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Is it possible to do this in beamer? Or do I have to use other packages?

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Yes, something along those lines:

\author[shortname]{author1 \inst{1} \and author2 \inst{2}}
\institute[shortinst]{\inst{1} affiliation for author1 \and %
                      \inst{2} affiliation for author2}

See documentation for Beamer class (page 94, v3.10).

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Thanks, it works. I must have overlooked it in documentation. – Marcin May 11 '11 at 10:21

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