Peptide features were identified with the Progenesis QI v4.0 algorithm, aligned across all files, and annotated with the peptide identification resulting from the database search result from Proteome Discovery and Mascot. Unique tryptic peptides corresponding to the spiked-in proteins were quantified using the feature areas as calculated by the Progenesis algorithm. The differential abundance analysis was performed by MSstats (v3.13.5) R package. Details for data processing and statistical analysis are available in description.pdf ('Methods' folder).
**Publication : Choi et al. (Under revision) MSstats increases the reproducibility of detecting differentially abundant proteins across tools that process raw mass spectra.
[doi:10.25345/C59T6V]
[See
results attachment job
for details]
Keywords: MassIVE.quant reviewed - Platinum
Number of Files: | |
Total Size: | |
Experimental Design | |
Conditions:
|
|
Biological Replicates:
|
|
Technical Replicates:
|
|
Identification Results | |
Proteins (Human, Remapped):
|
|
Proteins (Reported):
|
|
Peptides:
|
|
Variant Peptides:
|
|
PSMs:
|
|
Quantification Results | |
Differential Proteins:
|
|
Quantified Proteins:
|
|
Browse Reanalysis Files | |
Browse Quantification Results | Browse Metadata |
FTP Download Link (click to copy):
|