Quantitative proteomic approach to study subcellular localization of membrane proteins
10.1038/nprot.2006.254
Crossref journal-article
Springer Science and Business Media LLC
Nature Protocols (297)
Bibliography

Sadowski, P. G., Dunkley, T. P., Shadforth, I. P., Dupree, P., Bessant, C., Griffin, J. L., & Lilley, K. S. (2006). Quantitative proteomic approach to study subcellular localization of membrane proteins. Nature Protocols, 1(4), 1778–1789.

Authors 7
  1. Pawel G Sadowski (first)
  2. Tom PJ Dunkley (additional)
  3. Ian P Shadforth (additional)
  4. Paul Dupree (additional)
  5. Conrad Bessant (additional)
  6. Julian L Griffin (additional)
  7. Kathryn S Lilley (additional)
References 28 Referenced 81
  1. Millar, A.H. Location, location, location: surveying the intracellular real estate through proteomics in plants. Funct. Plant Biol. 31, 20 (2004). (10.1071/FP04034) / Funct. Plant Biol. by AH Millar (2004)
  2. Dupree, P. & Sherrier, D.J. The plant Golgi apparatus. Biochem. Biophys. Acta Mol. Cell Res. 1404, 259–270 (1998). (10.1016/S0167-4889(98)00061-5) / Biochem. Biophys. Acta Mol. Cell Res. by P Dupree (1998)
  3. Galili, G., Sengupta-Gopalan, C. & Ceriotti, A. The endoplasmic reticulum of plant cells and its role in protein maturation and biogenesis of oil bodies. Plant Mol. Biol. 38, 1–29 (1998). (10.1023/A:1006011919671) / Plant Mol. Biol. by G Galili (1998)
  4. Eisenhaber, F. & Bork, P. Wanted: subcellular localization of proteins based on sequence. Trends Cell Biol. 8, 169–170 (1998). (10.1016/S0962-8924(98)01226-4) / Trends Cell Biol. by F Eisenhaber (1998)
  5. Nakai, K. & Horton, P. PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. Trends Biochem. Sci. 24, 34–35 (1999). (10.1016/S0968-0004(98)01336-X) / Trends Biochem. Sci. by K Nakai (1999)
  6. Corse, E. & Machamer, C.E. The cytoplasmic tail of infectious bronchitis virus E protein directs Golgi targeting. J. Virol. 76, 1273–1284 (2002). (10.1128/JVI.76.3.1273-1284.2002) / J. Virol. by E Corse (2002)
  7. Davis, T.N. Protein localization in proteomics. Curr. Opin. Chem. Biol. 8, 49–53 (2004). (10.1016/j.cbpa.2003.11.003) / Curr. Opin. Chem. Biol. by TN Davis (2004)
  8. Lippincott-Schwartz, J. & Patterson, G.H. Development and use of fluorescent protein markers in living cells. Science 300, 87–91 (2003). (10.1126/science.1082520) / Science by J Lippincott-Schwartz (2003)
  9. Mura, C.V., Becker, M.I., Orellana, A. & Wolff, D. Immunopurification of Golgi vesicles by magnetic sorting. Immunol. Methods 260, 263–71 (2002). (10.1016/S0022-1759(01)00546-4) / Immunol. Methods by CV Mura (2002)
  10. Taylor, S.W. et al. Characterization of the human heart mitochondrial proteome. Nat. Biotechnol. 21, 281–286 (2003). (10.1038/nbt793) / Nat. Biotechnol. by SW Taylor (2003)
  11. Friso, G. et al. In depth analysis of the thylakoid membrane proteome of Arabidopsis thaliana chloroplasts: new proteins, new functions, and a plastid proteome database. Plant Cell 16, 478–499 (2004). (10.1105/tpc.017814) / Plant Cell by G Friso (2004)
  12. Wu, C.C. et al. Organellar proteomics reveals Golgi arginine dimethylation. Mol. Biol. Cell 15, 2907–2919 (2004). (10.1091/mbc.e04-02-0101) / Mol. Biol. Cell by CC Wu (2004)
  13. Jurgens, G. Membrane trafficking in plants. Annu. Rev. Cell Dev. Biol. 20, 481–504 (2004). (10.1146/annurev.cellbio.20.082503.103057) / Annu. Rev. Cell Dev. Biol. by G Jurgens (2004)
  14. Dunkley, T.P., Watson, R., Griffin, J.L., Dupree, P. & Lilley, K.S. Localization of organelle proteins by isotope tagging (LOPIT). Mol. Cell Proteomics 3, 1128–1134 (2004). (10.1074/mcp.T400009-MCP200) / Mol. Cell Proteomics by TP Dunkley (2004)
  15. Dunkley, T.P. et al. Mapping the Arabidopsis organelle proteome. Proc. Natl. Acad. Sci. USA 103, 6518–6523 (2006). (10.1073/pnas.0506958103) / Proc. Natl. Acad. Sci. USA by TP Dunkley (2006)
