Comparing BAC and Oligo-Based Array CGH
Comparing BAC and Oligo-Based Array CGH
A review of A new look towards BAC-based array CGH through a comprehensive comparison with oligo-based array CGH.
Note: This is a review of the published article listed below. All information, quotes, figures, methods, and findings mentioned in this review are from that article, and are the property of its authors and/or the publication in which the article originally appeared.
An extensive collaboration between researchers in Europe (2007) was established to compare the two primary technologies used today for DNA copy number screening, BAC and oligo-based array CGH, through research undertaken at two independent sites using the same batch of DNA from 19 advanced prostate cancers. The group used Agilent’s human genome CGH 44B oligo microarrays to perform the first genome-wide statistical validation of the oligo array platform. Results of the study established statistically, the reliability of the oligo platform for the identification of chromosomic events, indicating further that the oligo platform outperformed the BAC technology for the detection of more abundant, smaller aberrations.
Figure 1. Genomic data display for BAC and oligo aCGH data.
The bottom plot represents BAC aCGH data on the human genome and the upper one the oligo aCGH data for the same patient sample (819). Red dotted-line on the two aCGH plots indicates two copies. The sex mismatch was performed for the BAC aCGH but not for the oligo.
Figure 2. Chromosomic data display for BAC aCGH data and oligo aCGH data.
From bottom to top are represented on chromosome 3 of patient sample 817, the BAC aCGH data plot, the oligo aCGH data plot, the segmented BAC data plot, the segmented oligo data plot, the CGH BACs (in blue are represented the BAC outliers), the CGH oligonucleotides and the genes. The black dotted boxes indicate the different regions of detected BAC outliers (1, 2, 3, 4, 5 and 6).
Title: A new look towards BAC-based array CGH through a comprehensive comparison with oligo-based array CGH.
Authors: Wicker N, Carles A, Mills IG, Wolf M, Veerakumarasivam A, Edgren H, Boileau F, Wasylyk B, Schalken JA, Neal DE, Kallioniemi O, Poch O.
Journal: BMC Genomics. 2007; 8: 84.
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