-
1
-
-
77949517375
-
A proteomic view of an important human pathogen-towards the quantification of the entire Staphylococcus aureus proteome
-
Becher, D., Hempel, K., Sievers, S., Zühlke, D. et al., A proteomic view of an important human pathogen-towards the quantification of the entire Staphylococcus aureus proteome. PLoS One 2009, 4, e8176.
-
(2009)
PLoS One
, vol.4
-
-
Becher, D.1
Hempel, K.2
Sievers, S.3
Zühlke, D.4
-
2
-
-
79251551042
-
Systems-wide temporal proteomic profiling in glucose-starved Bacillus subtilis
-
Otto, A., Bernhardt, J., Meyer, H., Schaffer, M. et al., Systems-wide temporal proteomic profiling in glucose-starved Bacillus subtilis. Nat. Commun. 2010, 1, 137.
-
(2010)
Nat. Commun.
, vol.1
, pp. 137
-
-
Otto, A.1
Bernhardt, J.2
Meyer, H.3
Schaffer, M.4
-
3
-
-
84855549488
-
System-wide perturbation analysis with nearly complete coverage of the yeast proteome by single-shot ultra HPLC runs on a bench top Orbitrap
-
doi:10.1074/mcp.M111.013722.
-
Nagaraj, N., Kulak, N. A., Cox, J., Neuhauser, N. et al., System-wide perturbation analysis with nearly complete coverage of the yeast proteome by single-shot ultra HPLC runs on a bench top Orbitrap. Mol. Cell. Proteomics 2012, 11, doi:10.1074/mcp.M111.013722.
-
(2012)
Mol. Cell. Proteomics
, vol.11
-
-
Nagaraj, N.1
Kulak, N.A.2
Cox, J.3
Neuhauser, N.4
-
4
-
-
68449102172
-
Proteome-wide cellular protein concentrations of the human pathogen Leptospira interrogans
-
Malmström, J., Beck, M., Schmidt, A., Lange, V. et al., Proteome-wide cellular protein concentrations of the human pathogen Leptospira interrogans. Nature 2009, 460, 762-765.
-
(2009)
Nature
, vol.460
, pp. 762-765
-
-
Malmström, J.1
Beck, M.2
Schmidt, A.3
Lange, V.4
-
5
-
-
80855128254
-
Deep proteome and transcriptome mapping of a human cancer cell line
-
Nagaraj, N., Wisniewski, J. R., Geiger, T., Cox, J. et al., Deep proteome and transcriptome mapping of a human cancer cell line. Mol. Syst. Biol. 2011, 7, 548.
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 548
-
-
Nagaraj, N.1
Wisniewski, J.R.2
Geiger, T.3
Cox, J.4
-
6
-
-
42649132889
-
Stable isotope labeling by amino acids in cell culture (SILAC) and proteome quantitation of mouse embryonic stem cells to a depth of 5,111 proteins
-
Graumann, J., Hubner, N. C., Kim, J. B., Ko, K. et al., Stable isotope labeling by amino acids in cell culture (SILAC) and proteome quantitation of mouse embryonic stem cells to a depth of 5, 111 proteins. Mol. Cell. Proteomics 2008, 7, 672-683.
-
(2008)
Mol. Cell. Proteomics
, vol.7
, pp. 672-683
-
-
Graumann, J.1
Hubner, N.C.2
Kim, J.B.3
Ko, K.4
-
7
-
-
77955119702
-
Time-resolved quantitative proteome profiling of host-pathogen interactions: the response of Staphylococcus aureus RN1HG to internalisation by human airway epithelial cells
-
Schmidt, F., Scharf, S. S., Hildebrandt, P., Burian, M. et al., Time-resolved quantitative proteome profiling of host-pathogen interactions: the response of Staphylococcus aureus RN1HG to internalisation by human airway epithelial cells. Proteomics 2010, 10, 2801-2811.
-
(2010)
Proteomics
, vol.10
, pp. 2801-2811
-
-
Schmidt, F.1
Scharf, S.S.2
Hildebrandt, P.3
Burian, M.4
-
8
-
-
84859573112
-
Exploring mixed microbial community functioning: recent advances in metaproteomics
-
Siggins, A., Gunnigle, E., Abram, F., Exploring mixed microbial community functioning: recent advances in metaproteomics. FEMS Microbiol. Ecol. 2012, 80, 265-280.
-
(2012)
FEMS Microbiol. Ecol.
, vol.80
, pp. 265-280
-
-
Siggins, A.1
Gunnigle, E.2
Abram, F.3
-
9
-
-
84864035417
-
Microbial metaproteomics: identifying the repertoire of proteins that microorganisms use to compete and cooperate in complex environmental communities
-
Hettich, R. L., Sharma, R., Chourey, K., Giannone, R. J., Microbial metaproteomics: identifying the repertoire of proteins that microorganisms use to compete and cooperate in complex environmental communities. Curr. Opin. Microbiol. 2012, 15, 373-380.
-
(2012)
Curr. Opin. Microbiol.
, vol.15
, pp. 373-380
-
-
Hettich, R.L.1
Sharma, R.2
Chourey, K.3
Giannone, R.J.4
-
10
-
-
79960416662
-
A proteomic view of the host-pathogen interaction: the host perspective
-
Hartlova, A., Krocova, Z., Cerveny, L., Stulik, J., A proteomic view of the host-pathogen interaction: the host perspective. Proteomics 2011, 11, 3212-3220.
-
(2011)
Proteomics
, vol.11
, pp. 3212-3220
-
-
Hartlova, A.1
Krocova, Z.2
Cerveny, L.3
Stulik, J.4
-
11
-
-
79959424627
-
Quantitative, high-resolution proteomics for data-driven systems biology
-
Cox, J., Mann, M., Quantitative, high-resolution proteomics for data-driven systems biology. Annu. Rev. Biochem. 2011, 80, 273-299.
-
(2011)
Annu. Rev. Biochem.
, vol.80
, pp. 273-299
-
-
Cox, J.1
Mann, M.2
-
12
-
-
84872650023
-
Two strings to the systems biology bow: co-extracting the metabolome and proteome of yeast
-
Schmidt, S. A., Jacob, S. S., Ahn, S. B., Rupasinghe, T. et al., Two strings to the systems biology bow: co-extracting the metabolome and proteome of yeast. Metabolomics 2013, 9, 173-188.
-
(2013)
Metabolomics
, vol.9
, pp. 173-188
-
-
Schmidt, S.A.1
Jacob, S.S.2
Ahn, S.B.3
Rupasinghe, T.4
-
13
-
-
0016637146
-
Protein mapping by combined isoelectric focusing and electrophoresis of mouse tissues. A novel approach to testing for induced point mutations in mammals
-
Klose, J., Protein mapping by combined isoelectric focusing and electrophoresis of mouse tissues. A novel approach to testing for induced point mutations in mammals. Humangenetik 1975, 26, 231-243.
-
(1975)
Humangenetik
, vol.26
, pp. 231-243
-
-
Klose, J.1
-
14
-
-
0016711037
-
High resolution two-dimensional electrophoresis of proteins
-
O'Farrell, P. H., High resolution two-dimensional electrophoresis of proteins. J. Biol. Chem. 1975, 250, 4007-4021.
-
(1975)
J. Biol. Chem.
, vol.250
, pp. 4007-4021
-
-
O'Farrell, P.H.1
-
15
-
-
13844281502
-
Peptide mass fingerprinting
-
Thiede, B., Hohenwarter, W., Krah, A., Mattow, J. et al., Peptide mass fingerprinting. Methods 2005, 35, 237-247.
-
(2005)
Methods
, vol.35
, pp. 237-247
-
-
Thiede, B.1
Hohenwarter, W.2
Krah, A.3
Mattow, J.4
-
16
-
-
0035106351
-
Large-scale analysis of the yeast proteome by multidimensional protein identification technology
-
Washburn, M. P., Wolters, D., Yates, J. R., 3rd, Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat. Biotechnol. 2001, 19, 242-247.
-
(2001)
Nat. Biotechnol.
, vol.19
, pp. 242-247
-
-
Washburn, M.P.1
Wolters, D.2
Yates III, J.R.3
-
17
-
-
0142215475
-
Global analysis of protein expression in yeast
-
Ghaemmaghami, S., Huh, W. K., Bower, K., Howson, R. W. et al., Global analysis of protein expression in yeast. Nature 2003, 425, 737-741.
-
(2003)
Nature
, vol.425
, pp. 737-741
-
-
Ghaemmaghami, S.1
Huh, W.K.2
Bower, K.3
Howson, R.W.4
-
18
-
-
33745591083
-
Status of complete proteome analysis by mass spectrometry: SILAC labeled yeast as a model system
-
de Godoy, L. M., Olsen, J. V., de Souza, G. A., Li, G. et al., Status of complete proteome analysis by mass spectrometry: SILAC labeled yeast as a model system. Genome Biol. 2006, 7, R50.
-
(2006)
Genome Biol.
, vol.7
-
-
de Godoy, L.M.1
Olsen, J.V.2
de Souza, G.A.3
Li, G.4
-
19
-
-
0042386240
-
Protein identification: the origins of peptide mass fingerprinting
-
Henzel, W. J., Watanabe, C., Stults, J. T., Protein identification: the origins of peptide mass fingerprinting. J. Am. Soc. Mass Spectrom. 2003, 14, 931-942.
-
(2003)
J. Am. Soc. Mass Spectrom.
, vol.14
, pp. 931-942
-
-
Henzel, W.J.1
Watanabe, C.2
Stults, J.T.3
-
20
-
-
77957220211
-
Two-dimensional gel electrophoresis in proteomics: past, present and future
-
Rabilloud, T., Chevallet, M., Luche, S., Lelong, C., Two-dimensional gel electrophoresis in proteomics: past, present and future. J. Proteomics 2010, 73, 2064-2077.
-
(2010)
J. Proteomics
, vol.73
, pp. 2064-2077
-
-
Rabilloud, T.1
Chevallet, M.2
Luche, S.3
Lelong, C.4
-
21
-
-
57649218829
-
Gel-based proteomics of Gram-positive bacteria: a powerful tool to address physiological questions
-
Hecker, M., Antelmann, H., Büttner, K., Bernhardt, J., Gel-based proteomics of Gram-positive bacteria: a powerful tool to address physiological questions. Proteomics 2008, 8, 4958-4975.
-
(2008)
Proteomics
, vol.8
, pp. 4958-4975
-
-
Hecker, M.1
Antelmann, H.2
Büttner, K.3
Bernhardt, J.4
-
22
-
-
77955591792
-
Protecs, a comprehensive and powerful storage and analysis system for OMICS data, applied for profiling the anaerobiosis response of Staphylococcus aureus COL
-
Fuchs, S., Mehlan, H., Kusch, H., Teumer, A. et al., Protecs, a comprehensive and powerful storage and analysis system for OMICS data, applied for profiling the anaerobiosis response of Staphylococcus aureus COL. Proteomics 2010, 10, 2982-3000.
-
(2010)
Proteomics
, vol.10
, pp. 2982-3000
-
-
Fuchs, S.1
Mehlan, H.2
Kusch, H.3
Teumer, A.4
-
23
-
-
33645467362
-
Comparative proteome analysis of Staphylococcus aureus biofilm and planktonic cells and correlation with transcriptome profiling
-
Resch, A., Leicht, S., Saric, M., Pasztor, L. et al., Comparative proteome analysis of Staphylococcus aureus biofilm and planktonic cells and correlation with transcriptome profiling. Proteomics 2006, 6, 1867-1877.
-
(2006)
Proteomics
, vol.6
, pp. 1867-1877
-
-
Resch, A.1
Leicht, S.2
Saric, M.3
Pasztor, L.4
-
24
-
-
17144410529
-
Bacterial proteomics and its role in antibacterial drug discovery
-
Brötz-Oesterhelt, H., Bandow, J. E., Labischinski, H., Bacterial proteomics and its role in antibacterial drug discovery. Mass Spectrom. Rev. 2005, 24, 549-565.
-
(2005)
Mass Spectrom. Rev.
, vol.24
, pp. 549-565
-
-
Brötz-Oesterhelt, H.1
Bandow, J.E.2
Labischinski, H.3
-
25
-
-
80051814606
-
Characterization of the global impact of low temperature gas plasma on vegetative microorganisms
-
Winter, T., Winter, J., Polak, M., Kusch, K. et al., Characterization of the global impact of low temperature gas plasma on vegetative microorganisms. Proteomics 2011, 11, 3518-3530.
-
(2011)
Proteomics
, vol.11
, pp. 3518-3530
-
-
Winter, T.1
Winter, J.2
Polak, M.3
Kusch, K.4
-
26
-
-
79960399946
-
Proteomic signatures in antibiotic research
-
Wenzel, M., Bandow, J. E., Proteomic signatures in antibiotic research. Proteomics 2011, 11, 3256-3268.
-
(2011)
Proteomics
, vol.11
, pp. 3256-3268
-
-
Wenzel, M.1
Bandow, J.E.2
-
27
-
-
0344329881
-
Dual channel imaging of two-dimensional electropherograms in Bacillus subtilis
-
Bernhardt, J., Büttner, K., Scharf, C., Hecker, M., Dual channel imaging of two-dimensional electropherograms in Bacillus subtilis. Electrophoresis 1999, 20, 2225-2240.
-
(1999)
Electrophoresis
, vol.20
, pp. 2225-2240
-
-
Bernhardt, J.1
Büttner, K.2
Scharf, C.3
Hecker, M.4
-
28
-
-
37549068524
-
Clp-dependent proteolysis down-regulates central metabolic pathways in glucose-starved Bacillus subtilis
-
Gerth, U., Kock, H., Küsters, I., Michalik, S. et al., Clp-dependent proteolysis down-regulates central metabolic pathways in glucose-starved Bacillus subtilis. J. Bacteriol. 2008, 190, 321-331.
-
(2008)
J. Bacteriol.
, vol.190
, pp. 321-331
-
-
Gerth, U.1
Kock, H.2
Küsters, I.3
Michalik, S.4
-
29
-
-
70350238657
-
Proteolysis during long-term glucose starvation in Staphylococcus aureus COL
-
Michalik, S., Liebeke, M., Zühlke, D., Lalk, M. et al., Proteolysis during long-term glucose starvation in Staphylococcus aureus COL. Proteomics 2009, 9, 4468-4477.
-
(2009)
Proteomics
, vol.9
, pp. 4468-4477
-
-
Michalik, S.1
Liebeke, M.2
Zühlke, D.3
Lalk, M.4
-
30
-
-
76449115656
-
Integrating multiple 'omics' analysis for microbial biology: application and methodologies
-
Zhang, W., Li, F., Nie, L., Integrating multiple 'omics' analysis for microbial biology: application and methodologies. Microbiology 2010, 156, 287-301.
-
(2010)
Microbiology
, vol.156
, pp. 287-301
-
-
Zhang, W.1
Li, F.2
Nie, L.3
-
31
-
-
84865705987
-
Life and death of proteins: a case study of glucose-starved Staphylococcus aureus
-
Michalik, S., Bernhardt, J., Otto, A., Moche, M. et al., Life and death of proteins: a case study of glucose-starved Staphylococcus aureus. Mol. Cell. Proteomics 2012, 11, 558-570.
-
(2012)
Mol. Cell. Proteomics
, vol.11
, pp. 558-570
-
-
Michalik, S.1
Bernhardt, J.2
Otto, A.3
Moche, M.4
-
32
-
-
84867641516
-
Dynamic 13C-labeling experiments prove important differences in protein turnover rate between two Saccharomyces cerevisiae strains
-
Hong, K. K., Hou, J., Shoaie, S., Nielsen, J., Bordel, S., Dynamic 13C-labeling experiments prove important differences in protein turnover rate between two Saccharomyces cerevisiae strains. FEMS Yeast Res. 2012, 12, 741-747.
-
(2012)
FEMS Yeast Res.
, vol.12
, pp. 741-747
-
-
Hong, K.K.1
Hou, J.2
Shoaie, S.3
Nielsen, J.4
Bordel, S.5
-
33
-
-
48849116981
-
The speciation of the proteome
-
Jungblut, P. R., Holzhutter, H. G., Apweiler, R., Schluter, H., The speciation of the proteome. Chem. Cent. J. 2008, 2, 16.
-
(2008)
Chem. Cent. J.
, vol.2
, pp. 16
-
-
Jungblut, P.R.1
Holzhutter, H.G.2
Apweiler, R.3
Schluter, H.4
-
34
-
-
73649114530
-
A proteomic view of cell physiology and virulence of Staphylococcus aureus
-
Hecker, M., Becher, D., Fuchs, S., Engelmann, S., A proteomic view of cell physiology and virulence of Staphylococcus aureus. Int. J. Med. Microbiol. 2010, 300, 76-87.
-
(2010)
Int. J. Med. Microbiol.
, vol.300
, pp. 76-87
-
-
Hecker, M.1
Becher, D.2
Fuchs, S.3
Engelmann, S.4
-
35
-
-
62349101329
-
Classical proteomics: two-dimensional electrophoresis/MALDI mass spectrometry
-
Zimny-Arndt, U., Schmid, M., Ackermann, R., Jungblut, P. R., Classical proteomics: two-dimensional electrophoresis/MALDI mass spectrometry. Methods Mol. Biol. 2009, 492, 65-91.
-
(2009)
Methods Mol. Biol.
, vol.492
, pp. 65-91
-
-
Zimny-Arndt, U.1
Schmid, M.2
Ackermann, R.3
Jungblut, P.R.4
-
36
-
-
34648857991
-
Dynamics of protein phosphorylation on Ser/Thr/Tyr in Bacillus subtilis
-
Eymann, C., Becher, D., Bernhardt, J., Gronau, K. et al., Dynamics of protein phosphorylation on Ser/Thr/Tyr in Bacillus subtilis. Proteomics 2007, 7, 3509-3526.
-
(2007)
Proteomics
, vol.7
, pp. 3509-3526
-
-
Eymann, C.1
Becher, D.2
Bernhardt, J.3
Gronau, K.4
-
37
-
-
84855901086
-
Effect of acid stress on protein expression and phosphorylation in Lactobacillus rhamnosus GG
-
Koponen, J., Laakso, K., Koskenniemi, K., Kankainen, M. et al., Effect of acid stress on protein expression and phosphorylation in Lactobacillus rhamnosus GG. J. Proteomics 2012, 75, 1357-1374.
-
(2012)
J. Proteomics
, vol.75
, pp. 1357-1374
-
-
Koponen, J.1
Laakso, K.2
Koskenniemi, K.3
Kankainen, M.4
-
38
-
-
67650360389
-
Comprehensive analysis of phosphorylated proteins of Escherichia coli ribosomes
-
Soung, G. Y., Miller, J. L., Koc, H., Koc, E. C., Comprehensive analysis of phosphorylated proteins of Escherichia coli ribosomes. J. Proteome Res. 2009, 8, 3390-3402.
-
(2009)
J. Proteome Res.
, vol.8
, pp. 3390-3402
-
-
Soung, G.Y.1
Miller, J.L.2
Koc, H.3
Koc, E.C.4
-
39
-
-
70349897853
-
Outer membrane proteome and antigens of Tannerella forsythia
-
Veith, P. D., O'Brien-Simpson, N. M., Tan, Y., Djatmiko, D. C. et al., Outer membrane proteome and antigens of Tannerella forsythia. J. Proteome Res. 2009, 8, 4279-4292.
-
(2009)
J. Proteome Res.
, vol.8
, pp. 4279-4292
-
-
Veith, P.D.1
O'Brien-Simpson, N.M.2
Tan, Y.3
Djatmiko, D.C.4
-
40
-
-
84892900045
-
Analysis of protein species differentiation among mycobacterial low-Mr-secreted proteins by narrow pH range immobiline gel 2-DE-MALDI-MS
-
doi:10.1016/j.jprot.2013.06.036.
-
Lange, S., Rosenkrands, I., Stein, R., Andersen, P. et al., Analysis of protein species differentiation among mycobacterial low-Mr-secreted proteins by narrow pH range immobiline gel 2-DE-MALDI-MS. J. Proteomics 2013, doi:10.1016/j.jprot.2013.06.036.
-
(2013)
J. Proteomics
-
-
Lange, S.1
Rosenkrands, I.2
Stein, R.3
Andersen, P.4
-
41
-
-
84884247407
-
2D gels still have a niche in proteomics
-
Rogowska-Wrzesinska, A., Le Bihan, M. C., Thaysen-Andersen, M., Roepstorff, P., 2D gels still have a niche in proteomics. J. Proteomics 2013, 88, 4-13.
-
(2013)
J. Proteomics
, vol.88
, pp. 4-13
-
-
Rogowska-Wrzesinska, A.1
Le Bihan, M.C.2
Thaysen-Andersen, M.3
Roepstorff, P.4
-
42
-
-
34648834050
-
The state of the art in the analysis of two-dimensional gel electrophoresis images
-
Berth, M., Moser, F. M., Kolbe, M., Bernhardt, J., The state of the art in the analysis of two-dimensional gel electrophoresis images. Appl. Microbiol. Biotechnol. 2007, 76, 1223-1243.
-
(2007)
Appl. Microbiol. Biotechnol.
, vol.76
, pp. 1223-1243
-
-
Berth, M.1
Moser, F.M.2
Kolbe, M.3
Bernhardt, J.4
-
43
-
-
84878666768
-
The new horizon in 2D electrophoresis: new technology to increase resolution and sensitivity
-
Moche, M., Albrecht, D., Maass, S., Hecker, M. et al., The new horizon in 2D electrophoresis: new technology to increase resolution and sensitivity. Electrophoresis 2013, 34, 1510-1518.
-
(2013)
Electrophoresis
, vol.34
, pp. 1510-1518
-
-
Moche, M.1
Albrecht, D.2
Maass, S.3
Hecker, M.4
-
44
-
-
44049091137
-
Difference gel electrophoresis based on lys/cys tagging
-
Westermeier, R., Scheibe, B., Difference gel electrophoresis based on lys/cys tagging. Methods Mol. Biol. 2008, 424, 73-85.
-
(2008)
Methods Mol. Biol.
, vol.424
, pp. 73-85
-
-
Westermeier, R.1
Scheibe, B.2
-
45
-
-
0042386237
-
Iterative data analysis is the key for exhaustive analysis of peptide mass fingerprints from proteins separated by two-dimensional electrophoresis
-
Schmidt, F., Schmid, M., Jungblut, P. R., Mattow, J. et al., Iterative data analysis is the key for exhaustive analysis of peptide mass fingerprints from proteins separated by two-dimensional electrophoresis. J. Am. Soc. Mass Spectrom. 2003, 14, 943-956.
-
(2003)
J. Am. Soc. Mass Spectrom.
, vol.14
, pp. 943-956
-
-
Schmidt, F.1
Schmid, M.2
Jungblut, P.R.3
Mattow, J.4
-
46
-
-
69249222678
-
Membrane proteins and proteomics: love is possible, but so difficult
-
Rabilloud, T., Membrane proteins and proteomics: love is possible, but so difficult. Electrophoresis 2009, 30(Suppl 1), S174-S180.
-
(2009)
Electrophoresis
, vol.30
, Issue.SUPPL. 1
-
-
Rabilloud, T.1
-
47
-
-
0034066471
-
Membrane proteins and proteomics: un amour impossible
-
Santoni, V., Molloy, M., Rabilloud, T., Membrane proteins and proteomics: un amour impossible? Electrophoresis 2000, 21, 1054-1070.
-
(2000)
Electrophoresis
, vol.21
, pp. 1054-1070
-
-
Santoni, V.1
Molloy, M.2
Rabilloud, T.3
-
48
-
-
35448967750
-
Top-down quantitation and characterization of SILAC-labeled proteins
-
Waanders, L. F., Hanke, S., Mann, M., Top-down quantitation and characterization of SILAC-labeled proteins. J. Am. Soc. Mass Spectrom. 2007, 18, 2058-2064.
-
(2007)
J. Am. Soc. Mass Spectrom.
, vol.18
, pp. 2058-2064
-
-
Waanders, L.F.1
Hanke, S.2
Mann, M.3
-
49
-
-
79952012529
-
The emerging process of top down mass spectrometry for protein analysis: biomarkers, protein-therapeutics, and achieving high throughput
-
Kellie, J. F., Tran, J. C., Lee, J. E., Ahlf, D. R. et al., The emerging process of top down mass spectrometry for protein analysis: biomarkers, protein-therapeutics, and achieving high throughput. Mol. Biosyst. 2010, 6, 1532-1539.
-
(2010)
Mol. Biosyst.
, vol.6
, pp. 1532-1539
-
-
Kellie, J.F.1
Tran, J.C.2
Lee, J.E.3
Ahlf, D.R.4
-
50
-
-
46849122859
-
Top-down identification and quantification of stable isotope labeled proteins from Aspergillus flavus using online nano-flow reversed-phase liquid chromatography coupled to a LTQ-FTICR mass spectrometer
-
Collier, T. S., Hawkridge, A. M., Georgianna, D. R., Payne, G. A., Muddiman, D. C., Top-down identification and quantification of stable isotope labeled proteins from Aspergillus flavus using online nano-flow reversed-phase liquid chromatography coupled to a LTQ-FTICR mass spectrometer. Anal. Chem. 2008, 80, 4994-5001.
-
(2008)
Anal. Chem.
, vol.80
, pp. 4994-5001
-
-
Collier, T.S.1
Hawkridge, A.M.2
Georgianna, D.R.3
Payne, G.A.4
Muddiman, D.C.5
-
51
-
-
77954513767
-
The pros and cons of peptide-centric proteomics
-
Duncan, M. W., Aebersold, R., Caprioli, R. M., The pros and cons of peptide-centric proteomics. Nat. Biotechnol. 2010, 28, 659-664.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 659-664
-
-
Duncan, M.W.1
Aebersold, R.2
Caprioli, R.M.3
-
52
-
-
84864805910
-
Mass spectrometry-based proteomics for systems biology
-
Sabido, E., Selevsek, N., Aebersold, R., Mass spectrometry-based proteomics for systems biology. Curr. Opin. Biotechnol. 2012, 23, 591-597.
-
(2012)
Curr. Opin. Biotechnol.
, vol.23
, pp. 591-597
-
-
Sabido, E.1
Selevsek, N.2
Aebersold, R.3
-
53
-
-
37249014081
-
The biological impact of mass-spectrometry-based proteomics
-
Cravatt, B. F., Simon, G. M., Yates, J. R., 3rd, The biological impact of mass-spectrometry-based proteomics. Nature 2007, 450, 991-1000.
-
(2007)
Nature
, vol.450
, pp. 991-1000
-
-
Cravatt, B.F.1
Simon, G.M.2
Yates III, J.R.3
-
54
-
-
0037435030
-
Mass spectrometry-based proteomics
-
Aebersold, R., Mann, M., Mass spectrometry-based proteomics. Nature 2003, 422, 198-207.
-
(2003)
Nature
, vol.422
, pp. 198-207
-
-
Aebersold, R.1
Mann, M.2
-
55
-
-
0015456112
-
High accuracy determination of calcium in blood serum by isotope dilution mass spectrometry
-
Moore, L. J., Machlan, L. A., High accuracy determination of calcium in blood serum by isotope dilution mass spectrometry. Anal. Chem. 1972, 44, 2291-2296.
-
(1972)
Anal. Chem.
, vol.44
, pp. 2291-2296
-
-
Moore, L.J.1
Machlan, L.A.2
-
56
-
-
34748916981
-
Quantitative mass spectrometry in proteomics: a critical review
-
Bantscheff, M., Schirle, M., Sweetman, G., Rick, J., Küster, B., Quantitative mass spectrometry in proteomics: a critical review. Anal. Bioanal. Chem. 2007, 389, 1017-1031.
-
(2007)
Anal. Bioanal. Chem.
, vol.389
, pp. 1017-1031
-
-
Bantscheff, M.1
Schirle, M.2
Sweetman, G.3
Rick, J.4
Küster, B.5
-
57
-
-
64749108158
-
Multiplex peptide stable isotope dimethyl labeling for quantitative proteomics
-
Boersema, P. J., Raijmakers, R., Lemeer, S., Mohammed, S., Heck, A. J., Multiplex peptide stable isotope dimethyl labeling for quantitative proteomics. Nat. Protoc. 2009, 4, 484-494.
-
(2009)
Nat. Protoc.
, vol.4
, pp. 484-494
-
-
Boersema, P.J.1
Raijmakers, R.2
Lemeer, S.3
Mohammed, S.4
Heck, A.J.5
-
58
-
-
33644524918
-
Mass spectrometry-based proteomics turns quantitative
-
Ong, S. E., Mann, M., Mass spectrometry-based proteomics turns quantitative. Nat. Chem. Biol. 2005, 1, 252-262.
-
(2005)
Nat. Chem. Biol.
, vol.1
, pp. 252-262
-
-
Ong, S.E.1
Mann, M.2
-
59
-
-
0036583926
-
Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics
-
Ong, S. E., Blagoev, B., Kratchmarova, I., Kristensen, D. B. et al., Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol. Cell. Proteomics 2002, 1, 376-386.
-
(2002)
Mol. Cell. Proteomics
, vol.1
, pp. 376-386
-
-
Ong, S.E.1
Blagoev, B.2
Kratchmarova, I.3
Kristensen, D.B.4
-
60
-
-
0036428393
-
Amino acid residue specific stable isotope labeling for quantitative proteomics
-
Zhu, H., Pan, S., Gu, S., Bradbury, E. M., Chen, X., Amino acid residue specific stable isotope labeling for quantitative proteomics. Rapid Commun. Mass Spectrom. 2002, 16, 2115-2123.
-
(2002)
Rapid Commun. Mass Spectrom.
, vol.16
, pp. 2115-2123
-
-
Zhu, H.1
Pan, S.2
Gu, S.3
Bradbury, E.M.4
Chen, X.5
-
61
-
-
44649164495
-
Monitoring of changes in the membrane proteome during stationary phase adaptation of Bacillus subtilis using in vivo labeling techniques
-
Dreisbach, A., Otto, A., Becher, D., Hammer, E. et al., Monitoring of changes in the membrane proteome during stationary phase adaptation of Bacillus subtilis using in vivo labeling techniques. Proteomics 2008, 8, 2062-2076.
-
(2008)
Proteomics
, vol.8
, pp. 2062-2076
-
-
Dreisbach, A.1
Otto, A.2
Becher, D.3
Hammer, E.4
-
62
-
-
76649083593
-
Quantitative proteomics by metabolic labeling of model organisms
-
Gouw, J. W., Krijgsveld, J., Heck, A. J., Quantitative proteomics by metabolic labeling of model organisms. Mol. Cell. Proteomics 2010, 9, 11-24.
-
(2010)
Mol. Cell. Proteomics
, vol.9
, pp. 11-24
-
-
Gouw, J.W.1
Krijgsveld, J.2
Heck, A.J.3
-
63
-
-
55249096894
-
Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast
-
de Godoy, L. M., Olsen, J. V., Cox, J., Nielsen, M. L. et al., Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast. Nature 2008, 455, 1251-1254.
-
(2008)
Nature
, vol.455
, pp. 1251-1254
-
-
de Godoy, L.M.1
Olsen, J.V.2
Cox, J.3
Nielsen, M.L.4
-
64
-
-
0036164157
-
Selective incorporation of isotopically labeled amino acids for identification of intact proteins on a proteome-wide level
-
Martinović, S., Veenstra, T. D., Anderson, G. A., Paša-Tolić, L., Smith, R. D., Selective incorporation of isotopically labeled amino acids for identification of intact proteins on a proteome-wide level. J. Mass Spectrom. 2002, 37, 99-107.
-
(2002)
J. Mass Spectrom.
, vol.37
, pp. 99-107
-
-
Martinović, S.1
Veenstra, T.D.2
Anderson, G.A.3
Paša-Tolić, L.4
Smith, R.D.5
-
65
-
-
0042432365
-
High throughput proteome-wide precision measurements of protein expression using mass spectrometry
-
Pasa-Tolic, L., Jensen, P. K., Anderson, G. A., Lipton, M. S. et al., High throughput proteome-wide precision measurements of protein expression using mass spectrometry. J. Am. Chem. Soc. 1999, 121, 7949-7950.
-
(1999)
J. Am. Chem. Soc.
, vol.121
, pp. 7949-7950
-
-
Pasa-Tolic, L.1
Jensen, P.K.2
Anderson, G.A.3
Lipton, M.S.4
-
66
-
-
0037112472
-
Use of deuterium-labeled lysine for efficient protein identification and peptide de novo sequencing
-
Gu, S., Pan, S., Bradbury, E. M., Chen, X., Use of deuterium-labeled lysine for efficient protein identification and peptide de novo sequencing. Anal. Chem. 2002, 74, 5774-5785.
-
(2002)
Anal. Chem.
, vol.74
, pp. 5774-5785
-
-
Gu, S.1
Pan, S.2
Bradbury, E.M.3
Chen, X.4
-
67
-
-
0036534547
-
Using stable-isotope-labeled proteins for hydrogen exchange studies in complex mixtures
-
Engen, J. R., Bradbury, E. M., Chen, X., Using stable-isotope-labeled proteins for hydrogen exchange studies in complex mixtures. Anal. Chem. 2002, 74, 1680-1686.
-
(2002)
Anal. Chem.
, vol.74
, pp. 1680-1686
-
-
Engen, J.R.1
Bradbury, E.M.2
Chen, X.3
-
68
-
-
0034582298
-
Proteome analysis using selective incorporation of isotopically labeled amino acids
-
Veenstra, T. D., Martinovic, S., Anderson, G. A., Pasa-Tolic, L., Smith, R. D., Proteome analysis using selective incorporation of isotopically labeled amino acids. J. Am. Soc. Mass Spectrom. 2000, 11, 78-82.
-
(2000)
J. Am. Soc. Mass Spectrom.
, vol.11
, pp. 78-82
-
-
Veenstra, T.D.1
Martinovic, S.2
Anderson, G.A.3
Pasa-Tolic, L.4
Smith, R.D.5
-
69
-
-
0036164157
-
Selective incorporation of isotopically labeled amino acids for identification of intact proteins on a proteome-wide level
-
Martinovic, S., Veenstra, T. D., Anderson, G. A., Pasa-Tolic, L., Smith, R. D., Selective incorporation of isotopically labeled amino acids for identification of intact proteins on a proteome-wide level. J. Mass Spectrom. 2002, 37, 99-107.
-
(2002)
J. Mass Spectrom.
, vol.37
, pp. 99-107
-
-
Martinovic, S.1
Veenstra, T.D.2
Anderson, G.A.3
Pasa-Tolic, L.4
Smith, R.D.5
-
70
-
-
0034654593
-
Site-specific mass tagging with stable isotopes in proteins for accurate and efficient protein identification
-
Chen, X., Smith, L. M., Bradbury, E. M., Site-specific mass tagging with stable isotopes in proteins for accurate and efficient protein identification. Anal. Chem. 2000, 72, 1134-1143.
-
(2000)
Anal. Chem.