  16. Ross, P.L. et al. Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents. Mol. Cell Proteomics 3, 1154–1169 (2004). (10.1074/mcp.M400129-MCP200) / Mol. Cell Proteomics by PL Ross (2004)
  17. Andersen, J.S. et al. Proteomic characterization of the human centrosome by protein correlation profiling. Nature 426, 570–574 (2003). (10.1038/nature02166) / Nature by JS Andersen (2003)
  18. Foster, L. et al. A mammalian organelle map by protein correlation profiling. Cell 125, 187–199 (2006). (10.1016/j.cell.2006.03.022) / Cell by L Foster (2006)
  19. Tan, D.J. & Martinez-Arias, A. High-throughput localization of organelle proteins by mass spectrometry: a quantum leap for cell biology. BioEssays 28, 780–784 (2006). (10.1002/bies.20446) / BioEssays by DJ Tan (2006)
  20. Prime, T.A., Sherrier, D.J., Mahon, P., Packman, L.C. & Dupree, P. A proteomic analysis of organelles from Arabidopsis thaliana. Electrophoresis 21, 3488–3499 (2000). (10.1002/1522-2683(20001001)21:16<3488::AID-ELPS3488>3.0.CO;2-3) / Electrophoresis by TA Prime (2000)
  21. Gygi, S.P. et al. Quantitative analysis of complex protein mixtures using isotope-encoded affinity tags. Nat. Biotechnol. 17, 994–999 (1999). (10.1038/13690) / Nat. Biotechnol. by SP Gygi (1999)
  22. Berg, M., Parbel, A., Pettersen, H., Feny, D. & Björkesten, L. Reproducibility of LC–MS-based protein identification. J. Exp. Bot. 57, 1509–1514 (2006). (10.1093/jxb/erj139) / J. Exp. Bot. by M Berg (2006)
  23. Boehm, A.M., Galvin, R.P. & Sickmann, A. Extractor for ESI quadrupole TOF tandem MS data enabled for high throughput batch processing. BMC Bioinformatics 5, 162 (2004). (10.1186/1471-2105-5-162) / BMC Bioinformatics by AM Boehm (2004)
  24. Shadforth, I.P., Xu, W., Crowther, D. & Bessant, C. GAPP: A fully automated software for the confident identification of human peptides from tandem mass spectra. J. Proteome Res. 5, 2849–2852 (2006). (10.1021/pr060205s) / J. Proteome Res. by IP Shadforth (2006)
  25. Shadforth, I.P., Dunkley, T.P., Lilley, K.S. & Bessant, C. i-Tracker: for quantitative proteomics using iTRAQ. BMC Genomics 6, 145 (2005). (10.1186/1471-2164-6-145) / BMC Genomics by IP Shadforth (2005)
  26. Graham, J., Ford, T. & Rickwood, D. The preparation of subcellular organelles from mouse-liver in self-generated gradients of iodixanol. Anal. Biochem. 220, 367–373 (1994). (10.1006/abio.1994.1351) / Anal. Biochem. by J Graham (1994)
  27. Fujiki, Y., Hubbard, A.L., Fowler, S. & Lazarow, P.B. Isolation of intracellular membranes by means of sodium-carbonate treatment. J. Cell Biol. 93, 97–102 (1982). (10.1083/jcb.93.1.97) / J. Cell Biol. by Y Fujiki (1982)
  28. Shadforth, I.P., Dunkley, T.P., Lilley, K., Crowther, D. & Bessant, C. Confident protein identification using the average peptide score method coupled with search-specific, ab initio, thresholds. Rapid Commun. Mass Spectrom. 19, 3363–3368 (2005). (10.1002/rcm.2203) / Rapid Commun. Mass Spectrom. by IP Shadforth (2005)
Dates
Type When
Created 18 years, 9 months ago (Nov. 16, 2006, 2:49 p.m.)
Deposited 2 years, 3 months ago (May 18, 2023, 8:01 p.m.)
Indexed 1 month ago (July 22, 2025, 6:57 a.m.)
Issued 18 years, 9 months ago (Nov. 1, 2006)
Published 18 years, 9 months ago (Nov. 1, 2006)
Published Online 18 years, 9 months ago (Nov. 16, 2006)
Published Print 18 years, 9 months ago (Nov. 1, 2006)
Funders 0

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@article{Sadowski_2006, title={Quantitative proteomic approach to study subcellular localization of membrane proteins}, volume={1}, ISSN={1750-2799}, url={http://dx.doi.org/10.1038/nprot.2006.254}, DOI={10.1038/nprot.2006.254}, number={4}, journal={Nature Protocols}, publisher={Springer Science and Business Media LLC}, author={Sadowski, Pawel G and Dunkley, Tom PJ and Shadforth, Ian P and Dupree, Paul and Bessant, Conrad and Griffin, Julian L and Lilley, Kathryn S}, year={2006}, month=nov, pages={1778–1789} }