TY - JOUR AU - Washburn, M. P. AU - Wolters, D. AU - Yates, J. R. PY - 2001 DA - 2001// TI - Large-scale analysis of the yeast proteome by multidimensional protein identification technology JO - Nat Biotechnol VL - 19 UR - https://doi.org/10.1038/85686 DO - 10.1038/85686 ID - Washburn2001 ER - TY - JOUR AU - Ünlü, M. AU - Morgan, M. E. AU - Minden, J. S. PY - 1997 DA - 1997// TI - Difference gel electrophoresis. A single gel method for detecting changes in protein extracts JO - Electrophoresis VL - 18 UR - https://doi.org/10.1002/elps.1150181133 DO - 10.1002/elps.1150181133 ID - Ünlü1997 ER - TY - JOUR AU - Gygi, S. P. AU - Rist, B. AU - Gerber, S. A. AU - Turecek, F. AU - Gelb, M. H. AU - Aebersold, R. PY - 1999 DA - 1999// TI - Quantitative analysis of complex protein mixtures using isotope-coded affinity tags JO - Nat Biotechnol VL - 17 UR - https://doi.org/10.1038/13690 DO - 10.1038/13690 ID - Gygi1999 ER - TY - JOUR AU - Ross, P. L. AU - Huang, Y. N. AU - Marchese, J. N. AU - Williamson, B. AU - Parker, K. AU - Hattan, S. PY - 2004 DA - 2004// TI - Multiplexed protein quantitation in saccharomyces cerevisiae using amine-reactive isobaric tagging reagents JO - Mol Cell Proteomics VL - 3 UR - https://doi.org/10.1074/mcp.M400129-MCP200 DO - 10.1074/mcp.M400129-MCP200 ID - Ross2004 ER - TY - JOUR AU - Ong, S. E. AU - Blagoev, B. AU - Kratchmarova, I. AU - Kristensen, D. B. AU - Steen, H. AU - Pandey, A. PY - 2002 DA - 2002// TI - Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics JO - Mol. Cell. Proteomics VL - 1 UR - https://doi.org/10.1074/mcp.M200025-MCP200 DO - 10.1074/mcp.M200025-MCP200 ID - Ong2002 ER - TY - JOUR AU - Asara, J. M. AU - Christofk, H. R. AU - Freimark, L. M. AU - Cantley, L. C. PY - 2008 DA - 2008// TI - A label-free quantification method by MS/MS TIC compared to SILAC and spectral counting in a proteomics screen JO - Proteomics VL - 8 UR - https://doi.org/10.1002/pmic.200700426 DO - 10.1002/pmic.200700426 ID - Asara2008 ER - TY - JOUR AU - Colangelo, C. M. AU - Chung, L. AU - Bruce, C. AU - Cheung, K. PY - 2013 DA - 2013// TI - Review of software tools for design and analysis of large scale MRM proteomic datasets JO - Methods VL - 61 UR - https://doi.org/10.1016/j.ymeth.2013.05.004 DO - 10.1016/j.ymeth.2013.05.004 ID - Colangelo2013 ER - TY - JOUR AU - Liebler, D. C. AU - Zimmerman, L. J. PY - 2013 DA - 2013// TI - Targeted quantitation of proteins by mass spectrometry JO - Biochemistry (N Y ) VL - 52 UR - https://doi.org/10.1021/bi400110b DO - 10.1021/bi400110b ID - Liebler2013 ER - TY - JOUR AU - Lange, V. AU - Malmström, J. A. AU - Didion, J. AU - King, N. L. AU - Johansson, B. P. AU - Schäfer, J. PY - 2008 DA - 2008// TI - Targeted quantitative analysis of streptococcus pyogenes virulence factors by multiple reaction monitoring JO - Mol. Cell. Proteomics VL - 7 UR - https://doi.org/10.1074/mcp.M800032-MCP200 DO - 10.1074/mcp.M800032-MCP200 ID - Lange2008 ER - TY - JOUR AU - Pan, S. AU - Aebersold, R. AU - Chen, R. AU - Rush, J. AU - Goodlett, D. R. AU - McIntosh, M. W. PY - 2009 DA - 2009// TI - Mass spectrometry based targeted protein quantification: Methods and applications JO - J Proteome Res VL - 8 UR - https://doi.org/10.1021/pr800538n DO - 10.1021/pr800538n ID - Pan2009 ER - TY - JOUR AU - Picotti, P. AU - Aebersold, R. PY - 2012 DA - 2012// TI - Selected reaction monitoring-based proteomics: Workflows, potential, pitfalls and future directions JO - Nat Methods VL - 9 UR - https://doi.org/10.1038/nmeth.2015 DO - 10.1038/nmeth.2015 ID - Picotti2012 ER - TY - JOUR AU - Kondrat, R. W. AU - McClusky, G. A. AU - Cooks, R. G. PY - 1978 DA - 1978// TI - Multiple reaction monitoring in mass spectrometry/mass spectrometry for direct analysis of complex mixtures JO - Anal Chem VL - 50 UR - https://doi.org/10.1021/ac50036a020 DO - 10.1021/ac50036a020 ID - Kondrat1978 ER - TY - JOUR AU - Domon, B. AU - Aebersold, R. PY - 2006 DA - 2006// TI - Mass spectrometry and protein analysis JO - Science (New York, NY) VL - 312 UR - https://doi.org/10.1126/science.1124619 DO - 10.1126/science.1124619 ID - Domon2006 ER - TY - JOUR AU - Shi, T. AU - Su, D. AU - Liu, T. AU - Tang, K. AU - Camp, D. G. AU - Qian, W. J. PY - 2012 DA - 2012// TI - Advancing the sensitivity of selected reaction monitoring‐based targeted quantitative proteomics JO - Proteomics VL - 12 UR - https://doi.org/10.1002/pmic.201100436 DO - 10.1002/pmic.201100436 ID - Shi2012 ER - TY - JOUR AU - Lange, V. AU - Picotti, P. AU - Domon, B. AU - Aebersold, R. PY - 2008 DA - 2008// TI - Selected reaction monitoring for quantitative proteomics: A tutorial JO - Mol Syst Biol VL - 4 UR - https://doi.org/10.1038/msb.2008.61 DO - 10.1038/msb.2008.61 ID - Lange2008 ER - TY - JOUR AU - Peterson, A. C. AU - Russell, J. D. AU - Bailey, D. J. AU - Westphall, M. S. AU - Coon, J. J. PY - 2012 DA - 2012// TI - Parallel reaction monitoring for high resolution and high mass accuracy quantitative, targeted proteomics JO - Mol. Cell. Proteomics VL - 11 UR - https://doi.org/10.1074/mcp.O112.020131 DO - 10.1074/mcp.O112.020131 ID - Peterson2012 ER - TY - JOUR AU - Brusniak, M. Y. AU - Chu, C. S. AU - Kusebauch, U. AU - Sartain, M. J. AU - Watts, J. D. AU - Moritz, R. L. PY - 2012 DA - 2012// TI - An assessment of current bioinformatic solutions for analyzing LC-MS data acquired by selected reaction monitoring technology JO - Proteomics VL - 12 UR - https://doi.org/10.1002/pmic.201100571 DO - 10.1002/pmic.201100571 ID - Brusniak2012 ER - TY - JOUR AU - Whiteaker, J. R. AU - Halusa, G. N. AU - Hoofnagle, A. N. AU - Sharma, V. AU - MacLean, B. AU - Yan, P. PY - 2014 DA - 2014// TI - CPTAC assay portal: A repository of targeted proteomic assays JO - Nat Methods VL - 11 UR - https://doi.org/10.1038/nmeth.3002 DO - 10.1038/nmeth.3002 ID - Whiteaker2014 ER - TY - JOUR AU - Mani, D. R. AU - Abbatiello, S. E. AU - Carr, S. A. PY - 2012 DA - 2012// TI - Statistical characterization of multiple-reaction monitoring mass spectrometry (MRM-MS) assays for quantitative proteomics JO - BMC Bioinformatics VL - 13 UR - https://doi.org/10.1186/1471-2105-13-S16-S9 DO - 10.1186/1471-2105-13-S16-S9 ID - Mani2012 ER - TY - JOUR AU - Carr, S. A. AU - Abbatiello, S. E. AU - Ackermann, B. L. AU - Borchers, C. AU - Domon, B. AU - Deutsch, E. W. PY - 2014 DA - 2014// TI - Targeted peptide measurements in biology and medicine: Best practices for mass spectrometry-based assay development using a fit-for-purpose approach JO - Mol. Cell. Proteomics VL - 13 UR - https://doi.org/10.1074/mcp.M113.036095 DO - 10.1074/mcp.M113.036095 ID - Carr2014 ER - TY - JOUR AU - Cham Mead, J. A. AU - Bianco, L. AU - Bessant, C. PY - 2010 DA - 2010// TI - Free computational resources for designing selected reaction monitoring transitions JO - Proteomics VL - 10 UR - https://doi.org/10.1002/pmic.200900396 DO - 10.1002/pmic.200900396 ID - Cham Mead2010 ER - TY - JOUR AU - MacLean, B. AU - Tomazela, D. M. AU - Shulman, N. AU - Chambers, M. AU - Finney, G. L. AU - Frewen, B. PY - 2010 DA - 2010// TI - Skyline: An open source document editor for creating and analyzing targeted proteomics experiments JO - Bioinformatics VL - 26 UR - https://doi.org/10.1093/bioinformatics/btq054 DO - 10.1093/bioinformatics/btq054 ID - MacLean2010 ER - TY - BOOK AU - Math, C. PY - 2014 DA - 2014// TI - The Apache Commons Mathematics Library ID - Math2014 ER - TY - JOUR AU - Thomas, S. N. AU - Harlan, R. AU - Chen, J. AU - Aiyetan, P. AU - Liu, Y. AU - Sokoll, L. J. PY - 2015 DA - 2015// TI - Multiplexed Targeted Mass Spectrometry-Based Assays for the Quantification of N-Linked Glycosite-Containing Peptides in Serum JO - Anal Chem VL - 87 UR - https://doi.org/10.1021/acs.analchem.5b02063 DO - 10.1021/acs.analchem.5b02063 ID - Thomas2015 ER - TY - JOUR AU - Sharma, V. AU - Eckels, J. AU - Taylor, G. K. AU - Shulman, N. J. AU - Stergachis, A. B. AU - Joyner, S. A. PY - 2014 DA - 2014// TI - Panorama: a targeted proteomics knowledge base JO - J Proteome Res VL - 13 UR - https://doi.org/10.1021/pr5006636 DO - 10.1021/pr5006636 ID - Sharma2014 ER -