Book recommendation that goes over how the bible is compiled based on manuscripts I have read about how the King's James bible and (I think) the NIV bible differ.  Some verses from the Kings james bible were removed as they were not present in earlier manuscripts.

Anyhow, are there any research papers or books that go over each verse and notes exactly which manuscript contains the verse?

I know that this is actually an on-going process, where some verses are removed, and then the verse above is split into 2 to keep the verse count the same etc.  I would like to know exactly what was done, and by whom, and which manuscript was used as the source.
Bruce Metzger's A Textual Commentary on the Greek New Testament is a well-known book that accomplishes what you asked about. 

I'd also recommend procuring some critical apparati. These list the variants and allow the reader to form their own conclusions, for the most part. Two well-known apparati are Nestle-Aland's NA26/ 27/ 28 Greek New Testament, as well as Constantin Tischendorf's critical apparatus.