In an interview with CNN-IBN Deputy Editor Sagarika Ghose, Kapil Sibal explained and defended the new format.
Kapil Sibal said the autonomy of the IITs is not being challenged and if the IIT Council can come up with a better system then he is willing to listen and change the format.
An IIT Delhi Senate member says the new test format is a big blow to their autonomy.
The Union HRD Minister says the new two-stage IIT-JEE format will be implemented in 2013 even though some of the IITs have expressed their reservations.
CNN-IBN Deputy Editor Sagarika Ghose raised the question on her show Face the Nation on Monday.
Sanjeev Sanghi, President, Faculty Forum-IIT Delhi, says they want the Prime Minister to intervene and have sought an appointment with him.
The Faculty Federation has accused Kapil Sibal of disregarding the senates' concerns about the new format.
IIT Delhi Alumni Association President Somnath Bharti said the faculty and senate should have been consulted.
Defending the decision to have a common entrance test, Kapil Sibal said it was taken in accordance with the IIT Act passed by Parliament.
The Maharashtra Women and Child Welfare Ministry will adopt the four daughters of a woman labourer from Beed district who died during an illegal abortion last month.
As the IITs remain split over the govt's proposed common entrance test, they have decided to first meet the PM and then decide the next course of action.
While IIT Madras and Guwahati back the government's proposal on the new format, IIT Kanpur and Kharagpur oppose it.
Earlier, IIT Kanpur said it will conduct its own entrance examination in 2013.
IIT Kanpur has rejected HRD Ministry's proposal and said it will conduct its own entrance test in 2013.
The decision came after the government rejected criticism of the decision to have a common IIT-JEE examination from 2013.
BJP run states like Gujarat, Madhya Pradesh and Chhattisgarh have also endorsed the new common admission system.
The IIT Faculty Association has sought the PM's intervention into the matter.
The IIT alumni have decided to move the Delhi High Court on Monday.
The alumni association have decided to form a lobby group and meet Manmohan Singh opposing the new format for admission.