-
1
-
-
40549142070
-
Label-free LC-MS method for the identification of biomarkers
-
Higgs, R. E., Knierman, M. D., Gelfanova, V., Butler, J. P., and Hale, J. E. (2008) Label-free LC-MS method for the identification of biomarkers. Methods Mol. Biol. 428, 209-230
-
(2008)
Methods Mol. Biol.
, vol.428
, pp. 209-230
-
-
Higgs, R.E.1
Knierman, M.D.2
Gelfanova, V.3
Butler, J.P.4
Hale, J.E.5
-
2
-
-
34547746723
-
Reproducibility assessment of relative quantitation strategies for LC-MS based proteomics
-
Kim, Y. J., Zhan, P., Feild, B., Ruben, S. M., and He, T. (2007) Reproducibility assessment of relative quantitation strategies for LC-MS based proteomics. Anal. Chem. 79, 5651-5658
-
(2007)
Anal. Chem.
, vol.79
, pp. 5651-5658
-
-
Kim, Y.J.1
Zhan, P.2
Feild, B.3
Ruben, S.M.4
He, T.5
-
3
-
-
55049104915
-
Accurate inclusion mass screening: A bridge from unbiased discovery to targeted assay development for biomarker verification
-
Jaffe, J. D., Keshishian, H., Chang, B., Addona, T. A., Gillette, M. A., and Carr, S. A. (2008) Accurate inclusion mass screening: a bridge from unbiased discovery to targeted assay development for biomarker verification. Mol. Cell. Proteomics 7, 1952-1962
-
(2008)
Mol. Cell. Proteomics
, vol.7
, pp. 1952-1962
-
-
Jaffe, J.D.1
Keshishian, H.2
Chang, B.3
Addona, T.A.4
Gillette, M.A.5
Carr, S.A.6
-
4
-
-
57049106891
-
An integrated, directed mass spectrometric approach for in-depth characterization of complex peptide mixtures
-
Schmidt, A., Gehlenborg, N., Bodenmiller, B., Mueller, L. N., Campbell, D., Mueller, M., Aebersold, R., and Domon, B. (2008) An integrated, directed mass spectrometric approach for in-depth characterization of complex peptide mixtures. Mol. Cell. Proteomics 7, 2138-2150
-
(2008)
Mol. Cell. Proteomics
, vol.7
, pp. 2138-2150
-
-
Schmidt, A.1
Gehlenborg, N.2
Bodenmiller, B.3
Mueller, L.N.4
Campbell, D.5
Mueller, M.6
Aebersold, R.7
Domon, B.8
-
5
-
-
43049090085
-
Targeted quantitative analysis of Streptococcus pyogenes virulence factors by multiple reaction monitoring
-
Lange, V., Malmström, J. A., Didion, J., King, N. L., Johansson, B. P., Schäfer, J., Rameseder, J., Wong, C. H., Deutsch, E. W., Brusniak, M. Y., Bühlmann, P., Björck, L., Domon, B., and Aebersold, R. (2008) Targeted quantitative analysis of Streptococcus pyogenes virulence factors by multiple reaction monitoring. Mol. Cell. Proteomics 7, 1489-1500
-
(2008)
Mol. Cell. Proteomics
, vol.7
, pp. 1489-1500
-
-
Lange, V.1
Malmström, J.A.2
Didion, J.3
King, N.L.4
Johansson, B.P.5
Schäfer, J.6
Rameseder, J.7
Wong, C.H.8
Deutsch, E.W.9
Brusniak, M.Y.10
Bühlmann, P.11
Björck, L.12
Domon, B.13
Aebersold, R.14
-
6
-
-
35348863892
-
High sensitivity detection of plasma proteins by multiple reaction monitoring of N-glycosites
-
Stahl-Zeng, J., Lange, V., Ossola, R., Eckhardt, K., Krek, W., Aebersold, R., and Domon, B. (2007) High sensitivity detection of plasma proteins by multiple reaction monitoring of N-glycosites. Mol. Cell. Proteomics 6, 1809-1817
-
(2007)
Mol. Cell. Proteomics
, vol.6
, pp. 1809-1817
-
-
Stahl-Zeng, J.1
Lange, V.2
Ossola, R.3
Eckhardt, K.4
Krek, W.5
Aebersold, R.6
Domon, B.7
-
7
-
-
13444260275
-
The absolute quantification strategy: A general procedure for the quantification of proteins and post-translational modifications
-
