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After visiting the Latin school in Arnstadt he studied at the University of Erfurt starting from 1633 in the Arts Faculty and in Jena with Damiel Stahl.
According to University of Erfurt professor Jamal Malik, the British overthrow of Khan was due to a number of political concerns rather than wrongdoing on Khan's own part.
Rüpke was dean of the Philosophies Faculty from 2004 to 2007, followed by the interim presidency of the University of Erfurt from January 14, 2008 to July 1, 2008, when he was succeeded by Kai Brodersen.