-
2
-
-
0041706156
-
A proteomics approach to understanding protein ubiquitination
-
Peng J, Schwartz D, Elias JE et al (2003) A proteomics approach to understanding protein ubiquitination. Nat Biotechnol 21: 921–926
-
(2003)
Nat Biotechnol
, vol.21
, pp. 921-926
-
-
Peng, J.1
Schwartz, D.2
Elias, J.E.3
-
3
-
-
78651225388
-
Global analysis of lysine ubiquitination by ubiquitin remnant immunoaffi nity profi ling
-
Xu G, Paige JS, Jaffrey SR (2010) Global analysis of lysine ubiquitination by ubiquitin remnant immunoaffi nity profi ling. Nat Biotechnol 28:868–873
-
(2010)
Nat Biotechnol
, vol.28
, pp. 868-873
-
-
Xu, G.1
Paige, J.S.2
Jaffrey, S.R.3
-
4
-
-
0027451961
-
Utility of polyhistidinetagged ubiquitin in the purifi cation of ubiquitin- protein conjugates and as an affinityligand for the purifi cation of ubiquitin-specifi chydrolases
-
Beers EP, Callis J (1993) Utility of polyhistidinetagged ubiquitin in the purifi cation of ubiquitin- protein conjugates and as an affinityligand for the purifi cation of ubiquitin-specifi chydrolases. J Biol Chem 268:21645–21649
-
(1993)
J Biol Chem
, vol.268
, pp. 21645-21649
-
-
Beers, E.P.1
Callis, J.2
-
5
-
-
10044289273
-
Identifi cation of sitesof ubiquitination in proteins: A fourier transform ion cyclotron resonance mass spectrometry approach
-
Cooper HJ, Heath JK, Jaffray E, Hay RT, Lam TT, Marshall AG (2004) Identifi cation of sitesof ubiquitination in proteins: a fourier transform ion cyclotron resonance mass spectrometry approach. Anal Chem 76:6982–6988
-
(2004)
Anal Chem
, vol.76
, pp. 6982-6988
-
-
Cooper, H.J.1
Heath, J.K.2
Jaffray, E.3
Hay, R.T.4
Lam, T.T.5
Marshall, A.G.6
-
6
-
-
34247528121
-
A proteomics approach to identify the ubiquitinated proteins in mouse heart
-
Jeon HB, Choi ES, Yoon JH et al (2007) A proteomics approach to identify the ubiquitinated proteins in mouse heart. Biochem Biophys Res Commun 357:731–736
-
(2007)
Biochem Biophys Res Commun
, vol.357
, pp. 731-736
-
-
Jeon, H.B.1
Choi, E.S.2
Yoon, J.H.3
-
7
-
-
0035380584
-
Purifi cation of polyubiquitinated proteins by S5a-affinity chromatography
-
Layfi eld R, Tooth D, Landon M, Dawson S, Mayer J, Alban A (2001) Purifi cation of polyubiquitinated proteins by S5a-affinity chromatography. Proteomics 1:773–777
-
(2001)
Proteomics
, vol.1
, pp. 773-777
-
-
Layfi Eld, R.1
Tooth, D.2
Landon, M.3
Dawson, S.4
Mayer, J.5
Alban, A.6
-
8
-
-
27744500428
-
Large-scale analysis of the human ubiquitinrelated proteome
-
Matsumoto M, Hatakeyama S, Oyamada K, Oda Y, Nishimura T, Nakayama KI (2005) Large-scale analysis of the human ubiquitinrelated proteome. Proteomics 5:4145–4151
-
(2005)
Proteomics
, vol.5
, pp. 4145-4151
-
-
Matsumoto, M.1
Hatakeyama, S.2
Oyamada, K.3
Oda, Y.4
Nishimura, T.5
Nakayama, K.I.6
-
9
-
-
33645703441
-
A tandem affinitytag for two-step purifi cation under fully denaturing conditions: Application in ubiquitin profi ling and protein complex identifi cation combined with in vivo cross-linking
-
Tagwerker C, Flick K, Cui M, Guerrero C, Dou Y, Auer B et al (2006) A tandem affinitytag for two-step purifi cation under fully denaturing conditions: application in ubiquitin profi ling and protein complex identifi cation combined with in vivo cross-linking. Mol Cell Proteomics 5:737–748
-
(2006)
Mol Cell Proteomics
, vol.5
, pp. 737-748
-
-
Tagwerker, C.1
Flick, K.2
Cui, M.3
Guerrero, C.4
Dou, Y.5
Auer, B.6
-
10
-
-
76749169902
-
A ubiquitin and ubiquitin-like protein spectral library
-
Srikumar T, Jeram SM, Lam H, Raught B (2010) A ubiquitin and ubiquitin-like protein spectral library. Proteomics 10:337–342
-
(2010)
Proteomics
, vol.10
, pp. 337-342
-
-
Srikumar, T.1
Jeram, S.M.2
Lam, H.3
Raught, B.4
-
12
-
-
33845441117
-
Dissecting the ubiquitin pathway by mass spectrometry
-
Xu P, Peng J (2006) Dissecting the ubiquitin pathway by mass spectrometry. Biochim Biophys Acta 1764:1940–1947
-
