Microarray data can supplement, but not supplant, in situ gene expression patterns. Microarray data and the CV annotations are shown for genes (a) restricted to particular tissues late in embryogenesis, and (b,c) for broadly expressed genes encoding basic cellular protein complexes. Genes in (a) show strikingly similar array profiles but are expressed in quite diverse tissues. Late in embryogenesis half resolve to the epidermis (*e), and the other half are expressed in muscle (*m), fat body (*fb), and nervous system (*n). The genes of the DNA replication complexes, origin recognition complex and minichromosome maintenance complex display a characteristic pattern with peak expression at hour 5 (stage 10) and late expression in CNS (b). Similarly, the mitochondrial ribosomal genes decline during early embryogenesis but begin to rise around hour 10 (stage 13), with in situ hybridization most common in the midgut and muscle (c). For these broadly expressed gene classes the similarity of the microarray profiles is useful for supplementing the description of the in situ hybridization patterns using the CV annotations.