By default the results report (.pdResult file) opens to the Proteins page.
The Proteins page reports all of the proteins identified in the experiment that pass any user-defined threshold such as FDR. From this page, you can see the UniProt Accession and the number of proteoforms and isoforms of each protein identified in the experiment. Additionally, the number of PrSMs and characterized proteoforms (that is, proteoforms with C-Score greater than 40) are listed. If you enabled FDR, then the Q-Value for each protein is also displayed.
Column | Description |
---|---|
Accession | UniProtâ„¢ accession identifiers used to cite UniProt entries. |
# of Isoforms | The number of isoforms identified from the associated protein accession. |
# of Isoforms with Characterized Proteoforms | The number of isoforms with proteoforms that have a C-Score greater than 40. |
# Proteoforms | The number of identified proteoforms from the associated UniProt protein accession. |
Proteoform Characterization Confidence | The visual indication of C-Score confidence (default values are >40=green,<40->3=yellow, <3=red). You can define these thresholds in the ProSight Protein and Proteoform Filter node in the consensus workflow. |
# Characterized Proteoforms | The number of proteoforms having a C-Score greater than 40. |
Q-value | The likelihood of discovering the associated protein by chance given the experimental evidence. |
Localized Modifications | Proteoform post-translational modifications confidently localized by fragment matches in one or more PrSMs. |
Non-localized Modifications | Proteoform post-translational modifications that could be confidently localized by fragment matches in any PrSM. |