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1
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0037050026
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Functional organization of the yeast proteome by systematic analysis of protein complexes
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Gavin A.C., Bosche M., Krause R., Grandi P., Marzioch M., Bauer A., Schultz J., Rick J.M., Michon A.M., Cruciat C.M., et al. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 415 (2002) 141-147
-
(2002)
Nature
, vol.415
, pp. 141-147
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Gavin, A.C.1
Bosche, M.2
Krause, R.3
Grandi, P.4
Marzioch, M.5
Bauer, A.6
Schultz, J.7
Rick, J.M.8
Michon, A.M.9
Cruciat, C.M.10
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2
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0037050004
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Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry
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Ho Y., Gruhler A., Heilbut A., Bader G.D., Moore L., Adams S.L., Millar A., Taylor P., Bennett K., Boutilier K., et al. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415 (2002) 180-183
-
(2002)
Nature
, vol.415
, pp. 180-183
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Ho, Y.1
Gruhler, A.2
Heilbut, A.3
Bader, G.D.4
Moore, L.5
Adams, S.L.6
Millar, A.7
Taylor, P.8
Bennett, K.9
Boutilier, K.10
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3
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33645453254
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Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis AP et al.: Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature 2006, in press, doi:10.1038/nature04670. TAP-MS was used to process 4562 yeast proteins. A core dataset comprising 7123 protein-protein interactions was produced involving 2708 proteins. A clustering algorithm was then used to organize the interactions into 547 protein complexes.
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4
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33644555054
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Gavin AC, Aloy P, Grandi P, Krause R, Boesche et al.: Proteome survey reveals modularity of the yeast cell machinery. Nature 2006, in press, doi:10.1038/nature04532. TAP-MS was used to perform a genome wide screen for complexes in yeast. Cellular proteins were found to be partitioned into 491 complexes, of which 257 are novel.
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5
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12144289400
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A physical and functional map of the human TNF-α/NF-κB signal transduction pathway
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TAP-MS was used to map the protein interaction network around the human TNF-α/NF-κB pathway. Some 221 protein-protein interactions were identified, including 80 unknown interactors and 10 new functional modulators.
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Bouwmeester T., Bauch A., Ruffner H., Angrand P.O., Bergamini G., Croughton K., Cruciat C., Eberhard D., Gagneur J., Ghidelli S., et al. A physical and functional map of the human TNF-α/NF-κB signal transduction pathway. Nat Cell Biol 6 (2004) 97-105. TAP-MS was used to map the protein interaction network around the human TNF-α/NF-κB pathway. Some 221 protein-protein interactions were identified, including 80 unknown interactors and 10 new functional modulators.
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(2004)
Nat Cell Biol
, vol.6
, pp. 97-105
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Bouwmeester, T.1
Bauch, A.2
Ruffner, H.3
Angrand, P.O.4
Bergamini, G.5
Croughton, K.6
Cruciat, C.7
Eberhard, D.8
Gagneur, J.9
Ghidelli, S.10
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6
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0034841844
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The tandem affinity purification (TAP) method: a general procedure of protein complex purification
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Puig O., Caspary F., Rigaut G., Rutz B., and Bouveret E. The tandem affinity purification (TAP) method: a general procedure of protein complex purification. Methods 24 (2001) 218-229
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(2001)
Methods
, vol.24
, pp. 218-229
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Puig, O.1
Caspary, F.2
Rigaut, G.3
Rutz, B.4
Bouveret, E.5
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7
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0032828715
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A generic protein purification method for protein complex characterization and proteome exploration
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Rigaut G., Shevchenko A., Rutz B., Wilm M., Mann M., and Seraphin B. A generic protein purification method for protein complex characterization and proteome exploration. Nat Biotechnol 17 (1999) 1030-1032
-
(1999)
Nat Biotechnol
, vol.17
, pp. 1030-1032
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Rigaut, G.1
Shevchenko, A.2
Rutz, B.3
Wilm, M.4
Mann, M.5
Seraphin, B.6
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8
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13244284629
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A modified tandem affinity purification tag technique for the purification of protein complexes in mammalian cells
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Drakas R., Prisco M., and Baserga R. A modified tandem affinity purification tag technique for the purification of protein complexes in mammalian cells. Proteomics 5 (2005) 132-137
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(2005)
Proteomics
, vol.5
, pp. 132-137
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Drakas, R.1
Prisco, M.2
Baserga, R.3
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9
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17044415362
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Single-step strep-tag purification for the isolation and identification of protein complexes from mammalian cells
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Junttila M.R., Saarinen S., Schmidt T., Kast J., and Westermarck J. Single-step strep-tag purification for the isolation and identification of protein complexes from mammalian cells. Proteomics 5 (2005) 1199-1203
-
(2005)
Proteomics
, vol.5
, pp. 1199-1203
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Junttila, M.R.1
Saarinen, S.2
Schmidt, T.3
Kast, J.4
Westermarck, J.5
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10
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33645703441
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A tandem affinity tag for two-step purification under fully denaturing conditions: application in ubiquitin profiling and protein complex identification combined with in vivo cross-linking
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A new histidine-biotin tag is described for two-step purification under denaturing conditions. This method was used to study ubiquitination in yeast and for the analysis of an in vivo cross-linked protein complex containing Skp1.
