COMPLETE GENOMICS

Complete genomics has its own sequencer based on Polonator G.007, which is ligation-based sequencer. The owner of Polonator G.007, Dover, collaborated with the Church Laboratory of Harvard Medical School, which is the same team as SOLiD system, and introduced this cheap open system. The Polonator could combine a high-performance instrument at very low price and the freely downloadable, open-source software and protocols in this sequencing system. The Polonator G.007 is ligation detection sequencing, which decodes the base by the single­base probe in nonanucleotides (nonamers), not by dual-base coding [19]. The fluorophore-tagged nonamers will be degenerated by selectively li­gate onto a series of anchor primers, whose four components are labeled with one of four fluorophores with the help of T4 DNA ligase, which correspond to the base type at the query position. In the ligation prog­ress, T4 DNA ligase is particularly sensitive to mismatches on 3′-side of the gap which is benefit to improve the accuracy of sequencing. After imaging, the Polonator chemically strips the array of annealed primer — fluorescent probe complex; the anchor primer is replaced and the new mixture are fluorescently tagged nonamers is introduced to sequence the adjacent base [20]. There are two updates compared with Polonator G.007, DNA nanoball (DNB) arrays, and combinatorial probe-anchor li­gation (cPAL). Compared with DNA cluster or microsphere, DNA nano­ball arrays obtain higher density of DNA cluster on the surface of a sili­con chip. As the seven 5-base segments are discontinuous, so the system of hybridization-ligation-detection cycle has higher fault-tolerant ability compared with SOLiD. Complete genomics claim to have 99.999% ac­curacy with 40x depth and could analyze SNP, indel, and CNV with price 5500$-9500$. But Illumina reported a better performance of HiSeq 2000 use only 30x data (Illumina Genome Network). Recently some re­searchers compared CG’s human genome sequencing data with Illumina system [21], and there are notable differences in detecting SNVs, indels, and system-specific detections in variants.