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\begin{document}

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\title{The Multistate Bennett Acceptance Ratio: computing free energies, ensemble averages, and potentials of mean force}

 \author{Kyle Beachamp}
 \email{XXX@mskcc.org}
 \affiliation{Memorial Sloan-Kettering Cancer Center, New York, NY, USA}

 \author{John D. Chodera}
 \email{jchodera@mskcc.org}
 \affiliation{Memorial Sloan-Kettering Cancer Center, New York, NY, USA}

 \author{Michael R. Shirts}
  \email{michael.shirts@virgina.edu}
 \affiliation{Department of Chemical Engineering, University of Virginia, Charlottesville, VA 22094-0471}

\date{\today}
\maketitle

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\input{applications/alchemical}
\input{applications/opticaltrap}
\input{applications/entropy}
\input{conclusions}

\section{Acknowledgments}

We are indebted to Michael Woodside for providing us with detailed
datasets from Ref.~\cite{woodside:pnas:2006:dna-hairpin-equilibrium}
and helpful comments.  We thank Evangelos A.~Coutsias, Gavin
E.~Crooks, Fernando A.~Escobedo, Edward H.~Feng, Andrew Gelman, Andrew
I.~Jewett, Libusha Kelly, Jun S.~Liu, David D.~L.~Minh, David
L.~Mobley, Frank M.~No\'{e}, Zhiqiang Tan, Matthew A.~Wyczalkowski, and the anonymous
reviewers for enlightening discussions and constructive comments on
this manuscript.

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