England's Higher Education Minister Bill Rammell is visiting Israel and the occupied Palestinian territories to strengthen educational links.
The UK government said it supported academic freedom
His visit this weekend follows a vote by the UCU academic union to discuss a boycott of Israeli universities.
Mr Rammell said he was taking up a long-standing invitation, but that he would discuss the proposed academic boycott with Israelis and Palestinians.
Both the Israeli and British governments have condemned it.
Mr Rammell said the UK government fully supported academic freedom and was firmly against any boycott of Israel or its academic institutions.
"Whilst I appreciate the independence of the UCU, I am very disappointed that the union has decided to pass a motion which encourages its members to consider boycotting Israeli academics and education institutions.
"I profoundly believe this does nothing to promote the Middle East peace process. In fact the reverse," he said.
At its annual conference last week, the UCU backed the motion urging it to consider the "moral implications" of links with Israeli universities.
It condemned Israel for its "denial of educational rights" to Palestinians and said "passivity or neutrality was unacceptable" in the special circumstances of the Israeli occupation.
Ahead of the debate, UCU general secretary Sally Hunt had urged delegates not to support the boycott call.
Ms Hunt said she did not believe the majority of her union's members supported an academic boycott of Israel.