(2006)
Biochim Biophys Acta
, vol.1764
, pp. 1940-1947
-
-
Xu, P.1
Peng, J.2
-
13
-
-
29144505073
-
Proteomic analysis of ubiquitinated proteins from human MCF-7 breast cancer cells by immunoaffi nity purifi cation and mass spectrometry
-
Vasilescu J, Smith JC, Ethier M, Figeys D (2005) Proteomic analysis of ubiquitinated proteins from human MCF-7 breast cancer cells by immunoaffi nity purifi cation and mass spectrometry. J Proteome Res 4:2192–2200
-
(2005)
J Proteome Res
, vol.4
, pp. 2192-2200
-
-
Vasilescu, J.1
Smith, J.C.2
Ethier, M.3
Figeys, D.4
-
14
-
-
77449103113
-
Identifi cation, analysis, and prediction of protein ubiquitination sites
-
Radivojac P, Vacic V, Haynes C, Cocklin RR, Mohan A, Heyen JW et al (2010) Identifi cation, analysis, and prediction of protein ubiquitination sites. Proteins 78:365–380
-
(2010)
Proteins
, vol.78
, pp. 365-380
-
-
Radivojac, P.1
Vacic, V.2
Haynes, C.3
Cocklin, R.R.4
Mohan, A.5
Heyen, J.W.6
-
15
-
-
34247342702
-
Multidimensional protein identifi cation technology (MudPIT) analysis of ubiquitinated proteins in plants
-
Maor R, Jones A, Nuhse TS, Studholme DJ, Peck SC, Shirasu K (2007) Multidimensional protein identifi cation technology (MudPIT) analysis of ubiquitinated proteins in plants. Mol Cell Proteomics 6:601–610
-
(2007)
Mol Cell Proteomics
, vol.6
, pp. 601-610
-
-
Maor, R.1
Jones, A.2
Nuhse, T.S.3
Studholme, D.J.4
Peck, S.C.5
Shirasu, K.6
-
16
-
-
77956290319
-
Calcium phosphate transfection of 3T3 fi broblasts
-
Smale ST (2010) Calcium phosphate transfection of 3T3 fi broblasts. Cold Spring Harb Protoc. doi: 10.1101/pdb.prot5372
-
(2010)
Cold Spring Harb Protoc
-
-
Smale, S.T.1
-
17
-
-
28844480841
-
Identification of ubiquitination sites and determination of ubiquitin-chain architectures by mass spectrometry
-
Kaiser P, Wohlschlegel J (2005) Identification of ubiquitination sites and determination of ubiquitin-chain architectures by mass spectrometry. Methods Enzymol 399:266–277
-
(2005)
Methods Enzymol
, vol.399
, pp. 266-277
-
-
Kaiser, P.1
Wohlschlegel, J.2
-
18
-
-
34548178909
-
In-gel digestion for mass spectrometric characterization of proteins and proteomes
-
Shevchenko A, Tomas H, Havlis J, Olsen JV, Mann M (2006) In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nat Protoc 1:2856–2860
-
(2006)
Nat Protoc
, vol.1
, pp. 2856-2860
-
-
Shevchenko, A.1
Tomas, H.2
Havlis, J.3
Olsen, J.V.4
Mann, M.5
-
19
-
-
44449108277
-
Iodoacetamideinduced artifact mimics ubiquitination in mass spectrometry
-
Nielsen ML, Vermeulen M, Bonaldi T, Cox J, Moroder L, Mann M (2008) Iodoacetamideinduced artifact mimics ubiquitination in mass spectrometry. Nat Methods 5:459–460
-
(2008)
Nat Methods
, vol.5
, pp. 459-460
-
-
Nielsen, M.L.1
Vermeulen, M.2
Bonaldi, T.3
Cox, J.4
Moroder, L.5
Mann, M.6
-
21
-
-
84934441154
-
Mass spectrometric determination of protein ubiquitination
-
Parker CE, Warren MR, Mocanu V, Greer SF, Borchers CH (2008) Mass spectrometric determination of protein ubiquitination. Methods Mol Biol 446:109–130
-
(2008)
Methods Mol Biol
, vol.446
, pp. 109-130
-
-
Parker, C.E.1
Warren, M.R.2
Mocanu, V.3
Greer, S.F.4
Borchers, C.H.5
-
22
-
-
70949093063
-
Immunoaffinity purifi cation: Coupling antibodies to protein Aor G bead columns
-
Harlow E, Lane D (2006) Immunoaffinity purifi cation: coupling antibodies to protein Aor G bead columns. Cold Spring Harb Protoc. doi: 10.1101/pdb.prot4303
-
(2006)
Cold Spring Harb Protoc
-
-
Harlow, E.1
Lane, D.2
-
23
-
-
0027587309
-
A practical approach to crosslinking
-
Mattson G, Conklin E, Desai S, Nielander G, Savage MD, Morgensen S (1993) A practical approach to crosslinking. Mol Biol Rep 17: 167–183
-
(1993)
Mol Biol Rep
, vol.17
, pp. 167-183
-
-
Mattson, G.1
Conklin, E.2
Desai, S.3
Nielander, G.4
Savage, M.D.5
Morgensen, S.6
-
24
-
-
0033434080
-
Probability-based protein identifi cation by searching sequence databases using mass spectrometry data
