Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1068837 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:We analyzed the effect on HNF4A loss on Histone modifications (H3K4me1, H3K27ac) by ChIP-seq and CUT&Tag using control and HNF4A KO livers samples. We also examined chromatin accessibility by ATAC-seq in control and HNF4A KO livers. We also performed CUT&Tag and ATAC-seq of mouse fibroblast cells (NIH 3T3) treated with control or HNF4A expression vector.
2024-01-15 | GSE211123 | GEO
Project description:The cohesin complex is a plieotropic regulator of genome structure and function. It is known to play a role in sister chromatin cohesin, DNA replication, DNA repair, and regulation of gene expression. Cohesin has several known interacting proteins that aid in the various roles within a nucleus, yet a comprehensive cohesin interactome has yet to be established. In this study, we utilized the biotin proximity ligation assay TurboID followed by LC-MS/MS in NIH-3T3 mouse fibroblast cells to identify novel proteins that interact with the cohesin complex.
2025-06-02 | PXD060289 | Pride
Project description:Analysis of gene expression in NIH 3T3 cells stably knockdown for Selt (GenBank accession number NM_001040396) using vector based siRNA technique in comparison to gene expression of vector transfected NIH 3T3 cells.
2009-11-01 | GSE17087 | GEO
Project description:To determine the underlying mechanisms of PLK1 inhibitor BI6727 alleviating TGFB1-induced the differentiation of myofibroblast, we performed RNA-seq to define the global gene expression of embryonic mouse fibroblast (NIH/3T3 cell line) that treated with BI6727 or vehicle (DMSO) with or without TGFB1 stimulation.
2020-07-15 | GSE142732 | GEO
Project description:Analysis of Immediate Early Response 2 (Ier2)-inducible NIH 3T3 cells after Ier2 induction with RheoSwitch ligand RSL-1. Results provide insight into the function of Ier2 in NIH 3T3 mouse embryonal fibroblasts. Immediate early genes, including Ier2, are rapidly induced in quiescent cells by proliferation and migration-inducing stimuli. Microarray gene expression profiling was performed to identify differentially expressed genes following overexpression of Ier2 in NIH 3T3-Ier2 inducible cells after 24 hour induction of Ier2.
2021-10-07 | GSE181200 | GEO
Project description:To screen for specific circadian outputs that may distinguish the pacemaker in the mammalian suprachiasmatic nucleus (SCN) from peripheral-type oscillators in which the canonical clockworks are similarly regulated in a circadian manner, the rhythmic behavior of the transcriptome in forskolin-stimulated NIH/3T3 fibroblasts was analyzed and compared to that found in the rat SCN in vivo and SCN2.2 cells in vitro. Similar to the scope of circadian gene expression in SCN2.2 cells and the rat SCN, NIH/3T3 fibroblasts exhibited circadian fluctuations in the expression of the core clock genes, Per2, Bmal1 (Mop3), and Cry1 and 323 functionally diverse transcripts (2.6%), many of which were involved in cell communication. Overlap in rhythmically-expressed transcripts among NIH/3T3 fibroblasts, SCN2.2 cells and the rat SCN was limited to these clock genes and four other genes that mediate fatty acid and lipid metabolism or function as nuclear factors. Compared to NIH/3T3 cells, circadian gene expression in SCN oscillators was more prevalent among cellular pathways mediating glucose metabolism and neurotransmission. Coupled with evidence for the rhythmic regulation of the inducible isoform of nitric oxide synthase, the enzyme responsible for the production of nitric oxide, in SCN2.2 cells and the rat SCN but not in fibroblasts, studies examining the effects of a NOS inhibitor on metabolic rhythms in co-cultures containing SCN2.2 cells and untreated NIH/3T3 cells suggest that this gaseous neurotransmitter may play a key role in SCN pacemaker function. Thus, this comparative analysis of circadian gene expression in SCN and non-SCN cells may have important implications in the selective identification of circadian signals involved in the coupling of SCN oscillators and the regulation of rhythmicity in downstream cells or tissues. Experiment Overall Design: Circadian profiling of the NIH/3T3 fibroblast transcriptome entailed the treatment of NIH/3T3 cells with a 15uM forskolin pulse, subsequent washout of the drug, and collection of total RNA immediately after washout and every 6 hours across two circadian cycles for each of three experiments. Timepoint values reflect the average of three samples from these biological replicates.
2008-06-14 | E-GEOD-5810 | biostudies-arrayexpress
Project description:Transcriptomics of NIH-3T3 cells treated with CMA activators to evaluate gene expression changes
2022-06-06 | GSE194292 | GEO
Project description:Expression profiling of HepG2 human liver carcinoma cells and NIH 3T3 mouse fibroblasts after arsite treatment for 24h. RNA-seq data comprise 4 groups: NIH 3T3 mouse fibroblasts control and arsite treatment, and HepG2 human liver carcinoma cells control and arsenite treatment. Jena Centre for Systems Biology of Ageing - JenAge (www.jenage.de)
2021-10-19 | GSE117815 | GEO