Fenart Stephane, Chabi Malika, Gallina Sophie, Huis Rudy, Neutelings Godfrey, Riviere Nathalie, Thomasset Brigitte, Hawkins Simon, Lucau-Danila Anca
Université Lille Nord de France, Lille 1, UMR INRA 1281, SADV, F- 59650 Villeneuve d'Ascq cedex, France.
BMC Res Notes. 2013 Feb 4;6:43. doi: 10.1186/1756-0500-6-43.
We performed a Nimblegen intra-platform microarray comparison by assessing two categories of flax target probes (short 25-mers oligonucleotides and long 60-mers oligonucleotides) in identical conditions of target production, design, labelling, hybridization, image analyses, and data filtering. We compared technical parameters of array hybridizations, precision and accuracy as well as specific gene expression profiles.
Comparison of the hybridization quality, precision and accuracy of expression measurements, as well as an interpretation of differential gene expression in flax tissues were performed. Both array types yielded reproducible, accurate and comparable data that are coherent for expression measurements and identification of differentially expressed genes. 60-mers arrays gave higher hybridization efficiencies and therefore were more sensitive allowing the detection of a higher number of unigenes involved in the same biological process and/or belonging to the same multigene family.
The two flax arrays provide a good resolution of expressed functions; however the 60-mers arrays are more sensitive and provide a more in-depth coverage of candidate genes potentially involved in different biological processes.
我们通过在相同的靶标生成、设计、标记、杂交、图像分析和数据过滤条件下，评估两类亚麻靶标探针（25个碱基的短寡核苷酸和60个碱基的长寡核苷酸），进行了Nimblegen平台内微阵列比较。我们比较了阵列杂交的技术参数、精度和准确性以及特定基因表达谱。
对杂交质量、表达测量的精度和准确性以及亚麻组织中差异基因表达的解释进行了比较。两种阵列类型都产生了可重复、准确且可比的数据，这些数据在表达测量和差异表达基因的鉴定方面是一致的。60个碱基的阵列具有更高的杂交效率，因此更敏感，能够检测到更多参与相同生物学过程和/或属于同一多基因家族的单基因。
两种亚麻阵列都能很好地解析表达的功能；然而，60个碱基的阵列更敏感，能更深入地覆盖可能参与不同生物学过程的候选基因。
