Yes, normally in a case where data were later shown to have been taken incorrectly, you would remove just the incorrect data but leave an unmodified copy of the old data available somewhere. Or, just leave a very prominent note about the change with a detailed explanation somewhere else. You would not take down everything because 1. That would deprive taxpayers of the correct data they had already paid for, and 2. That would mess up the data ingestion pipelines of the researchers who depended on the data.