FAQ - Questions around Microaraying
To our knowledge there are only two scanners that have issues scanning the NEXTERION® HiSens reflective slides. On the arrayWoRx™ microarray scanner from Applied Precision Inc., the slide must be used in an "inverted" position compared to the standard transparent slides. The Agilent DNA Microarray Scanners (G2565AA, G2565BA, and G2565CA) will only scan through the back of transparent slides, and so cannot be used to scan the non-transparent NEXTERION® HiSens reflective slides.
According to the customer service of PerkinElmer, the scanner checks the upper right corner of each slide for a reflection. If there is no reflection (in this case due to the black MPX well patterning), the slide is not recognized. A quick solution is to either remove the black material from the upper right corner by scratching (2 mm x 2 mm maximum) or to place a small piece of aluminum foil in the upper right corner.
A more permanent solution would be to contact PerkinElmer's technical service to have the position of the scanner autofocus moved to an unpatterned area of the slide.