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Table 1 Definition of the terms used.

From: A 454 multiplex sequencing method for rapid and reliable genotyping of highly polymorphic genes in large-scale studies

Term used Definition
Reads Sequences passing quality control (QC) criteria after BaseCall, generated from 454 sequencing using manufacturer specifications.
Sequences Reads remaining in the dataset after the first step of our data processing procedure (Table 2).
Variants Sequences differing by at least one base pair substitution or by an indel.
Artifactual sequences or artifactual variants Sequences or variants that resulted from sequencing errors, polymerase errors and non-specific amplifications of paralogue and pseudogene during PCR (Table 2).
True sequences or true variants Sequences or variants that were retained after validation at all stages of our stepwise procedure.