Using Galaxy-P to leverage RNA-Seq for the discovery of novel protein variations

@inproceedings{Sheynkman2014UsingGT,
  title={Using Galaxy-P to leverage RNA-Seq for the discovery of novel protein variations},
  author={Gloria M. Sheynkman and James E. Johnson and Pratik D Jagtap and Michael R. Shortreed and Getiria Onsongo and Brian L Frey and Timothy J. Griffin and Lloyd M. Smith},
  booktitle={BMC Genomics},
  year={2014}
}
Current practice in mass spectrometry (MS)-based proteomics is to identify peptides by comparison of experimental mass spectra with theoretical mass spectra derived from a reference protein database; however, this strategy necessarily fails to detect peptide and protein sequences that are absent from the database. We and others have recently shown that customized proteomic databases derived from RNA-Seq data can be employed for MS-searching to both improve MS analysis and identify novel… CONTINUE READING
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