, vol.72
, pp. 1134-1143
-
-
Chen, X.1
Smith, L.M.2
Bradbury, E.M.3
-
71
-
-
77954371891
-
Stable isotope labeling by amino acids in cell culture (SILAC) applied to quantitative proteomics of Bacillus subtilis
-
Soufi, B., Kumar, C., Gnad, F., Mann, M. et al., Stable isotope labeling by amino acids in cell culture (SILAC) applied to quantitative proteomics of Bacillus subtilis. J. Proteome Res. 2010, 9, 3638-3646.
-
(2010)
J. Proteome Res.
, vol.9
, pp. 3638-3646
-
-
Soufi, B.1
Kumar, C.2
Gnad, F.3
Mann, M.4
-
72
-
-
84885648123
-
Development of a 5-plex SILAC method tuned for the quantitation of tyrosine phosphorylation dynamics
-
Tzouros, M., Golling, S., Avila, D., Lamerz, J. et al., Development of a 5-plex SILAC method tuned for the quantitation of tyrosine phosphorylation dynamics. Mol. Cell. Proteomics 2013, 12, 3339-3349.
-
(2013)
Mol. Cell. Proteomics
, vol.12
, pp. 3339-3349
-
-
Tzouros, M.1
Golling, S.2
Avila, D.3
Lamerz, J.4
-
73
-
-
33845329203
-
Functional and quantitative proteomics using SILAC
-
Mann, M., Functional and quantitative proteomics using SILAC. Nat. Rev. Mol. Cell Biol. 2006, 7, 952-958.
-
(2006)
Nat. Rev. Mol. Cell Biol.
, vol.7
, pp. 952-958
-
-
Mann, M.1
-
74
-
-
52649125713
-
The Ser/Thr/Tyr phosphoproteome of Lactococcus lactis IL1403 reveals multiply phosphorylated proteins
-
Soufi, B., Gnad, F., Jensen, P. R., Petranovic, D. et al., The Ser/Thr/Tyr phosphoproteome of Lactococcus lactis IL1403 reveals multiply phosphorylated proteins. Proteomics 2008, 8, 3486-3493.
-
(2008)
Proteomics
, vol.8
, pp. 3486-3493
-
-
Soufi, B.1
Gnad, F.2
Jensen, P.R.3
Petranovic, D.4
-
75
-
-
33750456519
-
Global, in vivo, and site-specific phosphorylation dynamics in signaling networks
-
Olsen, J. V., Blagoev, B., Gnad, F., Macek, B. et al., Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. Cell 2006, 127, 635-648.
-
(2006)
Cell
, vol.127
, pp. 635-648
-
-
Olsen, J.V.1
Blagoev, B.2
Gnad, F.3
Macek, B.4
-
76
-
-
0012351964
-
13C-substituted arginine in stable isotope labeling by amino acids in cell culture (SILAC)
-
13C-substituted arginine in stable isotope labeling by amino acids in cell culture (SILAC). J. Proteome Res. 2003, 2, 173-181.
-
(2003)
J. Proteome Res.
, vol.2
, pp. 173-181
-
-
Ong, S.E.1
Kratchmarova, I.2
Mann, M.3
-
77
-
-
79958227262
-
Analyses of soluble and membrane proteomes of Ralstonia eutropha H16 reveal major changes in the protein complement in adaptation to lithoautotrophy
-
Kohlmann, Y., Pohlmann, A., Otto, A., Becher, D. et al., Analyses of soluble and membrane proteomes of Ralstonia eutropha H16 reveal major changes in the protein complement in adaptation to lithoautotrophy. J. Proteome Res. 2011, 10, 2767-2776.
-
(2011)
J. Proteome Res.
, vol.10
, pp. 2767-2776
-
-
Kohlmann, Y.1
Pohlmann, A.2
Otto, A.3
Becher, D.4
-
78
-
-
77956555964
-
Differential effect of YidC depletion on the membrane proteome of Escherichia coli under aerobic and anaerobic growth conditions
-
Price, C. E., Otto, A., Fusetti, F., Becher, D. et al., Differential effect of YidC depletion on the membrane proteome of Escherichia coli under aerobic and anaerobic growth conditions. Proteomics 2010, 10, 3235-3247.
-
(2010)
Proteomics
, vol.10
, pp. 3235-3247
-
-
Price, C.E.1
Otto, A.2
Fusetti, F.3
Becher, D.4
-
79
-
-
0346122950
-
A correlation algorithm for the automated quantitative analysis of shotgun proteomics data
-
MacCoss, M. J., Wu, C. C., Liu, H., Sadygov, R., Yates, J. R., 3rd, A correlation algorithm for the automated quantitative analysis of shotgun proteomics data. Anal. Chem. 2003, 75, 6912-6921.
-
(2003)
Anal. Chem.
, vol.75
, pp. 6912-6921
-
-
MacCoss, M.J.1
Wu, C.C.2
Liu, H.3
Sadygov, R.4
Yates III, J.R.5
-
80
-
-
84868117448
-
The 15N isotope effect in Escherichia coli: a neutron can make the difference
-
Filiou, M. D., Varadarajulu, J., Teplytska, L., Reckow, S. et al., The 15N isotope effect in Escherichia coli: a neutron can make the difference. Proteomics 2012, 12, 3121-3128.
-
(2012)
Proteomics
, vol.12
, pp. 3121-3128
-
-
Filiou, M.D.1
Varadarajulu, J.2
Teplytska, L.3
Reckow, S.4
-
81
-
-
0029365773
-
Cell-free synthesis and amino acid-selective stable isotope labeling of proteins for NMR analysis
-
Kigawa, T., Muto, Y., Yokoyama, S., Cell-free synthesis and amino acid-selective stable isotope labeling of proteins for NMR analysis. J. Biomol. NMR 1995, 6, 129-134.
-
(1995)
J. Biomol. NMR
, vol.6
, pp. 129-134
-
-
Kigawa, T.1
Muto, Y.2
Yokoyama, S.3
-
82
-
-
20844442252
-
Quantitation of de novo localized (15)N-labeled lipoproteins and membrane proteins having one and two transmembrane segments in a Bacillus subtilis secA temperature-sensitive mutant using 2D-PAGE and MALDI-TOF MS
-
Bunai, K., Nozaki, M., Kakeshita, H., Nemoto, T., Yamane, K., Quantitation of de novo localized (15)N-labeled lipoproteins and membrane proteins having one and two transmembrane segments in a Bacillus subtilis secA temperature-sensitive mutant using 2D-PAGE and MALDI-TOF MS. J. Proteome Res. 2005, 4, 826-836.
-
(2005)
J. Proteome Res.
, vol.4
, pp. 826-836
-
-
Bunai, K.1
Nozaki, M.2
Kakeshita, H.3
Nemoto, T.4
Yamane, K.5
-
83
-
-
84885466975
-
Comparative proteome analysis of spontaneous outer membrane vesicles and purified outer membranes of Neisseria meningitidis
-
Lappann, M., Otto, A., Becher, D., Vogel, U., Comparative proteome analysis of spontaneous outer membrane vesicles and purified outer membranes of Neisseria meningitidis. J. Bacteriol. 2013, 195, 4425-4435.
-
(2013)
J. Bacteriol.
, vol.195
, pp. 4425-4435
-
-
Lappann, M.1
Otto, A.2
Becher, D.3
Vogel, U.4
-
84
-
-
79952248038
-
Quantitative proteomic analysis of the chemolithoautotrophic bacterium Nitrosomonas europaea: comparison of growing- and energy-starved cells
-
Pellitteri-Hahn, M. C., Halligan, B. D., Scalf, M., Smith, L., Hickey, W. J., Quantitative proteomic analysis of the chemolithoautotrophic bacterium Nitrosomonas europaea: comparison of growing- and energy-starved cells. J. Proteomics 2011, 74, 411-419.
-
(2011)
J. Proteomics
, vol.74
, pp. 411-419
-
-
Pellitteri-Hahn, M.C.1
Halligan, B.D.2
Scalf, M.3
Smith, L.4
Hickey, W.J.5
-
86
-
-
84860426985
-
Global proteome survey of protocatechuate-and glucose-grown Corynebacterium glutamicum reveals multiple physiological differences
-
Haußmann, U., Poetsch, A., Global proteome survey of protocatechuate-and glucose-grown Corynebacterium glutamicum reveals multiple physiological differences. J. Proteomics 2012, 75, 2649-2659.
-
(2012)
J. Proteomics
, vol.75
, pp. 2649-2659
-
-
Haußmann, U.1
Poetsch, A.2
-
87
-
-
50249172221
-
Complementary analysis of the vegetative membrane proteome of the human pathogen Staphylococcus aureus
-
Wolff, S., Hahne, H., Hecker, M., Becher, D., Complementary analysis of the vegetative membrane proteome of the human pathogen Staphylococcus aureus. Mol. Cell. Proteomics 2008, 7, 1460-1468.
-
(2008)
Mol. Cell. Proteomics
, vol.7
, pp. 1460-1468
-
-
Wolff, S.1
Hahne, H.2
Hecker, M.3
Becher, D.4
-
88
-
-
84856070845
-
15N metabolically labeled bacteriophage amplification coupled with a multiple reaction monitoring proteomic workflow
-
doi:10.1074/mcp.M111.012849.
-
15N metabolically labeled bacteriophage amplification coupled with a multiple reaction monitoring proteomic workflow. Mol. Cell. Proteomics 2012, 11, doi:10.1074/mcp.M111.012849.
-
(2012)
Mol. Cell. Proteomics
, vol.11
-
-
Pierce, C.L.1
Rees, J.C.2
Fernández, F.M.3
Barr, J.R.4
-
89
-
-
84884671955
-
Insights from quantitative metaproteomics and protein-stable isotope probing into microbial ecology
-
von Bergen, M., Jehmlich, N., Taubert, M., Vogt, C. et al., Insights from quantitative metaproteomics and protein-stable isotope probing into microbial ecology. ISME J. 2013, 10, 1877-1885.
-
(2013)
ISME J.
, vol.10
, pp. 1877-1885
-
-
von Bergen, M.1
Jehmlich, N.2
Taubert, M.3
Vogt, C.4
-
90
-
-
84867574489
-
Protein-based stable isotope probing (protein-SIP) in functional metaproteomics
-
Seifert, J., Taubert, M., Jehmlich, N., Schmidt, F. et al., Protein-based stable isotope probing (protein-SIP) in functional metaproteomics. Mass Spectrom. Rev. 2012, 31, 683-697.
-
(2012)
Mass Spectrom. Rev.
, vol.31
, pp. 683-697
-
-
Seifert, J.1
Taubert, M.2
Jehmlich, N.3
Schmidt, F.4
-
91
-
-
60749119754
-
Systems biology functional analysis of natural microbial consortia using community proteomics
-
VerBerkmoes, N. C., Denef, V. J., Hettich, R. L., Banfield, J. F., Systems biology functional analysis of natural microbial consortia using community proteomics. Nat. Rev. Microbiol. 2009, 7, 196-205.
-
(2009)
Nat. Rev. Microbiol.
, vol.7
, pp. 196-205
-
-
VerBerkmoes, N.C.1
Denef, V.J.2
Hettich, R.L.3
Banfield, J.F.4
-
92
-
-
19144372182
-
Stable isotope probing-linking microbial identity to function
-
Dumont, M. G., Murrell, J. C., Stable isotope probing-linking microbial identity to function. Nat. Rev. Microbiol. 2005, 3, 499-504.
-
(2005)
Nat. Rev. Microbiol.
, vol.3
, pp. 499-504
-
-
Dumont, M.G.1
Murrell, J.C.2
-
93
-
-
78649957273
-
Protein-based stable isotope probing
-
Jehmlich, N., Schmidt, F., Taubert, M., Seifert, J. et al., Protein-based stable isotope probing. Nat. Protoc. 2010, 5, 1957-1966.
-
(2010)
Nat. Protoc.
, vol.5
, pp. 1957-1966
-
-
Jehmlich, N.1
Schmidt, F.2
Taubert, M.3
Seifert, J.4
-
94
-
-
29144431588
-
Perturbation and interpretation of nitrogen isotope distribution patterns in proteomics
-
Snijders, A. P., de Koning, B., Wright, P. C., Perturbation and interpretation of nitrogen isotope distribution patterns in proteomics. J. Proteome Res. 2005, 4, 2185-2191.