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Tagwerker C., Flick K., Cui M., Guerrero C., Dou Y., Auer B., Baldi P., Huang L., and Kaiser P. A tandem affinity tag for two-step purification under fully denaturing conditions: application in ubiquitin profiling and protein complex identification combined with in vivo cross-linking. Mol Cell Proteomics 5 (2006) 737-748. A new histidine-biotin tag is described for two-step purification under denaturing conditions. This method was used to study ubiquitination in yeast and for the analysis of an in vivo cross-linked protein complex containing Skp1.
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(2006)
Mol Cell Proteomics
, vol.5
, pp. 737-748
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Tagwerker, C.1
Flick, K.2
Cui, M.3
Guerrero, C.4
Dou, Y.5
Auer, B.6
Baldi, P.7
Huang, L.8
Kaiser, P.9
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11
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20244365813
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Simple protein complex purification and identification method for high-throughput mapping of protein interaction networks
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Markillie L.M., Lin C.T., Adkins J.N., Auberry D.L., Hill E.A., Hooker B.S., Moore P.A., Moore R.J., Shi L., Wiley H.S., and Kery V. Simple protein complex purification and identification method for high-throughput mapping of protein interaction networks. J Proteome Res 4 (2005) 268-274
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(2005)
J Proteome Res
, vol.4
, pp. 268-274
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Markillie, L.M.1
Lin, C.T.2
Adkins, J.N.3
Auberry, D.L.4
Hill, E.A.5
Hooker, B.S.6
Moore, P.A.7
Moore, R.J.8
Shi, L.9
Wiley, H.S.10
Kery, V.11
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12
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29644440031
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Proteomic analysis of SRm160-containing complexes reveals a conserved association with Cohesin
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McCracken S., Longman D., Marcon E., Moens P., Downey M., Nickerson J.A., Jessberger R., Wilde A., Caceres J.F., Emili A., and Blencowe B.J. Proteomic analysis of SRm160-containing complexes reveals a conserved association with Cohesin. J Biol Chem 280 (2005) 42227-422236
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(2005)
J Biol Chem
, vol.280
, pp. 42227-422236
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McCracken, S.1
Longman, D.2
Marcon, E.3
Moens, P.4
Downey, M.5
Nickerson, J.A.6
Jessberger, R.7
Wilde, A.8
Caceres, J.F.9
Emili, A.10
Blencowe, B.J.11
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13
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30744464873
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Insulin-dependent interactions of proteins with GLUT4 revealed through stable isotope labeling by amino acids in cell culture
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Foster L.J., Rudich A., Talior I., Patel N., Huang X., Furtado L.M., Bilan P.J., Mann M., and Klip A. Insulin-dependent interactions of proteins with GLUT4 revealed through stable isotope labeling by amino acids in cell culture. J Proteome Res 5 (2006) 64-75
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(2006)
J Proteome Res
, vol.5
, pp. 64-75
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Foster, L.J.1
Rudich, A.2
Talior, I.3
Patel, N.4
Huang, X.5
Furtado, L.M.6
Bilan, P.J.7
Mann, M.8
Klip, A.9
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14
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0031080378
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Analysis of chromatin structure by in vivo formaldehyde cross-linking
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Orlando V., Strutt H., and Paro R. Analysis of chromatin structure by in vivo formaldehyde cross-linking. Methods 11 (1997) 1187-1198
-
(1997)
Methods
, vol.11
, pp. 1187-1198
-
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Orlando, V.1
Strutt, H.2
Paro, R.3
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15
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33645222407
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Analysis of protein interactions networks using mass spectrometry compatible techniques
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Either M., Lambert J.P., Vasilescu J., and Figeys D. Analysis of protein interactions networks using mass spectrometry compatible techniques. Anal Chim Acta 564 (2006) 10-18
-
(2006)
Anal Chim Acta
, vol.564
, pp. 10-18
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Either, M.1
Lambert, J.P.2
Vasilescu, J.3
Figeys, D.4
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16
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33644670152
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An integrated mass spectrometry-based proteomic approach: quantitative analysis of tandem affinity-purified in vivo cross-linked protein complexes (QTAX) to decipher the 26S proteasome-interacting network
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Affinity purification after in vivo formaldehyde cross-linking was combined with SILAC and MS analysis to identify and quantify specific interactions. The full composition of the yeast 26S proteasome complex was identified using this method.
