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You can always go back and edit a dataset, but you cannot delete it without help from the Data.gov.uk team.
For more information see: Deleting datasets
No, we keep historical versions once published, if the dataset is for a single file and a new version of that file is available, simply add it to the record if the data belongs to a time series simply add it.
You must provide a link to the data file itself. If you have a portal page for your dataset then you should add a link to that page in the 'Additional resources' section of the Dataset form.
Any data file that is made public by your entity should have a dataset record in Data.gov.uk. The aim is to make as much data available as possible overall.