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  Transcriptome analysis by strand-specific sequencing of complementary DNA

Parkhomchuk, D., Borodina, T., Amstislavskiy, V., Banaru, M., Hallen, L., Krobitsch, S., et al. (2009). Transcriptome analysis by strand-specific sequencing of complementary DNA. Nucleic Acids Research, 37(18), e123-e123. doi:10.1093/nar/gkp596.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0010-7CFE-7 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0010-7CFF-5
Genre: Journal Article
Alternative Title : NAR

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 Creators:
Parkhomchuk, Dmitri1, Author              
Borodina, Tatiana2, Author              
Amstislavskiy, Vyacheslav3, Author              
Banaru, Maria4, Author
Hallen, Linda1, Author              
Krobitsch, Sylvia5, Author              
Lehrach, Hans1, Author              
Soldatov, Alexey4, Author
Affiliations:
1Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433550              
2Technology Development(Alexey Soldatov), Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479657              
3Human Chromosome 21 (Marie-Laure Yaspo), Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479652              
4Max Planck Society, ou_persistent13              
5Neurodegenerative Disorders (Sylvia Krobitsch), Independent Junior Research Groups (OWL), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479661              

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 Abstract: High-throughput complementary DNA sequencing (RNA-Seq) is a powerful tool for whole-transcriptome analysis, supplying information about a transcript's expression level and structure. However, it is difficult to determine the polarity of transcripts, and therefore identify which strand is transcribed. Here, we present a simple cDNA sequencing protocol that preserves information about a transcript's direction. Using Saccharomyces cerevisiae and mouse brain transcriptomes as models, we demonstrate that knowing the transcript's orientation allows more accurate determination of the structure and expression of genes. It also helps to identify new genes and enables studying promoter-associated and antisense transcription. The transcriptional landscapes we obtained are available online.

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Language(s): eng - English
 Dates: 2009-10
 Publication Status: Published in print
 Pages: -
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 Table of Contents: -
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 Degree: -

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Title: Nucleic Acids Research
  Alternative Title : NAR
Source Genre: Journal
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Pages: - Volume / Issue: 37 (18) Sequence Number: - Start / End Page: e123 - e123 Identifier: ISSN: 0305-1048