Project description:Purpose: The goals of this study are to compare NGS-derived total transcriptome profiling (RNA-seq) of CNOT1-depleted cells (using siRNA) with control HeLa cells before and after DNA damage to examine quantitative gene expression.
Project description:This SuperSeries is composed of the following subset Series: GSE16581: Genomic landscape of meningiomas: gene expression GSE16583: Genomic landscape of meningiomas: genotyping Refer to individual Series
Project description:The aim of the experiment was to identify nucleolus-associated chromosomal domains. HeLa exp samples represent DNA from isolated nucleoli, whereas HeLa ref samples total genomic DNA of HeLa cells. "exp" samples were Cy5 labeled and hybridized together with Cy3-labeled "ref" samples on a Nimblegen 385K WG CGH platform. The DNA samples were not amplified.
Project description:The HeLa cell line is the first human-derived immortalized cell line, one of the most widely used cell lines in the world. While many researches had pointed out the heterogeneity of HeLa cells across laboratories and the low repeatability of experiments performed on HeLa cells, the reason how these heterogeneities generated is little known. We sorted cells into single cells, cultured them to single clones and performed multi-omics sequencing. The single cell-derived clones exhibited persistent growth variation both in vitro and in vivo. The corresponding WGS analysis revealed the single clones diverse in copy number even at the whole chromosome level. Our work explored the intrinsic mechanisms of the low repeatability of cell line experiments. We also provided a resource for single cell-derived clones.