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The aims of this research are to check if there is microbiological contamination at desalinated water at Gaza city schools, to determine the source of contamination if any, and to determine the difference between drinking water microbiological quality between schools moderated by Ministry of High Education (MOHE) and schools moderated by United Nations Relief and Works Agency (UNRWA). Some of 130 school buildings have been selected and the data evaluated for the periods from the school year 2008-2009 to 2010-2011.