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Microarrays have been extensively used to investigate genome-wide expression patterns. Although this technology has been tremendously successful, several practical issues would benefit from improvements in design. Here we describe a novel, efficient labeling methodology that uses carbodiimide-linked cyanine dyes to directly chemically label cDNA derived from mouse total RNA. Using this protocol, it takes only 10 min at 70°C to complete the cDNA labeling reaction. The directly labeled cDNAs candoi:10.2144/05385mt02 pmid:15945376 fatcat:iwem3i73szf3rh5srz7ys5hgfi