Central Institute of Fisheries Education (CIFE), Pune, Mumbai was established in 1961 to disseminate professional knowledge about fishing to fisheries professional. CIFE was conferred the Deemed University status by UGC in 1989.In 2004 the courses of the institute were accredited by ICAR because of the superior qualities of the teaching module of the institute.

Homi Bhabha National Institute (HBNI) with a Deemed to be University status has been established. The MHRD vide notification No. F.9-5/2004-U.3 dated June 3, 2005 has declared Homi Bhabha National Institute (HBNI) a Deemed to be University along with ten Constituent Institutions (CIs) (As mentioned above- 4 R&D Centres and 6 Grant-in-aid Institutions, excluding TIFR, Mumbai, which is a Deemed University on its own)

The Indira Gandhi Institute of Development Research (IGIDR), was established by the Reserve Bank of India for researching on issues of development. It was registered as an autonomous society in 1986 and as a Public Trust in January 1987. A new campus was inaugurated by Rajiv Gandhi in December 1987. It had started as a full fledged research organization but soon transformed itself into a teaching as well as research organization. It has the aim of producing efficient personnel who are capable of conducting research on developmental issues and policies on economics, energy and environment from an interdisciplinary perspective

Institute of Chemical Technology (ICT), Mumbai, is India's premier chemical engineering and technology research institute. It is an institute dedicated to training and research in various branches of Chemical Engineering, Chemical Technology, and Pharmacy. Over the last 76 years it has acquired the status of being a premier and renowned institute of Chemical Technology in the country.

The ICT was selected as a Lead Institution under the Technical Education Quality Improvement Programme (TEQIP) of the Govt. of India. For effective implementation of this programme, the Govt. of Maharashtra granted complete Autonomy to ICT since June 2004. On 12 September 2008, the ICT was granted the Deemed-to-be University status under Section 3 of the UGC Act 1956. Now it is renamed as the Institute of Chemical Technology (ICT) [Deemed University], and is functioning as per the Statutes, Ordinances, Regulations and Rules of its own.

The International Institute for Population Sciences (IIPS) serves as a regional Institute for Training and Research in Population Studies for the ESCAP region. It was established in Mumbai in July 1956, till July 1970 it was known as the Demographic Training and Research Center (DTRC) and till 1985 it was known as the International Institute for Population Studies (IIPS). The Institute was re-designated to its present title in 1985 to facilitate the expansion of its academic activities and was declared as a 'Deemed University' on August 19, 1985 under Section 3 of the UGC Act, 1956 by the Ministry of Human Resource Development, Government of India. The recognition has facilitated the award of recognized degrees by the Institute itself and paved the way for further expansion of the Institute as an academic institution.

Mahatma Gandhi Mission (MGM) University of Health Sciences has carved a niche for itself in the field of Medical education and Health care services. The University is dedicated towards social services through institutional extension activities. Presently, it is running 32 institutions at 5 centers located in different parts in Maharashtra and Noida (U.P.). Most of the hospitals and institutions affiliated to the University are ISO certified.

The University of Mumbai (formerly University of Bombay), is a state university situated in Maharashtra state of India. It has been given a five-star ranking by NAAC. In 2010 it had a world ranking of 451 on one ranking list. The name of the university was changed from University of Bombay to University of Mumbai according to a Government Gazette dated 4 September 1996. It is abbreviated as either (UoM) for University of Mumbai or as (MU) for Mumbai University. Initially, the Elphinstone College building was used for Mumbai University.

Padmashree Dr D Y Patil University, headquartered in Navi Mumbai, was established to add quality to all spheres of higher learning in general and health services in particular. The University’s objective is to impart and disseminate knowledge and to provide facilities for research and development in the emerging areas of Health Sciences, Science and Technology, Business Management, Hospitality Management, Law, Liberal Education, Teacher’s Education, Sports etc. Its medical college (Dr. D.Y. Patil Medical College) has been awarded an ISO 9001:2000 certification from the Joint Accreditation System of Australia (JAS-ANZ).

Today Shreemati Nathibai Damodar Thackersey Women's University has become a symbol of excellence in higher educational opportunities for women. The journey has been a long one since 1916. There are three university campuses – two at Mumbai-Churchgate and Juhu and one at Karve Road, Pune

The Tata Institute of Fundamental Research (TIFR) is a research institution in India dedicated to basic research in mathematics and the sciences. It is an autonomous institute under the umbrella of the Department of Atomic Energy of the Government of India. It is located at Navy Nagar, Colaba, Mumbai. TIFR conducts research primarily in natural sciences, mathematics and theoretical computer science and is considered one of the outstanding research centres in India. TIFR has a graduate program leading to a PhD in all the major fields of study.