需要注意的是,+ [clause]
(需要) + 特别 + 注意的是,+ [clause]
需要注意的是 flags a caveat: a limit, an exception, a thing that could go wrong. It opens the sentence, followed by a comma and a full clause, and turns up in instructions, notices, manuals and teacher's explanations.
特别 strengthens it: 需要特别注意的是 "it is especially important to note that". 要注意的是 is a lighter spoken form.
需要注意的是 tells the reader to take care. 值得注意的是 "notably" points out an observation – a trend, a surprising figure – without telling anyone to act.
值得一提的是 is for a positive or interesting extra, not a warning.
The 的是 is part of the frame. Without it the phrase can't introduce a clause.