The Chinese claimed a total of 24 gold, 13 silver and 21 bronze medals to put them ahead of Australia and Ukraine in the standings.
Those who attended the venue and the millions watching around the globe witnessed almost 150 new world records and more than 200 Paralympic records.
China's teenage star Yang Yang made it a perfect four golds from four S2 events when he won the 50m, 100m, and the 200m Freestyle, as well as the 50m Backstroke.
Compatriots Xu Qing and Yang Bozun added significantly to their country's medal haul, with the former also making it a perfect four from four in the S6 and SM6 classes while Yang claimed three golds, two silver and one bronze in S11 and SB11 races.
Matthew Cowdrey and Jacqueline Freney were the stars for Australia with 16 medals between them, while Maksym Veraksa, Nataliia Prologaieva and Yevheniy Bohodayko were successful for Ukraine.
The USA's Jessica Long added to the four gold medals she won in Beijing with another five.
Natalie du Toit, competing in her final Games, added another three golds and one silver to her impressive medal haul. The South African has won nearly two dozen major international gold medals during a glittering career.
Russia's Oxana Savchenko won five golds from five events in S12/SM12, while Belarus's Ihar Boki won five golds and one silver.
Great Britain's Ellie Simmonds won two golds, one silver and one bronze, with compatriot Heather Frederiksen claiming one gold and three silvers.
It was also a successful Games for 2016 Host Nation Brazil, with Daniel Dias claiming six gold medals and Andre Brasil finishing with three golds and two silvers.
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