Method
Accurate proteome-wide protein quantification from high-resolution 15N mass spectra
- Equal contributors
1 Department of Computer Science, Washington Rd, Princeton University, Princeton, NJ 08544, USA
2 Lewis-Sigler Institute for Integrative Genomics Washington Rd, Princeton University, Princeton, NJ 08544, USA
3 Current address: Department of Human Genetics, South Ellis Avenue, University of Chicago, Chicago, IL 60637, USA
4 Department of Molecular Biology, Washington Rd, Princeton University, Princeton, NJ 08544, USA
5 Current address: Illumina Inc., Towne Centre Drive, San Diego, CA 92121, USA
6 Cold Spring Harbor Laboratory, Bungtown Rd, Cold Spring Harbor, NY 11724, USA
7 Current address: Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, King's College Circle, Toronto, Ontario, M5S 1A1, Canada
8 Department of Ecology and Evolutionary Biology, Washington Rd, Princeton University, Princeton, NJ 08544, USA
9 Howard Hughes Medical Institute, Washington Rd, Princeton University, Princeton, NJ 08544, USA
10 Princeton Mass Spectrometry Center, Washington Rd, Princeton University, Princeton, NJ 08544, USA
11 Current address: Department of Biochemistry and Molecular Biophysics, 116th Street and Broadway, Columbia University, New York, NY 10027, USA
Genome Biology 2011, 12:R122 doi:10.1186/gb-2011-12-12-r122
Published: 19 December 2011Additional files
Additional file 1:
Supplementary figures. Additional figures referred to in the text.
Format: PDF Size: 1.7MB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional file 2:
Peptide ratios for fractionated data set. Raw peptide ratios reported by our method for the solubility and SCX fractionated E. coli protein samples.
Format: XLS Size: 12.6MB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional file 3:
Sensitivity and specificity results. False discovery rate (FDR) 1% score thresholds and total number of quantified peptides with and without our method for limiting peptides scored during MS/MS database search based on nitrogen composition applied to a data set.
Format: XLS Size: 11KB Download file
This file can be viewed with: Microsoft Excel Viewer


