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When the Center for Gender in Medicine (GiM) was founded in October 2003, it was based on the professorships of Vera Regitz-Zagrosek and Martina Dören. In December 2004, two positions for female researchers funded by the Federal Program were added and, in December 2007, a third one. In December 2004, the position of Patricia Ruiz Noppinger was incorporated into the GiM.

In 2003, the GiM got the approval by the faculty for a kick-off phase of three years. After this period of time, it the structure should be reconsidered depending on performance. The work of the GiM was felt to be successful, since, on July 2, 2007, the Charité Faculty Council decided that the center should be changed into an institute and put forward new rules for the organization.

Prof. Regitz-Zagrosek was appointed as director and Dr. Carola Schubert became vice-director. The rules are firstly valid for a period of 5 years (2007-2012). Every 2-3 years, evaluation is foreseen by the scientific advisory board and external reviewers. The continuation and an intermittent adjustment of the facilities and staff will depend on the results of the evaluations.The most recent evaluation took place on April, 29, 2009 and confirmed the successful track of the institute.