The Central Vigilance Commission had received complaints against registrar Surajit Panigrahi for sexual advances to a girl seeking employment as a stenographer.
"There were allegations of sexual crime against him. Since the charges were serious in nature we had suggested the governing council of the institute to suspend him and now he has been suspended," B K Shukla, chief vigilance officer in the Department of Science and Technology, told PTI from Delhi.
CVC will now begin investigating the charges against the registrar, he said.
Biologist and senior professor of the institute Sampa Das has been appointed as the new registrar, sources in it said.
Funded by the Centre, Bose Institute is an autonomous premier scientific inter-disciplinary research body in India which was founded by Acharya Jagadish Chandra Bose in 1917.