July 2015

The CRI Bioinformatics Core has expanded its bioinformatics analysis services to include support for proteomics data. The new proteomics analysis pipeline includes raw MS data processing, deisotoping, data conversion, spectral filtering, spectral library creation, extracted ion chromatogram generation (MASIC), peptide and protein identification (X!Tandem, MaxQuant, Mascot, MSGF+), quantification (MaxQuant, Scaffold), targeted assay generation (Skyline), and dataset alignment and feature generation (MultiAlign). Additional proteomics services include profiling of post-translational modifications (phosphorylation, glycosylation, etc.), statistical analysis for labeled and label-free proteomics, and pathway enrichment analysis (Ingenuity Pathway Analysis).