High-throughput illumina strand-specific RNA sequencing library preparation.

@article{Zhong2011HighthroughputIS,
  title={High-throughput illumina strand-specific RNA sequencing library preparation.},
  author={Silin Zhong and Je-Gun Joung and Yi Zheng and Yun-Ru Chen and Bao Liu and Ying Shao and Jenny Z. Xiang and Zhangjun Fei and James J. Giovannoni},
  journal={Cold Spring Harbor protocols},
  year={2011},
  volume={2011 8},
  pages={
          940-9
        }
}
Silin Zhong,1,2,5 Je-Gun Joung,1 Yi Zheng,1 Yun-ru Chen,1 Bao Liu,2 Ying Shao,3 Jenny Z. Xiang,3 Zhangjun Fei,1,4,5 and James J. Giovannoni1,4,5 Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, NY 14853, USA Institute of Genetics and Cytology, Northeast Normal University, Changchun, 130024, China Weill Medical College, Cornell University, New York, NY 10021, USA U.S. Department of Agriculture/Agriculture Research Service, Plant, Soil, and Nutrition Laboratory, Ithaca, NY… 

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References

SHOWING 1-4 OF 4 REFERENCES

Strand-specific deep sequencing of the transcriptome.

DSSS is proposed as a simple and efficient strategy for strand-specific transcriptome sequencing and as a tool for genome annotation exploiting the increased read lengths that next-generation sequencing technology now is capable to deliver.

Transcriptome analysis by strand-specific sequencing of complementary DNA

It is demonstrated that knowing the transcript's orientation allows more accurate determination of the structure and expression of genes and helps to identify new genes and enables studying promoter-associated and antisense transcription.

RNA-Seq: a revolutionary tool for transcriptomics

The RNA-Seq approach to transcriptome profiling that uses deep-sequencing technologies provides a far more precise measurement of levels of transcripts and their isoforms than other methods.

IDENTIFICATION OF GENETIC VARIANTS USING BARCODED MULTIPLEXED SEQUENCING

This work developed a generalized framework for multiplexed resequencing of targeted human genome regions on the Illumina Genome Analyzer using degenerate indexed DNA bar codes ligated to fragmented DNA before sequencing and evaluated the use of Bayes factors for discovering and genotyping polymorphisms.