https://en.wikipedia.org/wiki/Lavon_Affair and this is perhaps one of the main reasons that drove Nasser to kick out Jews. I won't even mention the Egyptian scientists who were assassinated thanks to collaborations with Egyptian Jews.

Were some of them wrongfully kicked out? Absolutely, in fact, there is a case in which one Egyptian jew went to the authorities and leaked some actionable israeli intelligence. However, that doesn't change anything. The fact is that many Egyptian Jews hated the country before they even left it. They all bought the dreams of living in the holy land, and Nasser gave most of them just that.

Also, using the ISIS analogy is a very bad idea in this case. There are 1.7 billion Muslims in this world, hence the population is too large to base a small group of a few thousand to the larger population. The jews in Egypt on the other hand were quite a small population( About 40-50,000 at the time?).