A method is provided for manipulating target tissue of a patient during a medical procedure. The method includes introducing a medical instrument system to a general site of target tissue. At least one characteristic of the target tissue is identified using an imaging device located in a working channel of the medical instrument system. The imaging device is removed from the working channel of the medical instrument system, and a medical instrument is inserted through the working channel of the medical instrument system. The target tissue is then manipulated using the medical instrument. A medical instrument system is also provided for manipulating target tissue of a patient during a medical procedure.