Zoological Museum
- Curates more than 13 million specimens with special focus on South East Asian and South American fauna, and marine fauna.
- http://www.science.uva.nl/zma/

Netherlands Maritime Museum
- Tells the story of the maritime past of the country. Practical information for visitors and descriptions of highlights in the collection.
- http://www.scheepvaartmuseum.nl/

The Allard Pierson Museum
- The archaeological museum of the University of Amsterdam. The nucleus of its collection are the collections of C.W. Lunsingh Scheurleer, Van Leer, Six, and Van Lier.
- http://cf.uba.uva.nl/apm/

Amsterdam Historical Museum
- The collection consists of paintings, prints, maquettes, objects and archeological finds. It shows how Amsterdam grew from a small medieval town to a world famous centre.
- http://www.ahm.nl/

Jewish Historical Museum
- The central motif of the permanent collection is the religion, culture, and history of the Jews in the Netherlands.
- http://www.jhm.nl/

Film Museum
- The museum aims to promote a lively Dutch film culture, by the collection, restoration and screening of film treasures. Also presents new films, both Dutch and foreign art films.
- http://www.filmmuseum.nl/

Stedelijk Museum
- Museum of modern and contemporary art.
- http://www.stedelijk.nl/

Houseboat Museum
- The museum has been established on the "Hendrika Maria" a former commercial sailship built in 1914.
- http://www.houseboatmuseum.nl/

Van Gogh Museum
- With more than 200 paintings and almost 500 drawings, the Van Gogh Museum maintains the largest and most varied Van Gogh collection in the world.
- http://www.vangoghmuseum.nl/

Computer Museum
- The collection includes technical and scientific computing equipment from the sixties to the present day including commercial equipment, experimental machines and machines built for specific scientific purposes.
- http://www.science.uva.nl/faculteit/museum/

Royal Tropical Museum
- The institute supports non-Western countries in sustainable development and informs the public about the tropics and sub-tropics.
- http://www.kit.nl