Detection of transcriptional difference of porcine imprinted genes using different microarray platforms.
Detection of transcriptional difference of porcine imprinted genes using different microarray platforms.
复制标题
使用不同的微阵列平台检测猪印迹基因的转录差异。
DOI：
10.1186/1471-2164-7-328
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发表时间：
2006-12-28
期刊：
影响因子：
4.4
通讯作者：
Piedrahita JA
中科院分区：
文献类型：
--
作者：
Tsai S;Mir B;Martin AC;Estrada JL;Bischoff SR;Hsieh WP;Cassady JP;Freking BA;Nonneman DJ;Rohrer GA;Piedrahita JA
目前，对猪进行基因表达谱研究存在多种选择。为了确定一些现有微阵列的性能，我们比较了Affymetrix猪、Affymetrix人U133+2.0和美国猪基因组协调计划斑点玻璃寡核苷酸微阵列的可重复性、覆盖范围、平台无关和依赖敏感性，使用来自对照和单性猪胚胎的成纤维细胞系。两种Affymetrix阵列的技术重复之间的阵列组相关性证明了可比性。玻璃寡核苷酸阵列显示出更大的可变性，此外，由于玻片印刷缺陷，大约10%的探针不得不被丢弃。Affymetrix Human阵列的探针水平分析显示，由于跨物种杂交的影响，探针组内存在显着的可变性。Affymetrix猪阵列在所有阵列共有的探针中鉴定出最大数量的差异表达基因，这是平台灵敏度的衡量标准。Affymetrix猪阵列还使用每个阵列上的所有探针确定了最大数量的差异表达的已知印迹基因，这是对该特定实验实际性能的特别测量。我们得出结论，在目前可用和测试的平台中，Affymetrix猪阵列是猪基因组研究中最敏感和可重复性最高的微阵列。
Presently, multiple options exist for conducting gene expression profiling studies in swine. In order to determine the performance of some of the existing microarrays, Affymetrix Porcine, Affymetrix Human U133+2.0, and the U.S. Pig Genome Coordination Program spotted glass oligonucleotide microarrays were compared for their reproducibility, coverage, platform independent and dependent sensitivity using fibroblast cell lines derived from control and parthenogenic porcine embryos. Array group correlations between technical replicates demonstrated comparable reproducibility in both Affymetrix arrays. Glass oligonucleotide arrays showed greater variability and, in addition, approximately 10% of probes had to be discarded due to slide printing defects. Probe level analysis of Affymetrix Human arrays revealed significant variability within probe sets due to the effects of cross-species hybridization. Affymetrix Porcine arrays identified the greatest number of differentially expressed genes amongst probes common to all arrays, a measure of platform sensitivity. Affymetrix Porcine arrays also identified the greatest number of differentially expressed known imprinted genes using all probes on each array, an ad hoc measure of realistic performance for this particular experiment. We conclude that of the platforms currently available and tested, the Affymetrix Porcine array is the most sensitive and reproducible microarray for swine genomic studies.
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影响因子：
7
作者：
Barczak, A;Rodriguez, MW;Erle, DJ
通讯作者：
Erle, DJ
猪RNA与人尼龙微阵列的跨物种杂交。
影响因子：
4.4
作者：
Moody, DE;Zou, Z;McIntyre, L
通讯作者：
McIntyre, L
影响因子：
4.4
作者：
Grigoryev DN;Ma SF;Simon BA;Irizarry RA;Ye SQ;Garcia JG
通讯作者：
Garcia JG
影响因子：
14.9
作者：
Ji, W;Zhou, WL;Davis, S
通讯作者：
Davis, S
影响因子：
2.1
作者：
Irizarry, RA;Hobbs, B;Speed, TP
通讯作者：
Speed, TP