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Table 6 Summary of frame conflicts within coding-exon (CDS) annotations confirmed by overlapping 6-frame translated genome-mapped peptides.

From: Deep proteogenomics; high throughput gene validation by multidimensional liquid chromatography and mass spectrometry of proteins from the fungal wheat pathogen Stagonospora nodorum

TOTAL peptide-CDS matches in frame

11224

TOTAL peptide-CDS matches out of frame

482

Genes with all peptide matches to CDS in frame

715

Version 1

13

Version 2

702

Genes with all peptide matches to CDS out of frame

86

Version 1

10

Version 2

76

Genes with peptide matches to CDS both in and out of frame

58

Version 1

1

Version 2

57

  1. The majority of peptide matches agree with current coding-exon frames, however there are 144 (86+58) gene annotations requiring frame reassessment.
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BMC Bioinformatics

ISSN: 1471-2105

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