-
(2005)
J. Proteome Res.
, vol.4
, pp. 2185-2191
-
-
Snijders, A.P.1
de Koning, B.2
Wright, P.C.3
-
95
-
-
79959576957
-
Quantitative proteomic analyses of the response of acidophilic microbial communities to different pH conditions
-
Belnap, C. P., Pan, C., Denef, V. J., Samatova, N. F. et al., Quantitative proteomic analyses of the response of acidophilic microbial communities to different pH conditions. ISME J. 2011, 5, 1152-1161.
-
(2011)
ISME J.
, vol.5
, pp. 1152-1161
-
-
Belnap, C.P.1
Pan, C.2
Denef, V.J.3
Samatova, N.F.4
-
96
-
-
79953305843
-
Quantitative tracking of isotope flows in proteomes of microbial communities
-
Pan, C., Fischer, C. R., Hyatt, D., Bowen, B. P. et al., Quantitative tracking of isotope flows in proteomes of microbial communities. Mol. Cell. Proteomics 2011, 10, M110 006049.
-
(2011)
Mol. Cell. Proteomics
, vol.10
-
-
Pan, C.1
Fischer, C.R.2
Hyatt, D.3
Bowen, B.P.4
-
97
-
-
55549089274
-
Protein-based stable isotope probing (protein-SIP) reveals active species within anoxic mixed cultures
-
Jehmlich, N., Schmidt, F., von Bergen, M., Richnow, H. H., Vogt, C., Protein-based stable isotope probing (protein-SIP) reveals active species within anoxic mixed cultures. ISME J. 2008, 2, 1122-1133.
-
(2008)
ISME J.
, vol.2
, pp. 1122-1133
-
-
Jehmlich, N.1
Schmidt, F.2
von Bergen, M.3
Richnow, H.H.4
Vogt, C.5
-
98
-
-
84855451689
-
Sulfur-36S stable isotope labeling of amino acids for quantification (SULAQ)
-
Jehmlich, N., Kopinke, F. D., Lenhard, S., Vogt, C. et al., Sulfur-36S stable isotope labeling of amino acids for quantification (SULAQ). Proteomics 2012, 12, 37-42.
-
(2012)
Proteomics
, vol.12
, pp. 37-42
-
-
Jehmlich, N.1
Kopinke, F.D.2
Lenhard, S.3
Vogt, C.4
-
99
-
-
84881102933
-
Sulfur-34S stable isotope labeling of amino acids for quantification (SULAQ34) of proteomic changes in Pseudomonas fluorescens during naphthalene degradation
-
Herbst, F. A., Taubert, M., Jehmlich, N., Behr, T. et al., Sulfur-34S stable isotope labeling of amino acids for quantification (SULAQ34) of proteomic changes in Pseudomonas fluorescens during naphthalene degradation. Mol. Cell. Proteomics 2013, 8, 2060-2069.
-
(2013)
Mol. Cell. Proteomics
, vol.8
, pp. 2060-2069
-
-
Herbst, F.A.1
Taubert, M.2
Jehmlich, N.3
Behr, T.4
-
100
-
-
84865576726
-
Quantitative mass spectrometry in proteomics: critical review update from 2007 to the present
-
Bantscheff, M., Lemeer, S., Savitski, M. M., Küster, B., Quantitative mass spectrometry in proteomics: critical review update from 2007 to the present. Anal. Bioanal. Chem. 2012, 404, 939-965.
-
(2012)
Anal. Bioanal. Chem.
, vol.404
, pp. 939-965
-
-
Bantscheff, M.1
Lemeer, S.2
Savitski, M.M.3
Küster, B.4
-
101
-
-
0032875697
-
Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
-
Gygi, S. P., Rist, B., Gerber, S. A., Turecek, F. et al., Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat. Biotechnol. 1999, 17, 994-999.
-
(1999)
Nat. Biotechnol.
, vol.17
, pp. 994-999
-
-
Gygi, S.P.1
Rist, B.2
Gerber, S.A.3
Turecek, F.4
-
102
-
-
0033016717
-
Correlation between protein and mRNA abundance in yeast
-
Gygi, S. P., Rochon, Y., Franza, B. R., Aebersold, R., Correlation between protein and mRNA abundance in yeast. Mol. Cell. Biol. 1999, 19, 1720-1730.
-
(1999)
Mol. Cell. Biol.
, vol.19
, pp. 1720-1730
-
-
Gygi, S.P.1
Rochon, Y.2
Franza, B.R.3
Aebersold, R.4
-
103
-
-
33847174067
-
Protein labeling by iTRAQ: a new tool for quantitative mass spectrometry in proteome research
-
Wiese, S., Reidegeld, K. A., Meyer, H. E., Warscheid, B., Protein labeling by iTRAQ: a new tool for quantitative mass spectrometry in proteome research. Proteomics 2007, 7, 340-350.
-
(2007)
Proteomics
, vol.7
, pp. 340-350
-
-
Wiese, S.1
Reidegeld, K.A.2
Meyer, H.E.3
Warscheid, B.4
-
104
-
-
0038371369
-
Quantitative chemical proteomics for identifying candidate drug targets
-
Oda, Y., Owa, T., Sato, T., Boucher, B. et al., Quantitative chemical proteomics for identifying candidate drug targets. Anal. Chem. 2003, 75, 2159-2165.
-
(2003)
Anal. Chem.
, vol.75
, pp. 2159-2165
-
-
Oda, Y.1
Owa, T.2
Sato, T.3
Boucher, B.4
-
106
-
-
1042284932
-
Protein profiling with cleavable isotope-coded affinity tag (cICAT) reagents: the yeast salinity stress response
-
Li, J., Steen, H., Gygi, S. P., Protein profiling with cleavable isotope-coded affinity tag (cICAT) reagents: the yeast salinity stress response. Mol. Cell. Proteomics 2003, 2, 1198-1204.
-
(2003)
Mol. Cell. Proteomics
, vol.2
, pp. 1198-1204
-
-
Li, J.1
Steen, H.2
Gygi, S.P.3
-
107
-
-
2542574741
-
Complementary analysis of the Mycobacterium tuberculosis proteome by two-dimensional electrophoresis and isotope-coded affinity tag technology
-
Schmidt, F., Donahoe, S., Hagens, K., Mattow, J. et al., Complementary analysis of the Mycobacterium tuberculosis proteome by two-dimensional electrophoresis and isotope-coded affinity tag technology. Mol. Cell. Proteomics 2004, 3, 24-42.
-
(2004)
Mol. Cell. Proteomics
, vol.3
, pp. 24-42
-
-
Schmidt, F.1
Donahoe, S.2
Hagens, K.3
Mattow, J.4
-
108
-
-
33750080170
-
ICAT-based comparative proteomic analysis of non-replicating persistent Mycobacterium tuberculosis
-
Cho, S. H., Goodlett, D., Franzblau, S., ICAT-based comparative proteomic analysis of non-replicating persistent Mycobacterium tuberculosis. Tuberculosis 2006, 86, 445-460.
-
(2006)
Tuberculosis
, vol.86
, pp. 445-460
-
-
Cho, S.H.1
Goodlett, D.2
Franzblau, S.3
-
109
-
-
0037069421
-
Coordinate regulation of energy transduction modules in Halobacterium sp. analyzed by a global systems approach
-
Baliga, N. S., Pan, M., Goo, Y. A., Yi, E. C. et al., Coordinate regulation of energy transduction modules in Halobacterium sp. analyzed by a global systems approach. Proc. Natl. Acad. Sci. USA 2002, 99, 14913-14918.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 14913-14918
-
-
Baliga, N.S.1
Pan, M.2
Goo, Y.A.3
Yi, E.C.4
-
110
-
-
10044245551
-
Biology of the cold adapted archaeon, Methanococcoides burtonii determined by proteomics using liquid chromatography-tandem mass spectrometry
-
Goodchild, A., Raftery, M., Saunders, N. F., Guilhaus, M., Cavicchioli, R., Biology of the cold adapted archaeon, Methanococcoides burtonii determined by proteomics using liquid chromatography-tandem mass spectrometry. J. Proteome Res. 2004, 3, 1164-1176.
-
(2004)
J. Proteome Res.
, vol.3
, pp. 1164-1176
-
-
Goodchild, A.1
Raftery, M.2
Saunders, N.F.3
Guilhaus, M.4
Cavicchioli, R.5
-
111
-
-
0037418318
-
Quantitative proteomic analysis indicates increased synthesis of a quinolone by Pseudomonas aeruginosa isolates from cystic fibrosis airways
-
Guina, T., Purvine, S. O., Yi, E. C., Eng, J. et al., Quantitative proteomic analysis indicates increased synthesis of a quinolone by Pseudomonas aeruginosa isolates from cystic fibrosis airways. Proc. Natl. Acad. Sci. USA 2003, 100, 2771-2776.
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 2771-2776
-
-
Guina, T.1
Purvine, S.O.2
Yi, E.C.3
Eng, J.4
-
112
-
-
17044432706
-
Large-scale evaluation of quantitative reproducibility and proteome coverage using acid cleavable isotope coded affinity tag mass spectrometry for proteomic profiling
-
Molloy, M. P., Donohoe, S., Brzezinski, E. E., Kilby, G. W. et al., Large-scale evaluation of quantitative reproducibility and proteome coverage using acid cleavable isotope coded affinity tag mass spectrometry for proteomic profiling. Proteomics 2005, 5, 1204-1208.
-
(2005)
Proteomics
, vol.5
, pp. 1204-1208
-
-
Molloy, M.P.1
Donohoe, S.2
Brzezinski, E.E.3
Kilby, G.W.4
-
113
-
-
46149125288
-
Quantifying changes in the thiol redox proteome upon oxidative stress in vivo
-
Leichert, L. I., Gehrke, F., Gudiseva, H. V., Blackwell, T. et al., Quantifying changes in the thiol redox proteome upon oxidative stress in vivo. Proc. Natl. Acad. Sci. USA 2008, 105, 8197-8202.
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 8197-8202
-
-
Leichert, L.I.1
Gehrke, F.2
Gudiseva, H.V.3
Blackwell, T.4
-
114
-
-
82355181555
-
Using quantitative redox proteomics to dissect the yeast redoxome
-
Brandes, N., Reichmann, D., Tienson, H., Leichert, L. I., Jakob, U., Using quantitative redox proteomics to dissect the yeast redoxome. J. Biol. Chem. 2011, 286, 41893-41903.
-
(2011)
J. Biol. Chem.
, vol.286
, pp. 41893-41903
-
-
Brandes, N.1
Reichmann, D.2
Tienson, H.3
Leichert, L.I.4
Jakob, U.5
-
116
-
-
19944432197
-
Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents
-
Ross, P. L., Huang, Y. L. N., Marchese, J. N., Williamson, B. et al., Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents. Mol. Cell. Proteomics 2004, 3, 1154-1169.
-
(2004)
Mol. Cell. Proteomics
, vol.3
, pp. 1154-1169
-
-
Ross, P.L.1
Huang, Y.L.N.2
Marchese, J.N.3
Williamson, B.4
-
117
-
-
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. et al., Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS. Anal. Chem. 2003, 75, 1895-1904.
-
(2003)
Anal. Chem.
, vol.75
, pp. 1895-1904
-
-
Thompson, A.1
Schafer, J.2
Kuhn, K.3
Kienle, S.4
-
118
-
-
84865454296
-
High-resolution enabled TMT 8-plexing
-
Werner, T., Becher, I., Sweetman, G., Doce, C. et al., High-resolution enabled TMT 8-plexing. Anal. Chem. 2012, 84, 7188-7194.
-
(2012)
Anal. Chem.
