The bomb, thought to have been dropped by the British Royal Air Force, had been discovered at a construction site for faculty buildings on the edge of Goethe University.
German police removing a 500kg World War II bomb found near Berlin's Hauptbahnhof main railway station.
Local bus and train routes have been disrupted during the operation while roads surrounding the station have been closed.
Police wrote on Twitter on Wednesday that the bomb was in a safe condition and there was not causing any immediate danger.
German rail operator Deutsche Bahn said train stops at the busy station would end at 10am, and at 11.30am through traffic would also be shut down before experts began their work.
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Police said the 100-kilogram (220-pound) Soviet bombs were found in a field in the town of Sturovo. Before the bomb disposal experts move in, police will go house to house to check the zone has been completely cleared.
Flights to and from Tegel airport - about 7km away - were not affected by the evacuation.
A dismantled World War Two bomb is transported at a construction site next to the central train station in Berlin, Germany, April 20, 2018.
Bomb disposal experts were able to successfully remove the detonator just after 1 p.m. and destroy it in a small controlled explosion. Berlin was reduced to ruins in 1945 and about 3000 unexploded bombs are believed to be still lying buried in the city.
Such finds are also common elsewhere in Europe, and Slovak authorities on Friday had to evacuate people in a town near the southern border with Hungary after four unexploded World War II bombs were found by a man walking his dog.