The DOI matches its Crossref record; 23 of the 24 references it cites were found in a registry or an index.
Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
Abstract
We describe an approach for the accurate quantification and concurrent sequence identification of the individual proteins within complex mixtures. The method is based on a class of new chemical reagents termed isotope-coded affinity tags (ICATs) and tandem mass spectrometry. Using this strategy, we compared protein expression in the yeast Saccharomyces cerevisiae, using either ethanol or galactose as a carbon source. The measured differences in protein expression correlated with known yeast metabolic function under glucose-repressed conditions. The method is redundant if multiple cysteinyl residues are present, and the relative quantification is highly accurate because it is based on stable isotope dilution techniques. The ICAT approach should provide a widely applicable means to compare quantitatively global protein expression in cells and tissues.
Overview
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
In the citing paper
“Chemical labeling (39–41) is in principle universally applicable, but because the labels are introduced later in the sample processing, some of the advantages in robustness are lost.”
From Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ (2014) · cites this paper as [39]
Citations
Cites
Eng, J. K., McCormack, A. L., & Yates, J. R. (1994) · Journal of the American Society for Mass Spectrometry · doi:10.1016/1044-0305(94)80016-2 · Cited by 6,484
Exploring the metabolic and genetic control of gene expression on a genomic scale.
Derisi, J., Iyer, V., & Brown, P. (1997) · Science · doi:10.1126/science.278.5338.680 · Cited by 4,832
Correlation between Protein and mRNA Abundance in Yeast
Gygi, S. P., Rochon, Y., Franza, B. R., & Aebersold, R. (1999) · Molecular and Cellular Biology · doi:10.1128/mcb.19.3.1720 · Cited by 3,819
Direct analysis of protein complexes using mass spectrometry
Link, A. J., Eng, J. K., Schieltz, D. M., Carmack, E., Mize, G. J., Morris, D. R., Garvik, B. M., & Yates, J. R. (1999) · Nature Biotechnology · doi:10.1038/10890 · Cited by 2,218
Error-Tolerant Identification of Peptides in Sequence Databases by Peptide Sequence Tags
Mann, M., & Wilm, M. S. (1994) · Analytical Chemistry · doi:10.1021/ac00096a002 · Cited by 1,473
Shevchenko, A., Jensen, O. N., Podtelejnikov, A. V., Sagliocco, F. A., Wilm, M. S., Vorm, O., Mortensen, P. M., Shevchenko, A., Boucherie, H., & Mann, M. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.25.14440 · Cited by 1,429
Accurate quantitation of protein expression and site-specific phosphorylation.
Oda, Y., Huang, K., Cross, F., Cowburn, D., & Chait, B. (1999) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.96.12.6591 · Cited by 1,011
Characterization of the Yeast Transcriptome
Velculescu, V. E., Zhang, L., Zhou, W., Vogelstein, R. J., Basrai, M. A., Bassett, D. E., Hieter, P., Vogelstein, B., & Kinzler, K. W. (1997) · Cell · doi:10.1016/s0092-8674(00)81845-0 · Cited by 973
Roth, F. P., Hughes, J. D., Estep, P. W., & Church, G. M. (1998) · Nature Biotechnology · doi:10.1038/nbt1098-939 · Cited by 939
Ronne, H. (1995) · Trends in Genetics · doi:10.1016/s0168-9525(00)88980-5 · Cited by 460
Flagged first, then by citations
1 of the 24 references couldn’t be matched to a known paper.
Research works printed but not linked: 1
- Johnston, M. & Carlson, M. in The molecular and cellular biology of the yeast Saccharomyces. (eds Jones, E.W., Pringle, J.R. & Broach, J.R.) 193–281 (Cold Spring Harbor Press, New York City; 1992).