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Guerrero C., Tagwerker C., Kaiser P., and Huang L. An integrated mass spectrometry-based proteomic approach: quantitative analysis of tandem affinity-purified in vivo cross-linked protein complexes (QTAX) to decipher the 26S proteasome-interacting network. Mol Cell Proteomics 5 (2006) 366-378. Affinity purification after in vivo formaldehyde cross-linking was combined with SILAC and MS analysis to identify and quantify specific interactions. The full composition of the yeast 26S proteasome complex was identified using this method.
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(2006)
Mol Cell Proteomics
, vol.5
, pp. 366-378
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Guerrero, C.1
Tagwerker, C.2
Kaiser, P.3
Huang, L.4
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17
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10644254712
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Identification of protein-protein interactions using in vivo cross-linking and mass spectrometry
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Vasilescu J., Guo X., and Kast J. Identification of protein-protein interactions using in vivo cross-linking and mass spectrometry. Proteomics 4 (2004) 3845-3854
-
(2004)
Proteomics
, vol.4
, pp. 3845-3854
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Vasilescu, J.1
Guo, X.2
Kast, J.3
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18
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2542583141
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Time-controlled transcardiac perfusion cross-linking for the study of protein interactions in complex tissues
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Schmitt-Ulms G., Hansen K., Liu J., Cowdrey C., Yang J., DeArmond S.J., Cohen F.E., Prusiner S.B., and Baldwin M.A. Time-controlled transcardiac perfusion cross-linking for the study of protein interactions in complex tissues. Nat Biotechnol 22 (2004) 724-731
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(2004)
Nat Biotechnol
, vol.22
, pp. 724-731
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Schmitt-Ulms, G.1
Hansen, K.2
Liu, J.3
Cowdrey, C.4
Yang, J.5
DeArmond, S.J.6
Cohen, F.E.7
Prusiner, S.B.8
Baldwin, M.A.9
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19
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32344436397
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Identification of subunit-subunit interactions in bacteriophage p22 procapsids by chemical cross-linking and mass spectrometry
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Kang S., Hawkridge A.M., Johnson K.L., Muddiman D.C., and Prevelige P.E. Identification of subunit-subunit interactions in bacteriophage p22 procapsids by chemical cross-linking and mass spectrometry. J Proteome Res 5 (2005) 370-377
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(2005)
J Proteome Res
, vol.5
, pp. 370-377
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Kang, S.1
Hawkridge, A.M.2
Johnson, K.L.3
Muddiman, D.C.4
Prevelige, P.E.5
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20
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9344221072
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Unraveling the interface of signal recognition particle and its receptor by using chemical cross-linking and tandem mass spectrometry
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Chu F., Shan S.O., Moustakas D.T., Alber F., Egea P.F., Stroud R.M., Walter P., and Burlingame A.L. Unraveling the interface of signal recognition particle and its receptor by using chemical cross-linking and tandem mass spectrometry. Proc Natl Acad Sci USA 101 (2004) 16454-16459
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(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 16454-16459
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Chu, F.1
Shan, S.O.2
Moustakas, D.T.3
Alber, F.4
Egea, P.F.5
Stroud, R.M.6
Walter, P.7
Burlingame, A.L.8
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21
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12244285932
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Chemical cross-linking and high-performance fourier transform ion cyclotron resonance mass spectrometry for protein interaction analysis: application to a calmodulin/target peptide complex
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Kalkhof S., Ihling C., Mechtler K., and Sinz A. Chemical cross-linking and high-performance fourier transform ion cyclotron resonance mass spectrometry for protein interaction analysis: application to a calmodulin/target peptide complex. Anal Chem 77 (2005) 495-503
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(2005)
Anal Chem
, vol.77
, pp. 495-503
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Kalkhof, S.1
Ihling, C.2
Mechtler, K.3
Sinz, A.4
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22
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24044520965
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Isotopically coded cleavable cross-linker for studying protein-protein interactions and protein complexes
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Petrotchenko E.V., Olkhovik V.K., and Borchers C.H. Isotopically coded cleavable cross-linker for studying protein-protein interactions and protein complexes. Mol Cell Proteomics 4 (2005) 1167-1179
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(2005)
Mol Cell Proteomics
, vol.4
, pp. 1167-1179
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Petrotchenko, E.V.1
Olkhovik, V.K.2
Borchers, C.H.3
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23
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11844289583
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Mass spectrometry identifiable cross-linking strategy for studying protein-protein interactions
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Tang X., Munske G.R., Siems W.F., and Bruce J.E. Mass spectrometry identifiable cross-linking strategy for studying protein-protein interactions. Anal Chem 77 (2005) 311-318
-
(2005)
Anal Chem
, vol.77
, pp. 311-318
-
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Tang, X.1
Munske, G.R.2
Siems, W.F.3
Bruce, J.E.4
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