1 Intro

This report provides some overall description of the database search. Users can use this to quickly check the overal quality of the experiment

2 Take-home figures

  • Peptide Sequences Identified in total: 35921

  • Avearge ms/ms identification rate(%): 20.9

  • Groups: , condition1, condition2, condition3, condition4

3 MSMS id rate

Why you should pay attention to MSMS Id rate?

  1. MS ID rate is a good repretation of the MS run quality. Raw files from Q-Exactive series should have roughly around 50% ms ID rate (Percentage of MSMS spectra identified as peptided, at a 1% FDR).

  2. MS ID rate should also be well-reproduced across samples and groupings.

  • Check the raw files if they have obnormally low ID rate, usually with abnormal LC profile or low MS intensity.
  • A decreasing MS ID treand along sample run order indicates a performance drop of the MS: your MS might need to be cleaned. If you did not randomize the sample run-order, the data might not be usable.

4 Peptide Sequence

5 Averaged performance

check the averaged performance from all raw files: