-
1
-
-
84869215170
-
Proteome-wide analysis of lysine acetylation suggests its broad regulatory scope in Saccharomyces cerevisiae
-
Henriksen, P.; Wagner, S. A.; Weinert, B. T.; Sharma, S.; Bacinskaja, G.; Rehman, M.; Juffer, A. H.; Walther, T. C.; Lisby, M.; Choudhary, C. Proteome-wide analysis of lysine acetylation suggests its broad regulatory scope in Saccharomyces cerevisiae Mol. Cell. Proteomics 2012, 11 (11) 1510-22
-
(2012)
Mol. Cell. Proteomics
, vol.11
, Issue.11
, pp. 1510-1522
-
-
Henriksen, P.1
Wagner, S.A.2
Weinert, B.T.3
Sharma, S.4
Bacinskaja, G.5
Rehman, M.6
Juffer, A.H.7
Walther, T.C.8
Lisby, M.9
Choudhary, C.10
-
2
-
-
84875718256
-
Is oxidized thioredoxin a major trigger for cysteine oxidation? Clues from a redox proteomics approach
-
Garcia-Santamarina, S.; Boronat, S.; Calvo, I. A.; Rodriguez-Gabriel, M.; Ayte, J.; Molina, H.; Hidalgo, E. Is oxidized thioredoxin a major trigger for cysteine oxidation? Clues from a redox proteomics approach Antioxid. Redox Signaling 2013, 18 (13) 1549-22
-
(2013)
Antioxid. Redox Signaling
, vol.18
, Issue.13
, pp. 1549-1622
-
-
Garcia-Santamarina, S.1
Boronat, S.2
Calvo, I.A.3
Rodriguez-Gabriel, M.4
Ayte, J.5
Molina, H.6
Hidalgo, E.7
-
3
-
-
77953148666
-
Site-specific phosphorylation dynamics of the nuclear proteome during the DNA damage response
-
Bennetzen, M. V.; Larsen, D. H.; Bunkenborg, J.; Bartek, J.; Lukas, J.; Andersen, J. S. Site-specific phosphorylation dynamics of the nuclear proteome during the DNA damage response Mol. Cell. Proteomics 2010, 9 (6) 1314-23
-
(2010)
Mol. Cell. Proteomics
, vol.9
, Issue.6
, pp. 1314-1323
-
-
Bennetzen, M.V.1
Larsen, D.H.2
Bunkenborg, J.3
Bartek, J.4
Lukas, J.5
Andersen, J.S.6
-
4
-
-
3042815334
-
Trypsin cleaves exclusively C-terminal to arginine and lysine residues
-
Olsen, J. V.; Ong, S. E.; Mann, M. Trypsin cleaves exclusively C-terminal to arginine and lysine residues Mol. Cell. Proteomics 2004, 3 (6) 608-14
-
(2004)
Mol. Cell. Proteomics
, vol.3
, Issue.6
, pp. 608-614
-
-
Olsen, J.V.1
Ong, S.E.2
Mann, M.3
-
5
-
-
34848903890
-
The implications of proteolytic background for shotgun proteomics
-
Picotti, P.; Aebersold, R.; Domon, B. The implications of proteolytic background for shotgun proteomics Mol. Cell. Proteomics 2007, 6 (9) 1589-98
-
(2007)
Mol. Cell. Proteomics
, vol.6
, Issue.9
, pp. 1589-1598
-
-
Picotti, P.1
Aebersold, R.2
Domon, B.3
-
6
-
-
84855877960
-
Systematic and quantitative comparison of digest efficiency and specificity reveals the impact of trypsin quality on MS-based proteomics
-
Burkhart, J. M.; Schumbrutzki, C.; Wortelkamp, S.; Sickmann, A.; Zahedi, R. P. Systematic and quantitative comparison of digest efficiency and specificity reveals the impact of trypsin quality on MS-based proteomics J. Proteomics 2012, 75 (4) 1454-62
-
(2012)
J. Proteomics
, vol.75
, Issue.4
, pp. 1454-1462
-
-
Burkhart, J.M.1
Schumbrutzki, C.2
Wortelkamp, S.3
Sickmann, A.4
Zahedi, R.P.5
-
7
-
-
0025081420
-
Recognition of trypsin autolysis products by high-performance liquid chromatography and mass spectrometry
-
Vestling, M. M.; Murphy, C. M.; Fenselau, C. Recognition of trypsin autolysis products by high-performance liquid chromatography and mass spectrometry Anal. Chem. 1990, 62 (21) 2391-4
-
(1990)
Anal. Chem.
