Analysis Type

For more information: ? Choose the strategy for analysis with two choices:
1. Choose the search engine that was used for generating the PSM list.
2. Choose the model type to run the differential expression analysis with (between linear model (two sample) vs limma (one sample))

NOTE: No default set but recommend setting of COMET search + Magma (linea model). Check "About" page or manuscript for more details.

Use SEQUEST Search results:







Use COMET Search results:



IP-TMT (Mutation or drug treatment) IP-TMT IP-TMT (Fusions) Fusion-TMT Whole Proteome TMT WholeProt-TMT PhosphoProteome TMT PhosProt-TMT