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De novo assembly of genomes using PacBio alone is costly and therefore most use a hybrid approach that combines two or more sequencing platforms.
Hybrid sequencing: hybrid sequencing strategies leverage the strengths of two or more sequencing platforms and may require assembly software tuned for specific-read type combinations (Hall, 2007).
The same SNPs identified by two or more sequencing platforms account for 3.3% (6,422 SNPs) of all putative gene-related SNPs (Table 6).
Similar(57)
They were not, however, applied on reads shorter than 200 nt, like the ones produced by currently more common sequencing platforms, such as the Illumina Genome Analyzer or HiSeq 2000, that produce millions of short reads (<100 nt) in a single run (Voelkerding et al., 2009).
To avoid false positives, the novel SNPs published by the consortium are the consensus of two or more independent groups, sequencing platforms, and pipelines.
Because the same SNPs may be discovered by both cDNA and genomic reads, or by more than one sequencing platforms, the sum of SNPs in grouping by single sequencing platform or DNA source exceeds the actual number of SNPs.
Yet, with the rapid pace of advances in next generation sequencing platforms, more exhaustive surveys appear more tractable than ever before.
More recently, second generation sequencing platforms have been applied to transcriptome sequencing [ 12- 14], making the transcriptome more readily accessible.
With continued advances in gene sequencing platforms, more complete genomic databases, and advancements in bioinformatics, many of these constraints should resolve in the near future.
Final consensus sequences were aligned using Sequencher v4.6 (Gene Codes Corporation, USA) and discrepancy rates calculated by comparing all individuals with sequence available from two or more sequencing (NGS or Sanger) platforms.
(b) Since some SNPs were identified by more than one sequencing platform, the total numbers of SNPs therefore exceed 302.
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