Kirkpatrick, D. S., Gerber, S. A., and Gygi, S. P. (2005) The absolute quantification strategy: a general procedure for the quantification of proteins and post-translational modifications. Methods 35, 265-273
-
(2005)
Methods
, vol.35
, pp. 265-273
-
-
Kirkpatrick, D.S.1
Gerber, S.A.2
Gygi, S.P.3
-
8
-
-
23144442824
-
Multiplexed absolute quantification in proteomics using artificial QCAT proteins of concatenated signature peptides
-
Beynon, R. J., Doherty, M. K., Pratt, J. M., and Gaskell, S. J. (2005) Multiplexed absolute quantification in proteomics using artificial QCAT proteins of concatenated signature peptides. Nat. Methods 2, 587-589
-
(2005)
Nat. Methods
, vol.2
, pp. 587-589
-
-
Beynon, R.J.1
Doherty, M.K.2
Pratt, J.M.3
Gaskell, S.J.4
-
9
-
-
36448956829
-
Pseudo internal standard approach for label-free quantitative proteomics
-
Tabata, T., Sato, T., Kuromitsu, J., and Oda, Y. (2007) Pseudo internal standard approach for label-free quantitative proteomics. Anal. Chem. 79, 8440-8445
-
(2007)
Anal. Chem.
, vol.79
, pp. 8440-8445
-
-
Tabata, T.1
Sato, T.2
Kuromitsu, J.3
Oda, Y.4
-
10
-
-
18744384734
-
Feature extraction and quantification for mass spectrometry in biomedical applications using the mean spectrum
-
DOI 10.1093/bioinformatics/bti254
-
Morris, J. S., Coombes, K. R., Koomen, J., Baggerty, K. A., and Kobayashi, R. (2005) Feature extraction and quantification for mass spectrometry in biomedical applications using the mean spectrum. Bioinformatics 21, 1764-1775 (Pubitemid 40674202)
-
(2005)
Bioinformatics
, vol.21
, Issue.9
, pp. 1764-1775
-
-
Morris, J.S.1
Coombes, K.R.2
Koomen, J.3
Baggerly, K.A.4
Kobayashi, R.5
-
11
-
-
35348965139
-
SuperHirn - A novel tool for high resolution LC-MS-based peptide/protein profiling
-
DOI 10.1002/pmic.200700057
-
Mueller, L. N., Rinner, O., Schmidt, A., Letarte, S., Bodenmiller, B., Brusniak, M. Y., Vitek, O., Aebersold, R., and Müller, M. (2007) Super-Hirn - a novel tool for high resolution LC-MS-based peptide/protein profiling. Proteomics 7, 3470-3480 (Pubitemid 47597670)
-
(2007)
Proteomics
, vol.7
, Issue.19
, pp. 3470-3480
-
-
Mueller, L.N.1
Rinner, O.2
Schmidt, A.3
Letarte, S.4
Bodenmiller, B.5
Brusniak, M.-Y.6
Vitek, O.7
Aebersold, R.8
Muller, M.9
-
12
-
-
0032875697
-
Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
-
Gygi, S. P., Rist, B., Gerber, S. A., Turecek, F., Gelb, M. H., and Aebersold, R. (1999) Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat. Biotechnol. 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
Gelb, M.H.5
Aebersold, R.6
-
13
-
-
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., Steen, H., Pandey, A., and Mann, M. (2002) Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol. Cell. Proteomics 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
Steen, H.5
Pandey, A.6
Mann, M.7
-
14
-
-
34250657012
-
Quantitative proteome analysis using isotope-coded affinity tags and mass spectrometry
-
Shiio, Y., and Aebersold, R. (2006) Quantitative proteome analysis using isotope-coded affinity tags and mass spectrometry. Nat. Protoc. 1, 139-145
-
(2006)
Nat. Protoc.
, vol.1
, pp. 139-145
-
-
Shiio, Y.1
Aebersold, R.2
-
15
-
-
34547800600
-
Isolation of N-linked glycopeptides from plasma
-
Zhou, Y., Aebersold, R., and Zhang, H. (2007) Isolation of N-linked glycopeptides from plasma. Anal. Chem. 79, 5826-5837
-
(2007)
Anal. Chem.
