SuperSAGE: a modern platform for genome-wide quantitative transcript profiling.
SuperSAGE: a modern platform for genome-wide quantitative transcript profiling.
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DOI：
10.2174/138920108785915157
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发表时间：
2008-09
影响因子：
2.8
通讯作者：
H. Matsumura;D. Krüger;G. Kahl;R. Terauchi
中科院分区：
文献类型：
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作者：
H. Matsumura;D. Krüger;G. Kahl;R. Terauchi
SuperSAGE 是 SAGE（基因表达序列分析）技术的一种变体，该技术允许使用 III 型限制性内切酶 EcoP15I 通过从 cDNA 中提取的 26 bp 标签进行转录本分析。其标签长度是SAGE所有版本中最长的，有利于标签到基因的注释，从而使该技术适用于任何真核生物体。对于具有可用基因组或 cDNA 序列的模型生物，通过简单的 BLAST 搜索来唯一定义与 26 bp 标签相对应的基因。对于没有这些序列信息的非模式生物，26-bp标签序列可直接用于设计PCR引物，通过3'-或5'-RACE扩增相应基因的cDNA。此外，SuperSAGE允许各种应用，包括“相互作用转录组”和“SuperSAGE阵列”。新兴的“下一代测序”技术完美地补充了 SuperSAGE，它们的结合产生了一个新颖的转录组平台，该平台在通量、数据质量和分析成本方面优于所有不同的微阵列变体。
SuperSAGE is a variant of SAGE (Serial Analysis of Gene Expression) technology, which allows making transcript profiling by 26-bp tags extracted from cDNA employing the typeIII restriction enzyme EcoP15I. Its tag length is the longest among all the versions of SAGE, and is advantageous in tag-to-gene annotation, thereby allowing the technique to applicable to any eukaryotic life organisms. For model organisms with genome or cDNA sequences available, genes corresponding to 26-bp tags are uniquely defined by simple BLAST search. For non-model organisms without these sequence information, the 26-bp tag sequence is directly applicable to design PCR primer for amplifying cDNA of corresponding genes by 3'- or 5'-RACE. Furthermore, SuperSAGE allows various applications including "interaction transcriptome" and "SuperSAGE array". Emerging "Next Generation Sequencing" technologies perfectly complement SuperSAGE, and their combination has generated a novel transcriptome platform, that is superior to all the different microarray variants in terms of throughput, data quality and cost of analysis.