, vol.62
, Issue.21
, pp. 2391-2394
-
-
Vestling, M.M.1
Murphy, C.M.2
Fenselau, C.3
-
8
-
-
34548183872
-
Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips
-
Rappsilber, J.; Mann, M.; Ishihama, Y. Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips Nat. Protoc. 2007, 2 (8) 1896-906
-
(2007)
Nat. Protoc.
, vol.2
, Issue.8
, pp. 1896-1906
-
-
Rappsilber, J.1
Mann, M.2
Ishihama, Y.3
-
9
-
-
79953701087
-
Andromeda: A peptide search engine integrated into the MaxQuant environment
-
Cox, J.; Neuhauser, N.; Michalski, A.; Scheltema, R. A.; Olsen, J. V.; Mann, M. Andromeda: a peptide search engine integrated into the MaxQuant environment J. Proteome Res. 2011, 10 (4) 1794-805
-
(2011)
J. Proteome Res.
, vol.10
, Issue.4
, pp. 1794-1805
-
-
Cox, J.1
Neuhauser, N.2
Michalski, A.3
Scheltema, R.A.4
Olsen, J.V.5
Mann, M.6
-
10
-
-
76949097340
-
Quantitative proteomics reveals subset-specific viral recognition in dendritic cells
-
Luber, C. A.; Cox, J.; Lauterbach, H.; Fancke, B.; Selbach, M.; Tschopp, J.; Akira, S.; Wiegand, M.; Hochrein, H.; O'Keeffe, M.; Mann, M. Quantitative proteomics reveals subset-specific viral recognition in dendritic cells Immunity 2010, 32 (2) 279-89
-
(2010)
Immunity
, vol.32
, Issue.2
, pp. 279-289
-
-
Luber, C.A.1
Cox, J.2
Lauterbach, H.3
Fancke, B.4
Selbach, M.5
Tschopp, J.6
Akira, S.7
Wiegand, M.8
Hochrein, H.9
O'Keeffe, M.10
Mann, M.11
-
11
-
-
77955643959
-
The minotaur proteome: Avoiding cross-species identifications deriving from bovine serum in cell culture models
-
Bunkenborg, J.; Garcia, G. E.; Paz, M. I.; Andersen, J. S.; Molina, H. The minotaur proteome: avoiding cross-species identifications deriving from bovine serum in cell culture models Proteomics 2010, 10 (16) 3040-4
-
(2010)
Proteomics
, vol.10
, Issue.16
, pp. 3040-3044
-
-
Bunkenborg, J.1
Garcia, G.E.2
Paz, M.I.3
Andersen, J.S.4
Molina, H.5
-
12
-
-
84865553658
-
Data extraction from proteomics raw data: An evaluation of nine tandem MS tools using a large Orbitrap data set
-
Mancuso, F.; Bunkenborg, J.; Wierer, M.; Molina, H. Data extraction from proteomics raw data: An evaluation of nine tandem MS tools using a large Orbitrap data set J. Proteomics 2012, 75 (17) 5293-5303
-
(2012)
J. Proteomics
, vol.75
, Issue.17
, pp. 5293-5303
-
-
Mancuso, F.1
Bunkenborg, J.2
Wierer, M.3
Molina, H.4
-
13
-
-
84863393526
-
Ultra high resolution linear ion trap Orbitrap mass spectrometer (Orbitrap Elite) facilitates top down LC MS/MS and versatile peptide fragmentation modes
-
013698
-
