1. For M.S. thesis:   aums.sty

For example:

 \documentstyle[amsfonts,12pt,aums,ulem,amssym,std,xy,graphicx]{report}

or

 \documentclass[12pt]{report}
     \usepackage{aums,ulem}

2. For Ph.D dissertation: auphd.sty  you also need aums.sty in your directory.

Basically auphd.sty replaces thesis by dissertation, M.S. by Ph.D, etc. It is a very simple file.

For example:  \documentstyle[amsfonts,12pt,auphd,ulem,amssym,std,xy,graphicx]{report}

\documentclass[12pt]{report}
     \usepackage{auphd,ulem}

A useful file written by Dr. Hankerson: std.sty

A sample: My student Sample dissertation (passes the graduate school requirements Oct 05)