Knowledge resources for lab management and data analysis

RNA-Seq Case Study: Genes Regulated by p53-SET Interplay

Published by BxGenomics @ July 25, 2022, 9:18 pm

The oncoprotein SET can bind to p53 and inhibits p53 transcriptional activity in unstressed cells. To identify the genes regulated by SET in a p53-dependent manner, the endogenous SET was depleted by siRNA in control or p53 knockout U2OS cells. We use BxGenomics DEG and Venn Diagram tools to find genes regulated by p53-SET. 

Reference: Nature. 2016 Oct 6;538(7623):118-122. doi: 10.1038/nature19759.


RNA-Seq Case Study: iPSC Differentiation into Muscle and Neuron

Published by BxGenomics @ July 24, 2022, 11:12 am

We use BxGenomics to examine RNA-Seq data from three key time points during human iPSC differentiation into mature muscle fibers with motor neurons.  We can detect consistent genes changes as the cells differentiate, and myogenesis and nurogenesis genes are highly enriched in later time points.

Reference: Cells. 2020 Jun 23;9(6):1531. doi: 10.3390/cells9061531.