I have looked up in the dictionary :
upregulated (medical:the process of increasing the response to a stimulus)
by way of (You use by way of when you are explaining the purpose of something that you have said or are about to say. For example, if you say something by way of an introduction, you say it as an introduction.).
But I can't combine those meaning in to this sentence to understand what the speaker want to talk about.
Now those genes that were switched off by a lack of sleep were genes associated with your immune system, so once again, you can see that immune deficiency. In contrast, those genes that were actually upregulated or increased by way of a lack of sleep, were genes associated with the promotion of tumors, genes associated with long-term chronic inflammation within the body, and genes associated with stress, and, as a consequence, cardiovascular disease.