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Scaffold PTM 2.0

Scaffold PTM 2.0. Brief intro to Scaffold PTM What’s new in 2.0! Global motif analysis (known/unknown) Quantification at modification sites Localization filtering. y1 – y5. b12 – b16. Enter Scaffold PTM. Motifs. Motif View. Motif View. Motif View. Motif View. Motif View. Motif View.

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Scaffold PTM 2.0

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  1. Scaffold PTM 2.0 • Brief intro to Scaffold PTM • What’s new in 2.0! • Global motif analysis (known/unknown) • Quantification at modification sites • Localization filtering

  2. y1 – y5 b12 – b16

  3. Enter Scaffold PTM

  4. Motifs

  5. Motif View

  6. Motif View

  7. Motif View

  8. Motif View

  9. Motif View

  10. Motif View

  11. Motif Scores

  12. Motif Scores • N = # modified sites in data set • n = # AA combo in data set • p = prior (percentage of AA combo in FASTA) Schwartz D, and Gygi SP 2005 (doi:10.1038/nbt1146)

  13. Adding Motifs By Hand

  14. Adding Motifs By Hand

  15. Adding Motifs By Hand

  16. Adding Motifs By Hand

  17. Adding Motifs By Hand

  18. Quantify

  19. Quantify View

  20. Quantify View

  21. ScaffoldQuantML Report

  22. Quantify View

  23. Quantify View

  24. Quantify View

  25. Localization Filtering

  26. Localization Threshold

  27. Localization Threshold

  28. Scaffold PTM 2.0 • What’s new in 2.0! • Global motif analysis (known/unknown) • Quantification at modification sites • Localization filtering • Loads of bug fixes and minor enhancements

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