, vol.79
, pp. 5826-5837
-
-
Zhou, Y.1
Aebersold, R.2
Zhang, H.3
-
16
-
-
8344284323
-
A common open representation of mass spectrometry data and its application to proteomics research
-
Pedrioli, P. G., Eng, J. K., Hubley, R., Vogelzang, M., Deutsch, E. W., Raught, B., Pratt, B., Nilsson, E., Angeletti, R. H., Apweiler, R., Cheung, K., Costello, C. E., Hermjakob, H., Huang, S., Julian, R. K., Kapp, E., McComb, M. E., Oliver, S. G., Omenn, G., Paton, N. W., Simpson, R., Smith, R., Taylor, C. F., Zhu, W., and Aebersold, R. (2004) A common open representation of mass spectrometry data and its application to proteomics research. Nat. Biotechol. 22, 1459-1466
-
(2004)
Nat. Biotechol.
, vol.22
, pp. 1459-1466
-
-
Pedrioli, P.G.1
Eng, J.K.2
Hubley, R.3
Vogelzang, M.4
Deutsch, E.W.5
Raught, B.6
Pratt, B.7
Nilsson, E.8
Angeletti, R.H.9
Apweiler, R.10
Cheung, K.11
Costello, C.E.12
Hermjakob, H.13
Huang, S.14
Julian, R.K.15
Kapp, E.16
McComb, M.E.17
Oliver, S.G.18
Omenn, G.19
Paton, N.W.20
Simpson, R.21
Smith, R.22
Taylor, C.F.23
Zhu, W.24
Aebersold, R.25
more..
-
17
-
-
0037108887
-
Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search
-
Keller, A., Nesvizhskii, A. I., Kolker, E., and Aebersold, R. (2002) Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search. Anal. Chem. 74, 5383-5392
-
(2002)
Anal. Chem.
, vol.74
, pp. 5383-5392
-
-
Keller, A.1
Nesvizhskii, A.I.2
Kolker, E.3
Aebersold, R.4
-
18
-
-
33947366516
-
Development and validation of a spectral library searching method for peptide identification from MS/MS
-
DOI 10.1002/pmic.200600625
-
Lam, H., Deutsch, E. W., Eddes, J. S., Eng, J. K., King, N., Stein, S. E., and Aebersold, R. (2007) Development and validation of a spectral library searching method for peptide identification from MS/MS. Proteomics 7, 655-667 (Pubitemid 46453760)
-
(2007)
Proteomics
, vol.7
, Issue.5
, pp. 655-667
-
-
Lam, H.1
Deutsch, E.W.2
Eddes, J.S.3
Eng, J.K.4
King, N.5
Stein, S.E.6
Aebersold, R.7
-
19
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
Eng, J., McCormack, A., and Yates, J. (1994) An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J. Am. Soc. Mass Spectrom. 5, 976-989
-
(1994)
J. Am. Soc. Mass Spectrom.
, vol.5
, pp. 976-989
-
-
Eng, J.1
McCormack, A.2
Yates, J.3
-
20
-
-
62149110095
-
Computational framework and tools for LC-MS discovery and targeted mass spectrometry-based proteomics
-
Brusniak, M. Y., Bodenmiller, B., Campbell, D., Cooke, K., Eddes, J., Garbutt, A., Lau, H., Letarte, S., Mueller, L. N., Sharma, V., Vitek, O., Zhang, N., Aebersold, R., and Watts, J. D. (2008) Computational framework and tools for LC-MS discovery and targeted mass spectrometry-based proteomics. BMC Bioinformatics 9, 542-564
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 542-564
-
-
Brusniak, M.Y.1
Bodenmiller, B.2
Campbell, D.3
Cooke, K.4
Eddes, J.5
Garbutt, A.6
Lau, H.7
Letarte, S.8
Mueller, L.N.9
Sharma, V.10
Vitek, O.11
Zhang, N.12
Aebersold, R.13
Watts, J.D.14
-
21
-
-
71049159361
-
-
Deleted in proof
-
Deleted in proof
-
-
-
-
22
-
-
0019631920
-
The behaviour of peptides on reverse-phase supports during high-pressure liquid chromatography
-
Wilson, K. J., Honegger, A., Stötzel, R. P., and Hughes, G. J. (1981) The behaviour of peptides on reverse-phase supports during high-pressure liquid chromatography. Biochem. J. 199, 31-41
-
(1981)
Biochem. J.
