
Project description:We performed ATAC-seq assay on nuclei isolated from control and UTXKO mouse brown fat to delineate the role of UTX in setting chromatin accessibility. We analyzed the effects of UTX deficiency on a set of brown fat specific genes and observed reduced accessibility at ATAC-seq peaks and mRNA expression for many of these genes, including PRDM16 and PGC1a.
Project description:The serum of hibernating bears has been shown to exhibit cytoprotective, anticatabolic effects when applied to human or mouse skeletal muscle cells. It is also able to reduce mitochondrial respiration in cells obtained from bear adipose tissue. Its action notably might involve reprogramming of transcriptional profiles, as shown in brown bear adipocytes and more recently in human muscle cells. However, the effects of bear serum on human cells has not been evaluated yet at the proteome level. The main objective of this study was to fill this gap by comparing the effects of hibernating bear serum with those of non-hibernating bear serum and foetal bovine serum on human fibroblasts.
2025-12-08 | PXD069199 | Pride
Project description:Brown bear modern and palaeogenome study
Project description:Brown adipocytes (BAs) are a potential therapeutic cell source for the treatment of metabolic disease such as type 2 diabetes. In this report, human pluripotent stem cells (hPSCs) are subject to directed differentiation to brown dipocytes through a paraxial mesoderm intermediate at high-efficiency. RNA-Seq and ATAC-seq was performed to characterized hPSCs derived paraxial mesoderm and brown adipocytes generated in this study.
Project description:ATAC-seq samples from 2 species and 2 cell types were generated to study cis-regulatory element evolution. Briefly, previously generated urinary stem cell derived iPS-cells (Homo sapiens) of 2 human individuals and fibroblast derived cynomolgus macaque iPSCs (Macaca fascicularis) of 2 individuals (Geuder et al. 2021) were differentiated to neural progenitor cells via dual-SMAD inhibition as three-dimensional aggregation culture (Chambers et al. 2009; Ohnuki et al. 2014). The NPC lines were cultured in NPC proliferation medium and passaged 2 - 4 times until they were dissociated and subjected to ATAC-seq together with the respective iPSC clones. ATAC-seq libraries were generated using the Omni-ATAC protocol (Corces et al. 2017) with minor modifications.
Project description:To elucidate the sex-specific role of PGC1α in brown adipose tissue (BAT), we performed ATAC-seq analysis on BAT from male and female PGC1α knockout mice.
2025-04-06 | GSE288721 | GEO
Project description:Brown bear tissue full length transcriptome sequencing