-
Perkins DN, Pappin DJ, Creasy DM, Cottrell JS (1999) Probability-based protein identifi cation by searching sequence databases using mass spectrometry data. Electrophoresis 20: 3551–3567
-
(1999)
Electrophoresis
, vol.20
, pp. 3551-3567
-
-
Perkins, D.N.1
Pappin, D.J.2
Creasy, D.M.3
Cottrell, J.S.4
-
25
-
-
3142702204
-
TANDEM: Matching proteins with tandem mass spectra
-
Craig R, Beavis RC (2004) TANDEM: matching proteins with tandem mass spectra. Bioinformatics 20:1466–1467
-
(2004)
Bioinformatics
, vol.20
, pp. 1466-1467
-
-
Craig, R.1
Beavis, R.C.2
-
26
-
-
7044246160
-
Open mass spectrometry search algorithm
-
Geer LY, Markey SP, Kowalak JA, Wagner L, Xu M, Maynard DM et al (2004) Open mass spectrometry search algorithm. J Proteome Res 3:958–964
-
(2004)
J Proteome Res
, vol.3
, pp. 958-964
-
-
Geer, L.Y.1
Markey, S.P.2
Kowalak, J.A.3
Wagner, L.4
Xu, M.5
Maynard, D.M.6
-
27
-
-
0036828724
-
Probability-based validation of protein identifications using a modifi ed SEQUEST algorithm
-
MacCoss MJ, Wu CC, Yates JR (2002) Probability-based validation of protein identifications using a modifi ed SEQUEST algorithm. Anal Chem 74:5593–5599
-
(2002)
Anal Chem
, vol.74
, pp. 5593-5599
-
-
Maccoss, M.J.1
Wu, C.C.2
Yates, J.R.3
-
28
-
-
33750600611
-
Proteome informatics I: Bioinformatics tools for processing experimental data
-
Palagi PM, Hernandez P, Walther D, Appel RD (2006) Proteome informatics I: bioinformatics tools for processing experimental data. Proteomics 6:5435–5444
-
(2006)
Proteomics
, vol.6
, pp. 5435-5444
-
-
Palagi, P.M.1
Hernandez, P.2
Walther, D.3
Appel, R.D.4
-
29
-
-
0037255072
-
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
-
Boeckmann B, Bairoch A, Apweiler R, Blatter MC, Estreicher A, Gasteiger E et al (2003) The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res 31:365–370
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 365-370
-
-
Boeckmann, B.1
Bairoch, A.2
Apweiler, R.3
Blatter, M.C.4
Estreicher, A.5
Gasteiger, E.6
-
30
-
-
33846057724
-
NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
-
Pruitt KD, Tatusova T, Maglott DR (2007) NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res 35:61–65
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 61-65
-
-
Pruitt, K.D.1
Tatusova, T.2
Maglott, D.R.3
-
31
-
-
3042818018
-
The International Protein Index: An integrated database for proteomics experiments
-
Kersey PJ, Duarte J, Williams A, Karavidopoulou Y, Birney E, Apweiler R (2004) The International Protein Index: an integrated database for proteomics experiments. Proteomics 4:1985–1988
-
(2004)
Proteomics
, vol.4
, pp. 1985-1988
-
-
Kersey, P.J.1
Duarte, J.2
Williams, A.3
Karavidopoulou, Y.4
Birney, E.5
Apweiler, R.6
-
32
-
-
84881141146
-
Proteomic identification of protein ubiquitination events
-
Xu G, Jaffrey SR (2013) Proteomic identification of protein ubiquitination events. Biotechnol Genet Eng Rev 29:73–109
-
(2013)
Biotechnol Genet Eng Rev
, vol.29
, pp. 73-109
-
-
Xu, G.1
Jaffrey, S.R.2
-
33
-
-
39749099462
-
Strategy for comprehensive identification of post-translational modifi cations in cellular proteins, including low abundant modifi cations: Application to glyceraldehyde-3-phosphate dehydrogenase
-
Seo J, Jeong J, Kim YM, Hwang N, Paek E, Lee KJ (2008) Strategy for comprehensive identification of post-translational modifi cations in cellular proteins, including low abundant modifi cations: application to glyceraldehyde-3-phosphate dehydrogenase. J Proteome Res 7:587–602
-
(2008)
J Proteome Res
, vol.7
, pp. 587-602
-
-
Seo, J.1
Jeong, J.2
Kim, Y.M.3
Hwang, N.4
Paek, E.5
Lee, K.J.6
-
34
-
-
65549131495
-
Automated diagnosis of LC-MS/MS performance
-
Xu H, Freitas MA (2009) Automated diagnosis of LC-MS/MS performance. Bioinformatics 25: 1341–1343
-
(2009)
Bioinformatics
, vol.25
, pp. 1341-1343
-
-
Xu, H.1
Freitas, M.A.2
|