The main photographic image in the window of his Temple Bar gallery is a merged picture of glamour model Jordan and child killer Myra Hindley.
Mr Sharkey said that the picture was in place only for a few of hours before the window was smashed.
"I put it there at 4pm yesterday and we closed at 9pm last night," he said. "I saw some people looking angrily at the photo, but didn't think much of it. When I came in today, the window was smashed."
Fortunately for the artist, the image was not damaged in any way.
Mr Sharkey explained that the idea for the image came a year ago "when Jordan was being called the most hated woman in Britain".
"I googled it and the woman who came up was Myra Hindley, so I had this idea of morphing photographs of the two women into one new image," he said.
"It caused some controversy at the time, but I explained that it was more of an artistic statement rather than something to exploit.
"There was a bit of humour about it.
"It is not for sale and I said at the time I wouldn't make any money from it."
Mr Sharkey opened his gallery in Temple Lane South in Dublin's Temple Bar a few weeks ago and is also using the premises as a studio.
He said he had reported the matter to the gardai and would now be taking the image out of the window.
"I never thought there would be any trouble with it, but I'm taking it out of the window. I'm not stupid," he said.
Mr Sharkey, who has been a full-time artist for 30 years, has also written songs for Bob Geldof and Boney M.
Collectors of his work include Charles Saatchi, Rosie Huntington-Whiteley, Michael Portillo, Courtney Love, Matt Lucas, and in recent times the President of Ireland, Michael D Higgins.