, vol.84
, pp. 7188-7194
-
-
Werner, T.1
Becher, I.2
Sweetman, G.3
Doce, C.4
-
119
-
-
33746295997
-
Gel-free and gel-based proteomics in Bacillus subtilis: a comparative study
-
Wolff, S., Otto, A., Albrecht, D., Zeng, J. S. et al., Gel-free and gel-based proteomics in Bacillus subtilis: a comparative study. Mol. Cell. Proteomics 2006, 5, 1183-1192.
-
(2006)
Mol. Cell. Proteomics
, vol.5
, pp. 1183-1192
-
-
Wolff, S.1
Otto, A.2
Albrecht, D.3
Zeng, J.S.4
-
120
-
-
84876700652
-
Protein abundance in multiplexed samples (PAMUS) for quantitation of Trichoderma reesei secretome
-
Adav, S. S., Chao, L. T., Sze, S. K., Protein abundance in multiplexed samples (PAMUS) for quantitation of Trichoderma reesei secretome. J. Proteomics 2013, 83, 180-196.
-
(2013)
J. Proteomics
, vol.83
, pp. 180-196
-
-
Adav, S.S.1
Chao, L.T.2
Sze, S.K.3
-
121
-
-
77955445449
-
Quantitative iTRAQ secretome analysis of Aspergillus niger reveals novel hydrolytic enzymes
-
Adav, S. S., Li, A. A., Manavalan, A., Punt, P., Sze, S. K., Quantitative iTRAQ secretome analysis of Aspergillus niger reveals novel hydrolytic enzymes. J. Proteome Res. 2010, 9, 3932-3940.
-
(2010)
J. Proteome Res.
, vol.9
, pp. 3932-3940
-
-
Adav, S.S.1
Li, A.A.2
Manavalan, A.3
Punt, P.4
Sze, S.K.5
-
122
-
-
84857733153
-
Rapid response of the yeast plasma membrane proteome to salt stress
-
Szopinska, A., Degand, H., Hochstenbach, J. F., Nader, J., Morsomme, P., Rapid response of the yeast plasma membrane proteome to salt stress. Mol. Cell. Proteomics 2011, 10, M111 009589.
-
(2011)
Mol. Cell. Proteomics
, vol.10
-
-
Szopinska, A.1
Degand, H.2
Hochstenbach, J.F.3
Nader, J.4
Morsomme, P.5
-
123
-
-
76149128021
-
Global proteomic analysis of the insoluble, soluble, and supernatant fractions of the psychrophilic archaeon Methanococcoides burtonii. Part II: the effect of different methylated growth substrates
-
Williams, T. J., Burg, D. W., Ertan, H., Raftery, M. J. et al., Global proteomic analysis of the insoluble, soluble, and supernatant fractions of the psychrophilic archaeon Methanococcoides burtonii. Part II: the effect of different methylated growth substrates. J. Proteome Res. 2010, 9, 653-663.
-
(2010)
J. Proteome Res.
, vol.9
, pp. 653-663
-
-
Williams, T.J.1
Burg, D.W.2
Ertan, H.3
Raftery, M.J.4
-
124
-
-
76149124222
-
Global proteomic analysis of the insoluble, soluble, and supernatant fractions of the psychrophilic archaeon Methanococcoides burtonii. Part I: the effect of growth temperature
-
Williams, T. J., Burg, D. W., Raftery, M. J., Poljak, A. et al., Global proteomic analysis of the insoluble, soluble, and supernatant fractions of the psychrophilic archaeon Methanococcoides burtonii. Part I: the effect of growth temperature. J. Proteome Res. 2010, 9, 640-652.
-
(2010)
J. Proteome Res.
, vol.9
, pp. 640-652
-
-
Williams, T.J.1
Burg, D.W.2
Raftery, M.J.3
Poljak, A.4
-
125
-
-
17444384908
-
Cold adaptation of the Antarctic archaeon, Methanococcoides burtonii assessed by proteomics using ICAT
-
Goodchild, A., Raftery, M., Saunders, N. F., Guilhaus, M., Cavicchioli, R., Cold adaptation of the Antarctic archaeon, Methanococcoides burtonii assessed by proteomics using ICAT. J. Proteome Res. 2005, 4, 473-480.
-
(2005)
J. Proteome Res.
, vol.4
, pp. 473-480
-
-
Goodchild, A.1
Raftery, M.2
Saunders, N.F.3
Guilhaus, M.4
Cavicchioli, R.5
-
126
-
-
65349188082
-
Identification of proteins of Neisseria meningitidis induced under iron-limiting conditions using the isobaric tandem mass tag (TMT) labeling approach
-
van Ulsen, P., Kuhn, K., Prinz, T., Legner, H. et al., Identification of proteins of Neisseria meningitidis induced under iron-limiting conditions using the isobaric tandem mass tag (TMT) labeling approach. Proteomics 2009, 9, 1771-1781.
-
(2009)
Proteomics
, vol.9
, pp. 1771-1781
-
-
van Ulsen, P.1
Kuhn, K.2
Prinz, T.3
Legner, H.4
-
127
-
-
38049042725
-
Comparative proteomics analyses reveal a potential biomarker for the detection of vancomycin-intermediate Staphylococcus aureus strains
-
Drummelsmith, J., Winstall, E., Bergeron, M. G., Poirier, G. G., Ouellette, M., Comparative proteomics analyses reveal a potential biomarker for the detection of vancomycin-intermediate Staphylococcus aureus strains. J. Proteome Res. 2007, 6, 4690-4702.
-
(2007)
J. Proteome Res.
, vol.6
, pp. 4690-4702
-
-
Drummelsmith, J.1
Winstall, E.2
Bergeron, M.G.3
Poirier, G.G.4
Ouellette, M.5
-
128
-
-
84855978197
-
The impact of CodY on virulence determinant production in community-associated methicillin-resistant Staphylococcus aureus
-
Rivera, F. E., Miller, H. K., Kolar, S. L., Stevens, S. M., Jr., Shaw, L. N., The impact of CodY on virulence determinant production in community-associated methicillin-resistant Staphylococcus aureus. Proteomics 2012, 12, 263-268.
-
(2012)
Proteomics
, vol.12
, pp. 263-268
-
-
Rivera, F.E.1
Miller, H.K.2
Kolar, S.L.3
Stevens Jr, S.M.4
Shaw, L.N.5
-
129
-
-
52649098504
-
Robust and sensitive iTRAQ quantification on an LTQ Orbitrap mass spectrometer
-
Bantscheff, M., Boesche, M., Eberhard, D., Matthieson, T. et al., Robust and sensitive iTRAQ quantification on an LTQ Orbitrap mass spectrometer. Mol. Cell. Proteomics 2008, 7, 1702-1713.
-
(2008)
Mol. Cell. Proteomics
, vol.7
, pp. 1702-1713
-
-
Bantscheff, M.1
Boesche, M.2
Eberhard, D.3
Matthieson, T.4
-
130
-
-
26844559000
-
Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein
-
Ishihama, Y., Oda, Y., Tabata, T., Sato, T. et al., Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein. Mol. Cell. Proteomics 2005, 4, 1265-1272.
-
(2005)
Mol. Cell. Proteomics
, vol.4
, pp. 1265-1272
-
-
Ishihama, Y.1
Oda, Y.2
Tabata, T.3
Sato, T.4
-
131
-
-
33748319353
-
Statistical analysis of membrane proteome expression changes in Saccharomyces cerevisiae
-
Zybailov, B., Mosley, A. L., Sardiu, M. E., Coleman, M. K. et al., Statistical analysis of membrane proteome expression changes in Saccharomyces cerevisiae. J. Proteome Res. 2006, 5, 2339-2347.
-
(2006)
J. Proteome Res.
, vol.5
, pp. 2339-2347
-
-
Zybailov, B.1
Mosley, A.L.2
Sardiu, M.E.3
Coleman, M.K.4
-
132
-
-
0036674269
-
Large-scale proteomic analysis of the human spliceosome
-
Rappsilber, J., Ryder, U., Lamond, A. I., Mann, M., Large-scale proteomic analysis of the human spliceosome. Genome Res. 2002, 12, 1231-1245.
-
(2002)
Genome Res.
, vol.12
, pp. 1231-1245
-
-
Rappsilber, J.1
Ryder, U.2
Lamond, A.I.3
Mann, M.4
-
133
-
-
60649101258
-
The APEX Quantitative Proteomics Tool: generating protein quantitation estimates from LC-MS/MS proteomics results
-
Braisted, J. C., Kuntumalla, S., Vogel, C., Marcotte, E. M. et al., The APEX Quantitative Proteomics Tool: generating protein quantitation estimates from LC-MS/MS proteomics results. BMC Bioinformatics 2008, 9, 529.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 529
-
-
Braisted, J.C.1
Kuntumalla, S.2
Vogel, C.3
Marcotte, E.M.4
-
134
-
-
77958056802
-
Direct comparison of stable isotope labeling by amino acids in cell culture and spectral counting for quantitative proteomics
-
Collier, T. S., Sarkar, P., Franck, W. L., Rao, B. M. et al., Direct comparison of stable isotope labeling by amino acids in cell culture and spectral counting for quantitative proteomics. Anal. Chem. 2010, 82, 8696-8702.
-
(2010)
Anal. Chem.
, vol.82
, pp. 8696-8702
-
-
Collier, T.S.1
Sarkar, P.2
Franck, W.L.3
Rao, B.M.4
-
135
-
-
58149299336
-
Significance analysis of spectral count data in label-free shotgun proteomics
-
Choi, H., Fermin, D., Nesvizhskii, A. I., Significance analysis of spectral count data in label-free shotgun proteomics. Mol. Cell. Proteomics 2008, 7, 2373-2385.
-
(2008)
Mol. Cell. Proteomics
, vol.7
, pp. 2373-2385
-
-
Choi, H.1
Fermin, D.2
Nesvizhskii, A.I.3
-
136
-
-
79954794882
-
Utility of gel-free, label-free shotgun proteomics approaches to investigate microorganisms
-
Porteus, B., Kocharunchitt, C., Nilsson, R. E., Ross, T., Bowman, J. P., Utility of gel-free, label-free shotgun proteomics approaches to investigate microorganisms. Appl. Microbiol. Biotechnol. 2011, 90, 407-416.
-
(2011)
Appl. Microbiol. Biotechnol.
, vol.90
, pp. 407-416
-
-
Porteus, B.1
Kocharunchitt, C.2
Nilsson, R.E.3
Ross, T.4
Bowman, J.P.5
-
137
-
-
77349126360
-
Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities
-
Denef, V. J., Kalnejais, L. H., Mueller, R. S., Wilmes, P. et al., Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities. Proc. Natl. Acad. Sci. USA 2010, 107, 2383-2390.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 2383-2390
-
-
Denef, V.J.1
Kalnejais, L.H.2
Mueller, R.S.3
Wilmes, P.4
-
138
-
-
84877338299
-
Metaproteomics: harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communities
-
Hettich, R. L., Pan, C., Chourey, K., Giannone, R. J., Metaproteomics: harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communities. Anal. Chem. 2013, 85, 4203-4214.
-
(2013)
Anal. Chem.
, vol.85
, pp. 4203-4214
-
-
Hettich, R.L.1
Pan, C.2
Chourey, K.3
Giannone, R.J.4
-
139
-
-
84869476850
-
Effects of stoichiometry and temperature perturbations on beech leaf litter decomposition, enzyme activities and protein expression
-
Keiblinger, K. M., Schneider, T., Roschitzki, B., Schmid, E. et al., Effects of stoichiometry and temperature perturbations on beech leaf litter decomposition, enzyme activities and protein expression. Biogeosciences 2012, 9, 4537-4551.
