Breast Cancer Bone Metastasis Basal Expression

Question

[Anst]

Hello everyone!

I am studying Breast Cancer Bone Metastasis and cell death pathways.

Some gene products will induce death at different expression thresholds. For instance, one gene might encode a microRNA that will induce cell death at a slightly higher expression than basal, but the other gene might encode a protein that causes death, but it requires higher protein expression In an experimental setting I want to measure the gene expression in a cell induced by a condition (e.g. a drug), but you need to compare it to the same cell without the condition (that’s the basal state). But since I cannot control for each gene in the array, you need to find a consensus. I don’t know what the consensus is, but it must be in the literature.

Could you recommend me some articles on this theme?

Thanks in advance!

[jv]

I want to measure the gene expression in a cell induced by a condition (e.g. a drug), but you need to compare it to the same cell without the condition

What you describe is a standard differential expression analysis of treated versus untreated samples.

But since I cannot control for each gene in the array, you need to find a consensus

However this statement is confusing to me. Are you planning to measure gene expression in your samples via a microarray? What do you mean by "can't control for each gene" - can't control what exactly? and what kind of consensus are you trying to arrive at?

[Anst]

I do not work in "wet" lab, I just have scRNA data to analyze. So, I cannot control the experiment. So, should I use some "healthy" samples? In order to understand what is the basal expression of different genes.