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Selective capping of carboxy groups on alkanethiols by <jats:italic>N<\/jats:italic>\u2010hydroxysuccinimide esters allowed the deposition of methoxypoly(ethylene glycol) silane as a blocking agent on unpatterned regions. Carboxylates were used to couple a form of avidin to create a microarray of protein. This microarray was successfully probed with biotinylated quantum dots. 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