-
(2012)
Biogeosciences
, vol.9
, pp. 4537-4551
-
-
Keiblinger, K.M.1
Schneider, T.2
Roschitzki, B.3
Schmid, E.4
-
140
-
-
84865341467
-
Who is who in litter decomposition? Metaproteomics reveals major microbial players and their biogeochemical functions
-
Schneider, T., Keiblinger, K. M., Schmid, E., Sterflinger-Gleixner, K. et al., Who is who in litter decomposition? Metaproteomics reveals major microbial players and their biogeochemical functions. ISME J. 2012, 6, 1749-1762.
-
(2012)
ISME J.
, vol.6
, pp. 1749-1762
-
-
Schneider, T.1
Keiblinger, K.M.2
Schmid, E.3
Sterflinger-Gleixner, K.4
-
141
-
-
84860488672
-
Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom
-
Teeling, H., Fuchs, B. M., Becher, D., Klockow, C. et al., Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom. Science 2012, 336, 608-611.
-
(2012)
Science
, vol.336
, pp. 608-611
-
-
Teeling, H.1
Fuchs, B.M.2
Becher, D.3
Klockow, C.4
-
143
-
-
79961096901
-
Proteomic characterization of cellular and molecular processes that enable the Nanoarchaeum equitans-Ignicoccus hospitalis relationship
-
Giannone, R. J., Huber, H., Karpinets, T., Heimerl, T. et al., Proteomic characterization of cellular and molecular processes that enable the Nanoarchaeum equitans-Ignicoccus hospitalis relationship. PLoS One 2011, 6, e22942.
-
(2011)
PLoS One
, vol.6
-
-
Giannone, R.J.1
Huber, H.2
Karpinets, T.3
Heimerl, T.4
-
144
-
-
84883295723
-
Comparison of detergent-based sample preparation workflows for LTQ-Orbitrap analysis of the Escherichia coli proteome
-
Tanca, A., Biosa, G., Pagnozzi, D., Addis, M. F., Uzzau, S., Comparison of detergent-based sample preparation workflows for LTQ-Orbitrap analysis of the Escherichia coli proteome. Proteomics 2013, 17, 2597-2607.
-
(2013)
Proteomics
, vol.17
, pp. 2597-2607
-
-
Tanca, A.1
Biosa, G.2
Pagnozzi, D.3
Addis, M.F.4
Uzzau, S.5
-
145
-
-
79959701373
-
Surface shaving as a versatile tool to profile global interactions between human serum proteins and the Staphylococcus aureus cell surface
-
Dreisbach, A., van der Kooi-Pol, M. M., Otto, A., Gronau, K. et al., Surface shaving as a versatile tool to profile global interactions between human serum proteins and the Staphylococcus aureus cell surface. Proteomics 2011, 11, 2921-2930.
-
(2011)
Proteomics
, vol.11
, pp. 2921-2930
-
-
Dreisbach, A.1
van der Kooi-Pol, M.M.2
Otto, A.3
Gronau, K.4
-
146
-
-
84863230118
-
Systematic comparison of label-free, metabolic labeling, and isobaric chemical labeling for quantitative proteomics on LTQ Orbitrap Velos
-
Li, Z., Adams, R. M., Chourey, K., Hurst, G. B. et al., Systematic comparison of label-free, metabolic labeling, and isobaric chemical labeling for quantitative proteomics on LTQ Orbitrap Velos. J. Proteome Res. 2012, 11, 1582-1590.
-
(2012)
J. Proteome Res.
, vol.11
, pp. 1582-1590
-
-
Li, Z.1
Adams, R.M.2
Chourey, K.3
Hurst, G.B.4
-
147
-
-
74049132731
-
Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis
-
Griffin, N. M., Yu, J., Long, F., Oh, P. et al., Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis. Nat. Biotechnol. 2010, 28, 83-89.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 83-89
-
-
Griffin, N.M.1
Yu, J.2
Long, F.3
Oh, P.4
-
148
-
-
79551500036
-
Less label, more free: approaches in label-free quantitative mass spectrometry
-
Neilson, K. A., Ali, N. A., Muralidharan, S., Mirzaei, M. et al., Less label, more free: approaches in label-free quantitative mass spectrometry. Proteomics 2011, 11, 535-553.
-
(2011)
Proteomics
, vol.11
, pp. 535-553
-
-
Neilson, K.A.1
Ali, N.A.2
Muralidharan, S.3
Mirzaei, M.4
-
149
-
-
84867045160
-
Current challenges in software solutions for mass spectrometry-based quantitative proteomics
-
Cappadona, S., Baker, P. R., Cutillas, P. R., Heck, A. J., van Breukelen, B., Current challenges in software solutions for mass spectrometry-based quantitative proteomics. Amino Acids 2012, 43, 1087-1108.
-
(2012)
Amino Acids
, vol.43
, pp. 1087-1108
-
-
Cappadona, S.1
Baker, P.R.2
Cutillas, P.R.3
Heck, A.J.4
van Breukelen, B.5
-
150
-
-
38649095599
-
An assessment of software solutions for the analysis of mass spectrometry based quantitative proteomics data
-
Mueller, L. N., Brusniak, M. Y., Mani, D. R., Aebersold, R., An assessment of software solutions for the analysis of mass spectrometry based quantitative proteomics data. J. Proteome Res. 2008, 7, 51-61.
-
(2008)
J. Proteome Res.
, vol.7
, pp. 51-61
-
-
Mueller, L.N.1
Brusniak, M.Y.2
Mani, D.R.3
Aebersold, R.4
-
151
-
-
67650351489
-
A comparison of labeling and label-free mass spectrometry-based proteomics approaches
-
Patel, V. J., Thalassinos, K., Slade, S. E., Connolly, J. B. et al., A comparison of labeling and label-free mass spectrometry-based proteomics approaches. J. Proteome Res. 2009, 8, 3752-3759.
-
(2009)
J. Proteome Res.
, vol.8
, pp. 3752-3759
-
-
Patel, V.J.1
Thalassinos, K.2
Slade, S.E.3
Connolly, J.B.4
-
152
-
-
84875928072
-
An automated pipeline for high-throughput label-free quantitative proteomics
-
Weisser, H., Nahnsen, S., Grossmann, J., Nilse, L. et al., An automated pipeline for high-throughput label-free quantitative proteomics. J. Proteome Res. 2013, 12, 1628-1644.
-
(2013)
J. Proteome Res.
, vol.12
, pp. 1628-1644
-
-
Weisser, H.1
Nahnsen, S.2
Grossmann, J.3
Nilse, L.4
-
153
-
-
84861860481
-
Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis
-
Gillet, L. C., Navarro, P., Tate, S., Rost, H. et al., Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis. Mol. Cell. Proteomics 2012, 11, O111 016717.
-
(2012)
Mol. Cell. Proteomics
, vol.11
-
-
Gillet, L.C.1
Navarro, P.2
Tate, S.3
Rost, H.4
-
154
-
-
79960578471
-
Quantification of mRNA and protein and integration with protein turnover in a bacterium
-
Maier, T., Schmidt, A., Guell, M., Kuhner, S. et al., Quantification of mRNA and protein and integration with protein turnover in a bacterium. Mol. Syst. Biol. 2011, 7, 511.
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 511
-
-
Maier, T.1
Schmidt, A.2
Guell, M.3
Kuhner, S.4
-
155
-
-
84873338251
-
Label-free quantitative proteomics reveals differentially regulated proteins in experimental gingivitis
-
Bostanci, N., Ramberg, P., Wahlander, A., Grossman, J. et al., Label-free quantitative proteomics reveals differentially regulated proteins in experimental gingivitis. J. Proteome Res. 2013, 12, 657-678.
-
(2013)
J. Proteome Res.
, vol.12
, pp. 657-678
-
-
Bostanci, N.1
Ramberg, P.2
Wahlander, A.3
Grossman, J.4
-
156
-
-
84878619680
-
Photobacterium profundum under pressure: a MS-based label-free quantitative proteomics study
-
Le Bihan, T., Rayner, J., Roy, M. M., Spagnolo, L., Photobacterium profundum under pressure: a MS-based label-free quantitative proteomics study. PLoS One 2013, 8, e60897.
-
(2013)
PLoS One
, vol.8
-
-
Le Bihan, T.1
Rayner, J.2
Roy, M.M.3
Spagnolo, L.4
-
157
-
-
82155175628
-
Quantitative proteomics reveals metabolic and pathogenic properties of Chlamydia trachomatis developmental forms
-
Saka, H. A., Thompson, J. W., Chen, Y. S., Kumar, Y. et al., Quantitative proteomics reveals metabolic and pathogenic properties of Chlamydia trachomatis developmental forms. Mol. Microbiol. 2011, 82, 1185-1203.
-
(2011)
Mol. Microbiol.
, vol.82
, pp. 1185-1203
-
-
Saka, H.A.1
Thompson, J.W.2
Chen, Y.S.3
Kumar, Y.4
-
158
-
-
77957730037
-
Survival defects of Cryptococcus neoformans mutants exposed to human cerebrospinal fluid result in attenuated virulence in an experimental model of meningitis
-
Lee, A., Toffaletti, D. L., Tenor, J., Soderblom, E. J. et al., Survival defects of Cryptococcus neoformans mutants exposed to human cerebrospinal fluid result in attenuated virulence in an experimental model of meningitis. Infect. Immun. 2010, 78, 4213-4225.
-
(2010)
Infect. Immun.
, vol.78
, pp. 4213-4225
-
-
Lee, A.1
Toffaletti, D.L.2
Tenor, J.3
Soderblom, E.J.4
-
159
-
-
79953314476
-
Functional genomics of the initial phase of cold adaptation of Pseudomonas putida KT2440
-
Frank, S., Schmidt, F., Klockgether, J., Davenport, C. F. et al., Functional genomics of the initial phase of cold adaptation of Pseudomonas putida KT2440. FEMS Microbiol. Lett. 2011, 318, 47-54.
-
(2011)
FEMS Microbiol. Lett.
, vol.318
, pp. 47-54
-
-
Frank, S.1
Schmidt, F.2
Klockgether, J.3
Davenport, C.F.4
-
160
-
-
84857088697
-
An exclusion list based label-free proteome quantification approach using an LTQ Orbitrap
-
Muntel, J., Hecker, M., Becher, D., An exclusion list based label-free proteome quantification approach using an LTQ Orbitrap. Rapid Commun. Mass Spectrom. 2012, 26, 701-709.
-
(2012)
Rapid Commun. Mass Spectrom.
, vol.26
, pp. 701-709
-
-
Muntel, J.1
Hecker, M.2
Becher, D.3
-
161
-
-
76949097340
-
Quantitative proteomics reveals subset-specific viral recognition in dendritic cells
-
Luber, C. A., Cox, J., Lauterbach, H., Fancke, B. et al., Quantitative proteomics reveals subset-specific viral recognition in dendritic cells. Immunity 2010, 32, 279-289.
-
(2010)
Immunity
, vol.32
, pp. 279-289
-
-
Luber, C.A.1
Cox, J.2
Lauterbach, H.3
Fancke, B.4
-
162
-
-
78751645686
-
Comparison of membrane proteins of Mycobacterium tuberculosis H37Rv and H37Ra strains
-
Målen, H., De Souza, G. A., Pathak, S., Søfteland, T., Wiker, H. G., Comparison of membrane proteins of Mycobacterium tuberculosis H37Rv and H37Ra strains. BMC Microbiol. 2011, 11, 18.
-
(2011)
BMC Microbiol.
, vol.11
, pp. 18
-
-
Målen, H.1
De Souza, G.A.2
Pathak, S.3
Søfteland, T.4
Wiker, H.G.5
-
163
-
-
84883619568
-
Proteomic identification of novel secreted anti-bacterial toxins of the Serratia marcescens type VI secretion system
-
Fritsch, M. J., Trunk, K., Alcoforado Diniz, J., Guo, M. et al., Proteomic identification of novel secreted anti-bacterial toxins of the Serratia marcescens type VI secretion system. Mol. Cell. Proteomics 2013, 10, 2735-2749.
