Please use this identifier to cite or link to this item:
http://hdl.handle.net/10397/5160
| Title: | Genotyping performance assessment of whole genome amplified DNA with respect to multiplexing level of assay and its period of storage | Authors: | Ho, DWH Yiu, WC Yap, KHM Fung, WY Ng, PW Yip, SP |
Issue Date: | 11-Oct-2011 | Source: | PLoS one, Oct. 2011, v. 6, no. 10, e26119, p. 1-7 | Abstract: | Whole genome amplification can faithfully amplify genomic DNA (gDNA) with minimal bias and substantial genome coverage. Whole genome amplified DNA (wgaDNA) has been tested to be workable for high-throughput genotyping arrays. However, issues about whether wgaDNA would decrease genotyping performance at increasing multiplexing levels and whether the storage period of wgaDNA would reduce genotyping performance have not been examined. Using the Sequenom MassARRAY iPLEX Gold assays, we investigated 174 single nucleotide polymorphisms for 3 groups of matched samples: group 1 of 20 gDNA samples, group 2 of 20 freshly prepared wgaDNA samples, and group 3 of 20 stored wgaDNA samples that had been kept frozen at −70°C for 18 months. MassARRAY is a medium-throughput genotyping platform with reaction chemistry different from those of high-throughput genotyping arrays. The results showed that genotyping performance (efficiency and accuracy) of freshly prepared wgaDNA was similar to that of gDNA at various multiplexing levels (17-plex, 21-plex, 28-plex and 36-plex) of the MassARRAY assays. However, compared with gDNA or freshly prepared wgaDNA, stored wgaDNA was found to give diminished genotyping performance (efficiency and accuracy) due to potentially inferior quality. Consequently, no matter whether gDNA or wgaDNA was used, better genotyping efficiency would tend to have better genotyping accuracy. | Publisher: | Public Library of Science | Journal: | PLoS one | EISSN: | 1932-6203 | DOI: | 10.1371/journal.pone.0026119 | Rights: | Copyright: ©2011 Ho et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
| Appears in Collections: | Journal/Magazine Article |
Files in This Item:
| File | Description | Size | Format | |
|---|---|---|---|---|
| Ho_Genotyping_Genome_DNA.pdf | 130.48 kB | Adobe PDF | View/Open |
Access
View full-text via PolyU eLinks 
Page views
86
Last Week
1
1
Last month
Citations as of Jun 4, 2023
Downloads
90
Citations as of Jun 4, 2023
SCOPUSTM
Citations
4
Last Week
0
0
Last month
0
0
Citations as of Jun 1, 2023
WEB OF SCIENCETM
Citations
10
Last Week
0
0
Last month
0
0
Citations as of Jun 1, 2023
Google ScholarTM
Check
Altmetric
Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.