DeepSAGE--digital transcriptomics with high sensitivity, simple experimental protocol and multiplexing of samples

Digital transcriptomics with pyrophosphatase based ultra-high throughput DNA sequencing of di-tags provides high sensitivity and cost-effective gene expression profiling. Sample preparation and handling are greatly simplified compared to Serial Analysis of Gene Expression (SAGE). We compare DeepSAGE...

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Bibliographic Details
Published in:Nucleic acids research 2006-11, Vol.34 (19), p.e133-e133
Main Authors: Nielsen, Kåre L, Høgh, Annabeth Laursen, Emmersen, Jeppe
Format: Article
Language:English
Subjects:
Diphosphates - chemistry
Gene Expression Profiling - methods
Gene Expression Regulation, Plant
Methods Online
RNA, Messenger - analysis
Sequence Analysis, DNA
Sequence Tagged Sites
Solanum tuberosum
Solanum tuberosum - genetics
Solanum tuberosum - metabolism
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Summary:Digital transcriptomics with pyrophosphatase based ultra-high throughput DNA sequencing of di-tags provides high sensitivity and cost-effective gene expression profiling. Sample preparation and handling are greatly simplified compared to Serial Analysis of Gene Expression (SAGE). We compare DeepSAGE and LongSAGE data and demonstrate greater power of detection and multiplexing of samples derived from potato. The transcript analysis revealed a great abundance of up-regulated potato transcripts associated with stress in dormant potatoes compared to harvest. Importantly, many transcripts were detected that cannot be matched to known genes, but is likely to be part of the abiotic stress-response in potato.
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gkl714