- Several paintings by Caravaggio including the majestic Entombment
- Leonardo da Vinci‘s portrait of Saint Jerome
- Works by painters Fra Angelico, Giotto, Raphael, Nicolas Poussin and Titian
- The red marble papal throne, formerly in the Basilica di San Giovanni in Laterano
- Roman sculpture, tombstones, and inscriptions, including the Early Christian Sarcophagus of Junius Bassus and Dogmatic sarcophagus, and the epitaph of Lucius Cornelius Scipio Barbatus
- The Raphael Rooms
- The Niccoline Chapel
- The Sistine Chapel
- The Gallery of Maps: topographical maps of the whole of Italy, painted on the walls by friar Ignazio Danti of Perugia
- The frescoes and other works in the Borgia Apartment built for Pope Alexander VI …

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