, vol.199
, pp. 31-41
-
-
Wilson, K.J.1
Honegger, A.2
Stötzel, R.P.3
Hughes, G.J.4
-
23
-
-
46849091191
-
Mass defect profiles of biological matrices and the general applicability of mass defect filtering for metabolite detection
-
Zhang, H., Zhu, M., Ray, K. L., Ma, L., and Zhang, D. (2008) Mass defect profiles of biological matrices and the general applicability of mass defect filtering for metabolite detection. Rapid Commun. Mass Spectrom. 22, 2082-2088
-
(2008)
Rapid Commun. Mass Spectrom.
, vol.22
, pp. 2082-2088
-
-
Zhang, H.1
Zhu, M.2
Ray, K.L.3
Ma, L.4
Zhang, D.5
-
24
-
-
33745268913
-
Enhancing electrospray ionization efficiency of peptides by derivatization
-
Mirzaei, H., and Regnier, F. (2006) Enhancing electrospray ionization efficiency of peptides by derivatization. Anal. Chem. 78, 4175-4183
-
(2006)
Anal. Chem.
, vol.78
, pp. 4175-4183
-
-
Mirzaei, H.1
Regnier, F.2
-
25
-
-
71049122094
-
Pharmaceutical composition comprising a retroiverso isomer peptide
-
January 1, U. S. Patent 7314867
-
Mok, K. (January 1, 2008) Pharmaceutical composition comprising a retroiverso isomer peptide. U. S. Patent 7314867
-
(2008)
-
-
Mok, K.1
-
26
-
-
33746542437
-
Isolation of glycoproteins and identification of their N-linked glycosylation sites
-
Zhang, H., and Aebersold, R. (2006) Isolation of glycoproteins and identification of their N-linked glycosylation sites. Methods Mol. Biol. 328, 177-185
-
(2006)
Methods Mol. Biol.
, vol.328
, pp. 177-185
-
-
Zhang, H.1
Aebersold, R.2
-
27
-
-
67650967620
-
Statistical methods for biomarker discovery using mass spectrometry
-
Biswas, A., Datta, S., Fine, J. P., and Segal, M. R., eds Wiley-Interscience, New York
-
Broom, B. M., and Do, K. A. (2008) Statistical methods for biomarker discovery using mass spectrometry, in Statistical Advances in the Biomedical Sciences (Biswas, A., Datta, S., Fine, J. P., and Segal, M. R., eds) pp. 465-486, Wiley-Interscience, New York
-
(2008)
Statistical Advances in the Biomedical Sciences
, pp. 465-486
-
-
Broom, B.M.1
Do, K.A.2
-
28
-
-
27644543078
-
Comparison of label-free methods for quantifying human proteins by shotgun proteomics
-
Old, W. M., Meyer-Arendt, K., Aveline-Wolf, L., Pierce, K. G., Mendoza, A., Sevinsky, J. R., Resing, K. A., and Ahn, N. G. (2005) Comparison of label-free methods for quantifying human proteins by shotgun proteomics. Mol. Cell. Proteomics 4, 1487-1502
-
(2005)
Mol. Cell. Proteomics
, vol.4
, pp. 1487-1502
-
-
Old, W.M.1
Meyer-Arendt, K.2
Aveline-Wolf, L.3
Pierce, K.G.4
Mendoza, A.5
Sevinsky, J.R.6
Resing, K.A.7
Ahn, N.G.8
-
29
-
-
71049157310
-
-
Deleted in proof
-
Deleted in proof
-
-
-
-
30
-
-
44849103670
-
Interpretation of large-scale quantitative shotgun proteomic profiles for biomarker discovery
-
Isserlin, R., and Emili, A. (2008) Interpretation of large-scale quantitative shotgun proteomic profiles for biomarker discovery. Curr. Opin. Mol. Ther. 10, 231-242
-
(2008)
Curr. Opin. Mol. Ther.
, vol.10
, pp. 231-242
-
-
Isserlin, R.1
Emili, A.2
|