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Web-based learning systems are becoming popular in the recent years. Many courses and lectures are now conducted online. Similar to other Web-based applications, security and privacy of Web-based learning systems should not be overlooked. We evaluate the security and privacy of general Web-based learning systems. We address the security and privacy requirements specific to them. Recommendations on design and implementation of a secure Web-based learning system are also presented. In particular, we have evaluated the security services of two popular Web-based learning tools.