Information regarding the distance between paired reads enhances the
accuracy of genome assembly and sequence-to-genome mapping, making paired-end
indispensable strategies for DNA sequencing. The most commonly used paired-end
sequencing strategies are Paired-End (PE) sequencing and Paired-End Ditag (PED)
sequencing. Similarity in terminologies frequently causes confusion. This chapter is set
out to clarify these terminologies and then, using PED as an example, to illustrate how
a biotechnology can be sequentially developed.
Keywords: bPED, ChIP-EM, ChIP-HM, ChIP-TFBS, in situ PCR, mbPED, PE
sequencing, PED sequencing.
