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Advancing RNA-Seq analysis

New methods for analyzing RNA-Seq data enable de novo reconstruction of the transcriptome.

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Figure 1: Strategies for reconstructing transcripts from RNA-Seq reads.

References

  1. Adams, M.D. et al. Science 252, 1651–1656 (1991).

    Article  CAS  Google Scholar 

  2. Haas, B. J. et al. Genome Biol 3, RESEARCH0029 (2002).

  3. Nagalakshmi, U. et al. Science 320, 1344–1349 (2008).

    Article  CAS  Google Scholar 

  4. Trapnell, C. et al. Nat. Biotechnol. 28, 503–519 (2010).

    Article  Google Scholar 

  5. Guttman, M. et al. Nat. Biotechnol. 28, 511–515 (2010).

    Article  Google Scholar 

  6. Guttman, M. et al. Nature 458, 223–227 (2009).

    Article  CAS  Google Scholar 

  7. Temple, G. et al. Genome Res. 19, 2324–2333 (2009).

    Article  Google Scholar 

  8. Wang, Z., Gerstein, M. & Snyder, M. Nat. Rev. Genet. 10, 57–63 (2009).

    Article  CAS  Google Scholar 

  9. Mortazavi, A., Williams, B.A., McCue, K., Schaeffer, L. & Wold, B. Nat. Methods 5, 621–628 (2008).

    Article  CAS  Google Scholar 

  10. Wang, E.T. et al. Nature 456, 470–476 (2008).

    Article  CAS  Google Scholar 

  11. Birol, I. et al. Bioinformatics 25, 2872–2877 (2009).

    Article  CAS  Google Scholar 

  12. Denoeud, F. et al. Genome Biol. 9, R175 (2008).

    Article  Google Scholar 

  13. Yassour, M. et al. Proc. Natl. Acad. Sci. USA 106, 3264–3269 (2009).

    Article  CAS  Google Scholar 

  14. Trapnell, C., Pachter, L. & Salzberg, S.L. Bioinformatics 25, 1105–1111 (2009).

    Article  CAS  Google Scholar 

  15. Carninci, P. et al. Science 309, 1559–1563 (2005).

    Article  CAS  Google Scholar 

Download references

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Correspondence to Brian J Haas or Michael C Zody.

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Haas, B., Zody, M. Advancing RNA-Seq analysis. Nat Biotechnol 28, 421–423 (2010). https://doi.org/10.1038/nbt0510-421

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