Michalski, A.; Damoc, E.; Lange, O.; Denisov, E.; Nolting, D.; Muller, M.; Viner, R.; Schwartz, J.; Remes, P.; Belford, M.; Dunyach, J. J.; Cox, J.; Horning, S.; Mann, M.; Makarov, A. Ultra high resolution linear ion trap Orbitrap mass spectrometer (Orbitrap Elite) facilitates top down LC MS/MS and versatile peptide fragmentation modes Mol. Cell. Proteomics 2012, 11 (3) O111 013698
-
(2012)
Mol. Cell. Proteomics
, vol.11
, Issue.3
, pp. 111
-
-
Michalski, A.1
Damoc, E.2
Lange, O.3
Denisov, E.4
Nolting, D.5
Muller, M.6
Viner, R.7
Schwartz, J.8
Remes, P.9
Belford, M.10
Dunyach, J.J.11
Cox, J.12
Horning, S.13
Mann, M.14
Makarov, A.15
-
14
-
-
19944432197
-
Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents
-
Ross, P. L.; Huang, Y. N.; Marchese, J. N.; Williamson, B.; Parker, K.; Hattan, S.; Khainovski, N.; Pillai, S.; Dey, S.; Daniels, S.; Purkayastha, S.; Juhasz, P.; Martin, S.; Bartlet-Jones, M.; He, F.; Jacobson, A.; Pappin, D. J. Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents Mol. Cell. Proteomics 2004, 3 (12) 1154-69
-
(2004)
Mol. Cell. Proteomics
, vol.3
, Issue.12
, pp. 1154-1169
-
-
Ross, P.L.1
Huang, Y.N.2
Marchese, J.N.3
Williamson, B.4
Parker, K.5
Hattan, S.6
Khainovski, N.7
Pillai, S.8
Dey, S.9
Daniels, S.10
Purkayastha, S.11
Juhasz, P.12
Martin, S.13
Bartlet-Jones, M.14
He, F.15
Jacobson, A.16
Pappin, D.J.17
-
15
-
-
12444345515
-
Tandem mass tags: A novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS
-
Thompson, A.; Schafer, J.; Kuhn, K.; Kienle, S.; Schwarz, J.; Schmidt, G.; Johnstone, R.; Neumann, T.; Hamon, C. Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS Anal. Chem. 2003, 75 (8) 1895-904
-
(2003)
Anal. Chem.
, vol.75
, Issue.8
, pp. 1895-1904
-
-
Thompson, A.1
Schafer, J.2
Kuhn, K.3
Kienle, S.4
Schwarz, J.5
Schmidt, G.6
Johnstone, R.7
Neumann, T.8
Hamon, C.9
-
16
-
-
33750539321
-
Human cationic trypsinogen is sulfated on Tyr154
-
Sahin-Toth, M.; Kukor, Z.; Nemoda, Z. Human cationic trypsinogen is sulfated on Tyr154 FEBS J. 2006, 273 (22) 5044-50
-
(2006)
FEBS J.
, vol.273
, Issue.22
, pp. 5044-5050
-
-
Sahin-Toth, M.1
Kukor, Z.2
Nemoda, Z.3
-
17
-
-
37849045546
-
Mass spectrometric detection of tyrosine sulfation in human pancreatic trypsinogens, but not in tumor-associated trypsinogen
-
Itkonen, O.; Helin, J.; Saarinen, J.; Kalkkinen, N.; Ivanov, K. I.; Stenman, U. H.; Valmu, L. Mass spectrometric detection of tyrosine sulfation in human pancreatic trypsinogens, but not in tumor-associated trypsinogen FEBS J. 2008, 275 (2) 289-301
-
(2008)
FEBS J.
