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Though a formidable portfolio of ready-to-use probes is available from various commercial sources, the choice is usually restricted to a relatively small number (<200) of loci mostly belonging to the human genome. Probes targeting other loci or species can be developed from genomic DNA fragments cloned in bacterial artificial chromosomes (BACs) and fosmids, or using array-based technology (Boyle et al., 2011; Yamada et al., 2011). However, implementing these methods in-house or outsourcing them to commercial parties can be challenging if not impossible for many laboratories for both logistic and economic reasons.
(Boyle et al., 2011) Fluorescence in situ hybridization with high-complexity repeat-free oligonucleotide probes generated by massively parallel synthesis. Chromosome Res.
(Yamada et al., 2011) Visualization of fine-scale genomic structure by oligonucleotide-based high-resolution FISH. Cytogenet Genome Res.
(Bienko et al., 2013) A versatile genome-scale PCR-based pipeline for high-definition DNA FISH. Nat Methods.