-
(2013)
Mol. Cell. Proteomics
, vol.10
, pp. 2735-2749
-
-
Fritsch, M.J.1
Trunk, K.2
Alcoforado Diniz, J.3
Guo, M.4
-
164
-
-
20144388265
-
Quantitative proteomic analysis by accurate mass retention time pairs
-
Silva, J. C., Denny, R., Dorschel, C. A., Gorenstein, M. et al., Quantitative proteomic analysis by accurate mass retention time pairs. Anal. Chem. 2005, 77, 2187-2200.
-
(2005)
Anal. Chem.
, vol.77
, pp. 2187-2200
-
-
Silva, J.C.1
Denny, R.2
Dorschel, C.A.3
Gorenstein, M.4
-
166
-
-
33645725976
-
Simultaneous qualitative and quantitative analysis of the Escherichia coli proteome: a sweet tale
-
Silva, J. C., Denny, R., Dorschel, C., Gorenstein, M. V. et al., Simultaneous qualitative and quantitative analysis of the Escherichia coli proteome: a sweet tale. Mol. Cell. Proteomics 2006, 5, 589-607.
-
(2006)
Mol. Cell. Proteomics
, vol.5
, pp. 589-607
-
-
Silva, J.C.1
Denny, R.2
Dorschel, C.3
Gorenstein, M.V.4
-
167
-
-
84892843325
-
Proteomic analysis of mycelium and secretome of different Botrytis cinerea wild-type strains
-
doi:10.1016/j.jprot.2013.06.022.
-
Gonzalez-Fernandez, R., Aloria, K., Valero-Galvan, J., Redondo, I. et al., Proteomic analysis of mycelium and secretome of different Botrytis cinerea wild-type strains. J. Proteomics 2013, doi:10.1016/j.jprot.2013.06.022.
-
(2013)
J. Proteomics
-
-
Gonzalez-Fernandez, R.1
Aloria, K.2
Valero-Galvan, J.3
Redondo, I.4
-
168
-
-
78651404635
-
A combined approach for comparative exoproteome analysis of Corynebacterium pseudotuberculosis
-
Pacheco, L. G., Slade, S. E., Seyffert, N., Santos, A. R. et al., A combined approach for comparative exoproteome analysis of Corynebacterium pseudotuberculosis. BMC Microbiol. 2011, 11, 12.
-
(2011)
BMC Microbiol.
, vol.11
, pp. 12
-
-
Pacheco, L.G.1
Slade, S.E.2
Seyffert, N.3
Santos, A.R.4
-
170
-
-
84873334559
-
Proteomic analysis of an unculturable bacterial endosymbiont (Blochmannia) reveals high abundance of chaperonins and biosynthetic enzymes
-
Fan, Y., Thompson, J. W., Dubois, L. G., Moseley, M. A., Wernegreen, J. J., Proteomic analysis of an unculturable bacterial endosymbiont (Blochmannia) reveals high abundance of chaperonins and biosynthetic enzymes. J. Proteome Res. 2013, 12, 704-718.
-
(2013)
J. Proteome Res.
, vol.12
, pp. 704-718
-
-
Fan, Y.1
Thompson, J.W.2
Dubois, L.G.3
Moseley, M.A.4
Wernegreen, J.J.5
-
171
-
-
84887864604
-
Label-free quantitation and mapping of the ErbB2 tumor receptor by multiple protease digestion with data-dependent (MS1) and data-independent (MS2) acquisitions
-
Held, J. M., Schilling, B., D'Souza, A. K., Srinivasan, T. et al., Label-free quantitation and mapping of the ErbB2 tumor receptor by multiple protease digestion with data-dependent (MS1) and data-independent (MS2) acquisitions. Int. J. Proteomics 2013, 2013, 791985.
-
(2013)
Int. J. Proteomics
, vol.2013
, pp. 791985
-
-
Held, J.M.1
Schilling, B.2
D'Souza, A.K.3
Srinivasan, T.4
-
172
-
-
68049114653
-
Precursor acquisition independent from ion count: how to dive deeper into the proteomics ocean
-
Panchaud, A., Scherl, A., Shaffer, S. A., von Haller, P. D. et al., Precursor acquisition independent from ion count: how to dive deeper into the proteomics ocean. Anal. Chem. 2009, 81, 6481-6488.
-
(2009)
Anal. Chem.
, vol.81
, pp. 6481-6488
-
-
Panchaud, A.1
Scherl, A.2
Shaffer, S.A.3
von Haller, P.D.4
-
173
-
-
77957220208
-
Proteomics data repositories: providing a safe haven for your data and acting as a springboard for further research
-
Vizcaino, J. A., Foster, J. M., Martens, L., Proteomics data repositories: providing a safe haven for your data and acting as a springboard for further research. J. Proteomics 2010, 73, 2136-2146.
-
(2010)
J. Proteomics
, vol.73
, pp. 2136-2146
-
-
Vizcaino, J.A.1
Foster, J.M.2
Martens, L.3
-
174
-
-
84883169428
-
Proteomics data exchange and storage: the need for common standards and public repositories
-
Jimenez, R. C., Vizcaino, J. A., Proteomics data exchange and storage: the need for common standards and public repositories. Methods Mol. Biol. 2013, 1007, 317-333.
-
(2013)
Methods Mol. Biol.
, vol.1007
, pp. 317-333
-
-
Jimenez, R.C.1
Vizcaino, J.A.2
-
175
-
-
0142184341
-
Global analysis of protein localization in budding yeast
-
Huh, W. K., Falvo, J. V., Gerke, L. C., Carroll, A. S. et al., Global analysis of protein localization in budding yeast. Nature 2003, 425, 686-691.
-
(2003)
Nature
, vol.425
, pp. 686-691
-
-
Huh, W.K.1
Falvo, J.V.2
Gerke, L.C.3
Carroll, A.S.4
-
176
-
-
38349037650
-
Isotope-labeled protein standards: toward absolute quantitative proteomics
-
Brun, V., Dupuis, A., Adrait, A., Marcellin, M. et al., Isotope-labeled protein standards: toward absolute quantitative proteomics. Mol. Cell. Proteomics 2007, 6, 2139-2149.
-
(2007)
Mol. Cell. Proteomics
, vol.6
, pp. 2139-2149
-
-
Brun, V.1
Dupuis, A.2
Adrait, A.3
Marcellin, M.4
-
177
-
-
0037795741
-
Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS
-
Gerber, S. A., Rush, J., Stemman, O., Kirschner, M. W., Gygi, S. P., Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS. Proc. Natl. Acad. Sci. USA 2003, 100, 6940-6945.
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 6940-6945
-
-
Gerber, S.A.1
Rush, J.2
Stemman, O.3
Kirschner, M.W.4
Gygi, S.P.5
-
178
-
-
16344389629
-
Metabolic labeling of proteins for proteomics
-
Beynon, R. J., Pratt, J. M., Metabolic labeling of proteins for proteomics. Mol. Cell. Proteomics 2005, 4, 857-872.
-
(2005)
Mol. Cell. Proteomics
, vol.4
, pp. 857-872
-
-
Beynon, R.J.1
Pratt, J.M.2
-
179
-
-
33847179916
-
Multiplexed absolute quantification for proteomics using concatenated signature peptides encoded by QconCAT genes
-
Pratt, J. M., Simpson, D. M., Doherty, M. K., Rivers, J. et al., Multiplexed absolute quantification for proteomics using concatenated signature peptides encoded by QconCAT genes. Nat. Protoc. 2006, 1, 1029-1043.
-
(2006)
Nat. Protoc.
, vol.1
, pp. 1029-1043
-
-
Pratt, J.M.1
Simpson, D.M.2
Doherty, M.K.3
Rivers, J.4
-
180
-
-
84883275474
-
Critical assessment of proteome-wide label-free absolute abundance estimation strategies
-
Ahrné, E., Molzahn, L., Glatter, T., Schmidt, A., Critical assessment of proteome-wide label-free absolute abundance estimation strategies. Proteomics 2013, 17, 2567-2578.
-
(2013)
Proteomics
, vol.17
, pp. 2567-2578
-
-
Ahrné, E.1
Molzahn, L.2
Glatter, T.3
Schmidt, A.4
-
181
-
-
79953271667
-
Efficient, global-scale quantification of absolute protein amounts by integration of targeted mass spectrometry and two-dimensional gel-based proteomics
-
Maass, S., Sievers, S., Zühlke, D., Kuzinski, J. et al., Efficient, global-scale quantification of absolute protein amounts by integration of targeted mass spectrometry and two-dimensional gel-based proteomics. Anal. Chem. 2011, 83, 2677-2684.
-
(2011)
Anal. Chem.
, vol.83
, pp. 2677-2684
-
-
Maass, S.1
Sievers, S.2
Zühlke, D.3
Kuzinski, J.4
-
182
-
-
79956322553
-
Global quantification of mammalian gene expression control
-
Schwanhausser, B., Busse, D., Li, N., Dittmar, G. et al., Global quantification of mammalian gene expression control. Nature 2011, 473, 337-342.
-
(2011)
Nature
, vol.473
, pp. 337-342
-
-
Schwanhausser, B.1
Busse, D.2
Li, N.3
Dittmar, G.4
-
183
-
-
77954660028
-
Implementation and evaluation of relative and absolute quantification in shotgun proteomics with label-free methods
-
Grossmann, J., Roschitzki, B., Panse, C., Fortes, C. et al., Implementation and evaluation of relative and absolute quantification in shotgun proteomics with label-free methods. J. Proteomics 2010, 73, 1740-1746.
-
(2010)
J. Proteomics
, vol.73
, pp. 1740-1746
-
-
Grossmann, J.1
Roschitzki, B.2
Panse, C.3
Fortes, C.4
-
184
-
-
84866270468
-
A software toolkit and interface for performing stable isotope labeling and Top3 quantification using progenesis LC-MS
-
Qi, D., Brownridge, P., Xia, D., Mackay, K. et al., A software toolkit and interface for performing stable isotope labeling and Top3 quantification using progenesis LC-MS. OMICS 2012, 16, 489-495.
-
(2012)
OMICS
, vol.16
, pp. 489-495
-
-
Qi, D.1
Brownridge, P.2
Xia, D.3
Mackay, K.4
-
185
-
-
84866296979
-
A critical appraisal of techniques, software packages, and standards for quantitative proteomic analysis
-
Gonzalez-Galarza, F. F., Lawless, C., Hubbard, S. J., Fan, J. et al., A critical appraisal of techniques, software packages, and standards for quantitative proteomic analysis. OMICS 2012, 16, 431-442.
-
(2012)
OMICS
, vol.16
, pp. 431-442
-
-
Gonzalez-Galarza, F.F.1
Lawless, C.2
Hubbard, S.J.3
Fan, J.4
-
186
-
-
77957990113
-
Proteomics on an Orbitrap benchtop mass spectrometer using all-ion fragmentation
-
Geiger, T., Cox, J., Mann, M., Proteomics on an Orbitrap benchtop mass spectrometer using all-ion fragmentation. Mol. Cell. Proteomics 2010, 9, 2252-2261.
-
(2010)
Mol. Cell. Proteomics
, vol.9
, pp. 2252-2261
-
-
Geiger, T.1
Cox, J.2
Mann, M.3
-
187
-
-
77954464041
-
Proteomics: a pragmatic perspective
-
Mallick, P., Küster, B., Proteomics: a pragmatic perspective. Nat. Biotechnol. 2010, 28, 695-709.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 695-709
-
-
Mallick, P.1
Küster, B.2
-
188
-
-
84869451616
-
-
Wipat, A., Harwood, C. (Eds.), Academic Press, London.
-
Otto, A., Bernhardt, J., Hecker, M., Völker, U., Becher, D., in: Wipat, A., Harwood, C. (Eds.), Systems Biology of Bacteria, Academic Press, London 2012, pp. 81-106.
-
(2012)
Systems Biology of Bacteria
, pp. 81-106
-
-
Otto, A.1
Bernhardt, J.2
Hecker, M.3
Völker, U.4
Becher, D.5
|