, vol.275
, Issue.2
, pp. 289-301
-
-
Itkonen, O.1
Helin, J.2
Saarinen, J.3
Kalkkinen, N.4
Ivanov, K.I.5
Stenman, U.H.6
Valmu, L.7
-
18
-
-
33845440387
-
Protein sulfation analysis - A primer
-
Monigatti, F.; Hekking, B.; Steen, H. Protein sulfation analysis-a primer Biochim. Biophys. Acta 2006, 1764 (12) 1904-13
-
(2006)
Biochim. Biophys. Acta
, vol.1764
, Issue.12
, pp. 1904-1913
-
-
Monigatti, F.1
Hekking, B.2
Steen, H.3
-
19
-
-
0035298820
-
Detection of tyrosine phosphorylated peptides by precursor ion scanning quadrupole TOF mass spectrometry in positive ion mode
-
Steen, H.; Kuster, B.; Fernandez, M.; Pandey, A.; Mann, M. Detection of tyrosine phosphorylated peptides by precursor ion scanning quadrupole TOF mass spectrometry in positive ion mode Anal. Chem. 2001, 73 (7) 1440-8
-
(2001)
Anal. Chem.
, vol.73
, Issue.7
, pp. 1440-1448
-
-
Steen, H.1
Kuster, B.2
Fernandez, M.3
Pandey, A.4
Mann, M.5
-
20
-
-
4444337337
-
Protein tyrosine-O-sulfation analysis by exhaustive product ion scanning with minimum collision offset in a nanoESI Q-TOF tandem mass spectrometer
-
Salek, M.; Costagliola, S.; Lehmann, W. D. Protein tyrosine-O-sulfation analysis by exhaustive product ion scanning with minimum collision offset in a nanoESI Q-TOF tandem mass spectrometer Anal. Chem. 2004, 76 (17) 5136-42
-
(2004)
Anal. Chem.
, vol.76
, Issue.17
, pp. 5136-5142
-
-
Salek, M.1
Costagliola, S.2
Lehmann, W.D.3
-
21
-
-
24044513966
-
Comparative evaluation of mass spectrometry platforms used in large-scale proteomics investigations
-
Elias, J. E.; Haas, W.; Faherty, B. K.; Gygi, S. P. Comparative evaluation of mass spectrometry platforms used in large-scale proteomics investigations Nat. Methods 2005, 2 (9) 667-75
-
(2005)
Nat. Methods
, vol.2
, Issue.9
, pp. 667-675
-
-
Elias, J.E.1
Haas, W.2
Faherty, B.K.3
Gygi, S.P.4
-
22
-
-
0023474127
-
Proteolysis Data Bank: Specificity of α-chymotrypsin from computation of protein cleavages
-
Keil, B. Proteolysis Data Bank: specificity of α-chymotrypsin from computation of protein cleavages Protein Sequences Data Anal. 1987, 1 (1) 13-20
-
(1987)
Protein Sequences Data Anal.
, vol.1
, Issue.1
, pp. 13-20
-
-
Keil, B.1
-
23
-
-
38649098134
-
Does trypsin cut before proline?
-
Rodriguez, J.; Gupta, N.; Smith, R. D.; Pevzner, P. A. Does trypsin cut before proline? J. Proteome Res. 2008, 7 (1) 300-5
-
(2008)
J. Proteome Res.
, vol.7
, Issue.1
, pp. 300-305
-
-
Rodriguez, J.1
Gupta, N.2
Smith, R.D.3
Pevzner, P.A.4
-
24
-
-
0000312004
-
Protein sequencing by tandem mass spectrometry
-
Hunt, D. F.; Yates, J. R., 3rd; Shabanowitz, J.; Winston, S.; Hauer, C. R. Protein sequencing by tandem mass spectrometry Proc. Natl. Acad. Sci. U.S.A. 1986, 83 (17) 6233-7
-
(1986)
Proc. Natl. Acad. Sci. U.S.A.
