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En masse analysis of gene structure and function by array technologies will have a lasting and profound effect on biology and medicine. This impact can be compromised by low quality of probes within arrays, whichwe show can be caused byincomplete removal of chemical protecting groups. To solve this quality control problem, we present a sensitive, specific and facile method to detect these groups in situ on arrays using monoclonal antibodies and existing instru- mentation. Screening of microarrays with these monoclonal antibodies should guide the considera- tion given to data derived from these and should enhance the accuracy of the results obtained.

Assessing incomplete deprotection of microarray oligonucleotides in situ