Cited by
Sorted by citations
Items 1,001–1,009 of 1,009
den Bergh, G. V., Clerens, S., Vandesande, F., & Arckens, L. (2003) · Electrophoresis · doi:10.1002/elps.200390189 · Cited by 76
Enabling proteomic studies with RNA-seq: the proteome of tomato pollen as a test case
Lopez‐Casado, G., Covey, P. A., Bedinger, P. A., Mueller, L. A., Thannhauser, T. W., Zhang, S., Fei, Z., Giovannoni, J. J., & Rose, J. K. C. (2012) · PROTEOMICS · doi:10.1002/pmic.201100164 · Cited by 64
A perspective on proteomics in cell biology
Ahmad, Y., & Lamond, A. I. (2014) · Trends in Cell Biology · doi:10.1016/j.tcb.2013.10.010 · Cited by 54
Continuous in vivo Metabolism by NMR
Judge, M. T., Wu, Y., Tayyari, F., Hattori, A., Glushka, J., Ito, T., Arnold, J., & Edison, A. S. (2019) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2019.00026 · Cited by 53
“, 2000), protein profiling by ICAT (Gygi et al., 1999), and protein-protein interaction assays (Walhout et al.”
MethodMixed-effects statistical model for comparative LC–MS proteomics studies
Daly, D. S., Anderson, K. K., Panisko, E. A., Purvine, S. O., Fang, R., Monroe, M. E., & Baker, S. E. (2008) · Journal of Proteome Research · doi:10.1021/pr070441i · Cited by 50
Garge, N., Pan, H., Rowland, M. D., Cargile, B. J., Zhang, X., Cooley, P. C., Page, G. P., & Bunger, M. K. (2010) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m900378-mcp200 · Cited by 36
Wu, P., Zhao, Y., Haidacher, S. J., Wang, E., Parsley, M. O., Gao, J., Sadygov, R. G., Starkey, J. M., Luxon, B. A., Spratt, H., et al. (2013) · Journal of Neurotrauma · doi:10.1089/neu.2012.2391 · Cited by 36
Tryoen-Tóth, P., Richert, S., Sohm, B., Mine, M., Marsac, C., Van Dorsselaer, A., Leize, E., & Florentz, C. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m301530200 · Cited by 31
Mou, S., Sun, L., & Dovichi, N. J. (2013) · Analytical Chemistry · doi:10.1021/ac402858a · Cited by 22
Metadata
- Authors
- Gygi, S. P., Rist, B., Gerber, S. A., Turecek, F., Gelb, M. H., & Aebersold, R.
- Affiliations
- University of Washington (US)
- Corresponding author
- Aebersold, Ruedi
- Venue
- Nature Biotechnology
- Published
- 1999-10
- Volume
- 17
- Issue
- 10
- Pages
- 994-999
- ISSN
- 0733-222X (ISSN-L)
- 1087-0156
- 1546-1696
- OpenAlex
- W2111208057
- Semantic Scholar
- 8929f01bc9a788127bcff7a09432f4f7979c8e6b
- Cited by
- 4,683
- References
- 24
- Citations by year
- 2026: 19 · 2025: 27 · 2024: 31 · 2023: 54 · 2022: 50 · 2021: 63 · 2020: 51 · 2019: 70 · 2018: 77 · 2017: 104 · 2016: 123 · 2015: 171 · 2014: 188 · 2013: 235 · 2012: 296
- FWCI
- 75.18
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Nature Biotechnology (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Human Genome Research Institute (T32 HG-00035, T32HG000035)
- National Center for Research Resources (RR-11823, P41RR011823)
- Eunice Kennedy Shriver National Institute of Child Health and Human Development (HD 02274, P30HD002274)
- Topics
- Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
- Physical Sciences › Chemistry › Spectroscopy › Mass Spectrometry Techniques and Applications
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Redox biology and oxidative stress
- Keywords
- ICAT, protein quantification, tandem mass spectrometry, protein expression profiling, Saccharomyces cerevisiae, glucose repression, ethanol carbon source, stable isotope dilution, cysteine labeling
- MeSH terms
- Affinity Labels, Amino Acid Sequence, Chromatography, Liquid, Isotope Labeling, Proteins, Mass Spectrometry
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