, vol.83
, Issue.17
, pp. 6233-6237
-
-
Hunt, D.F.1
Yates III, J.R.2
Shabanowitz, J.3
Winston, S.4
Hauer, C.R.5
-
25
-
-
70350732744
-
Improved visualization of protein consensus sequences by iceLogo
-
Colaert, N.; Helsens, K.; Martens, L.; Vandekerckhove, J.; Gevaert, K. Improved visualization of protein consensus sequences by iceLogo Nat. Methods 2009, 6 (11) 786-7
-
(2009)
Nat. Methods
, vol.6
, Issue.11
, pp. 786-787
-
-
Colaert, N.1
Helsens, K.2
Martens, L.3
Vandekerckhove, J.4
Gevaert, K.5
-
26
-
-
0030729481
-
Evolutionary divergence of substrate specificity within the chymotrypsin-like serine protease fold
-
Perona, J. J.; Craik, C. S. Evolutionary divergence of substrate specificity within the chymotrypsin-like serine protease fold J. Biol. Chem. 1997, 272 (48) 29987-90
-
(1997)
J. Biol. Chem.
, vol.272
, Issue.48
, pp. 29987-29990
-
-
Perona, J.J.1
Craik, C.S.2
-
27
-
-
78549293591
-
Cleavage specificities of the brother and sister proteases Lys-C and Lys-N
-
Raijmakers, R.; Neerincx, P.; Mohammed, S.; Heck, A. J. Cleavage specificities of the brother and sister proteases Lys-C and Lys-N Chem. Commun. 2010, 46 (46) 8827-9
-
(2010)
Chem. Commun.
, vol.46
, Issue.46
, pp. 8827-8829
-
-
Raijmakers, R.1
Neerincx, P.2
Mohammed, S.3
Heck, A.J.4
-
28
-
-
33846632267
-
Prediction of missed cleavage sites in tryptic peptides aids protein identification in proteomics
-
Siepen, J. A.; Keevil, E. J.; Knight, D.; Hubbard, S. J. Prediction of missed cleavage sites in tryptic peptides aids protein identification in proteomics J. Proteome Res. 2007, 6 (1) 399-408
-
(2007)
J. Proteome Res.
, vol.6
, Issue.1
, pp. 399-408
-
-
Siepen, J.A.1
Keevil, E.J.2
Knight, D.3
Hubbard, S.J.4
-
29
-
-
1842864789
-
Enzymatic cleavage of proteins
-
Smith, B. J. Enzymatic cleavage of proteins Methods Mol. Biol. 2003, 211, 49-61
-
(2003)
Methods Mol. Biol.
, vol.211
, pp. 49-61
-
-
Smith, B.J.1
-
30
-
-
0017078893
-
Tryptic hydrolysis at asparagine residues in globin chains
-
Casey, R.; Lang, A. Tryptic hydrolysis at asparagine residues in globin chains Biochim. Biophys. Acta 1976, 434 (1) 184-8
-
(1976)
Biochim. Biophys. Acta
, vol.434
, Issue.1
, pp. 184-188
-
-
Casey, R.1
Lang, A.2
-
31
-
-
0032262816
-
Influence of G187W/K188F/D189Y mutation in the substrate binding pocket of trypsin on β-casein processing
-
Chobert, J. M.; Briand, L.; Haertle, T. Influence of G187W/K188F/D189Y mutation in the substrate binding pocket of trypsin on β-casein processing J. Food Biochem. 1998, 22 (6) 529-545
-
(1998)
J. Food Biochem.
, vol.22
, Issue.6
, pp. 529-545
-
-
Chobert, J.M.1
Briand, L.2
Haertle, T.3
-
32
-
-
79956322553
-
Global quantification of mammalian gene expression control
-
Schwanhausser, B.; Busse, D.; Li, N.; Dittmar, G.; Schuchhardt, J.; Wolf, J.; Chen, W.; Selbach, M. Global quantification of mammalian gene expression control Nature 2011, 473 (7347) 337-42
-
(2011)
Nature
, vol.473
, Issue.7347
, pp. 337-342
-
-
Schwanhausser, B.1
Busse, D.2
Li, N.3
Dittmar, G.4
Schuchhardt, J.5
Wolf, J.6
Chen, W.7
Selbach, M.8
|