East New York, and all of Brooklyn for that matter has been seeing an increase in values. Like any investment, every property is different, and when it comes to investing in a business - even more so than a regular property - there is always risk. The area could be great, and the business could fail. Therefore, my simple answer is "yes" every area should be considered for business - just depends what kind for the particular area. You need to think about competition, demographics, size, location, public transportation access, etc. If all these things add up for you, then it doesn't matter if it is East New York, or The Upper East Side - there is always a risk.
I recommend you work with a COMMERCIAL real estate agent, they will be able to guide you through the process.