Raw files were created using XCalibur 3.0.63 (Thermo Scientific) software and analysed with Thermo Proteome Discoverer 2.2.0.388 software suite (Thermo Scientific). The raw data files were processed as previously described 26 with the following modifications: the peak lists were submitted to Mascot 2.4.1and Sequest servers using the UniProt human database 28 which contained 20,338 protein sequences. The enzyme was set to Trypsin (Full) with max missed cleavage set to 2. The fixed modification was set to carbamidomethyl and variable modifications were set as oxidation (M), deamidation (NQ), and N-terminal methionine loss. Precursor and fragment mass tolerances were set at 8 ppm and 0.8 Da, respectively. Peptide spectral match validation was performed using Percolator setting the maximum Delta Cn to 0.05 and decoy database searches at 0.01 for target FDR (Strict), 0.05 (relaxed) and validation based on q-Value
[doi:10.25345/C5S100]
[dataset license: CC0 1.0 Universal (CC0 1.0)]
Keywords: dired blood spot
Principal Investigators: (in alphabetical order) |
Christoph H. Borchers, Segal Cancer Proteomics Centre, Lady Davis Institute, Jewish General Hospital, McGill University, Montreal, Quebec, H3T 1E2, Canada, Canada |
Submitting User: | aeshghi |
Eshghi A, Pistawka AJ, Liu J, Chen M, Sinclair NJT, Hardie DB, Elliott M, Chen L, Newman R, Mohammed Y, Borchers CH.
Concentration determination of >200 proteins in dried blood spots for biomarker discovery and validation.
Mol. Cell Proteomics. Epub 2020 Jan 2.
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