Mascot quantifications can be explored and edited using the Mascot quantifications viewer.
Mascot quantifications viewer
The Mascot quantifications viewer shows you three tabs with three different tables:
To export any table you must click the
button, which will show you the Export to CSV option that allows you to save the selected table into a CSV file.
Replicates table
The Replicates table shows you all protein quantifications. Each row represents a protein quantification and as you can see in the image below, columns provide the following information for each one:
The information on this table is used to construct the other two tables as it is explained below.
Replicates by protein table
The Replicates by protein table allows you to compare replicates by displaying each protein in a row and protein quantification values for replicates in columns. Protein quantifications at the Replicates table are grouped by their protein names.
Conditions table
Finally, the Conditions table allows you to compare conditions by displaying each protein in a row and conditions in columns. Protein quantifications at the Replicates table are grouped by their protein names. Moreover, the final columns of the table show both p-value and corrected p-value (or q-value) of the t-test between protein quantification or protein mass values in each condition. Note that the value used for the t-test is selected in the Import Masot quantification operation. Correction of p-values is performed by applying the Benjamini-Hochberg FDR procedure.
For each condition, the following nine columns are created: