SuperSAGE: a modern platform for genome-wide quantitative transcript profiling.
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.
Iwate Biotechnology Research Center, Narita 22-174-4, Kitakami, Iwate, 024-0003, Japan. hideoma@ibrc.or.jp
Hideo
H
Matsumura
Detlev H
DH
Krüger
Günter
G
Kahl
Ryohei
R
Terauchi
D002874:Chromosome Mapping / Q000379:methods*; D019295:Computational Biology / Q000379:methods*; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling / Q000639:trends*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D020543:Proteome / Q000378:metabolism*; D014157:Transcription Factors / Q000378:metabolism*
D020543:Proteome; D014157:Transcription Factors