-
1
-
-
0023655503
-
Peptide sequencing by magnetic deflection tandem mass spectrometry
-
Scoble, H. A.; Martin, S. A.; Biemann, K. Peptide sequencing by magnetic deflection tandem mass spectrometry Biochem. J. 1987, 245, 621-622
-
(1987)
Biochem. J.
, vol.245
, pp. 621-622
-
-
Scoble, H.A.1
Martin, S.A.2
Biemann, K.3
-
2
-
-
0002794845
-
Collision induced fragmentation of (M+H)+ ions of peptides. Side chain specific sequence
-
Johnson, R. S; Martin, S. A.; Biemann, K. Collision induced fragmentation of (M+H)+ ions of peptides. Side chain specific sequence Int. J. Mass Spectrom. Ion Processes 1998, 86, 137-154
-
(1998)
Int. J. Mass Spectrom. Ion Processes
, vol.86
, pp. 137-154
-
-
Johnson, R.S.1
Martin, S.A.2
Biemann, K.3
-
3
-
-
0000312004
-
Protein sequencing by tandem mass spectrometry
-
DOI 10.1073/pnas.83.17.6233
-
Hunt, D. F.; Yates, J. R., III; Shabanowitz, J.; Winston, S.; Hauer, C. R. Protein sequencing by tandem mass spectrometry Proc. Natl. Acad. Sci. U.S.A. 1986, 83, 6233-6237 (Pubitemid 17174712)
-
(1986)
Proceedings of the National Academy of Sciences of the United States of America
, vol.83
, Issue.17
, pp. 6233-6237
-
-
Hunt, D.F.1
Yates III, J.R.2
Shabanowitz, J.3
-
4
-
-
0035582244
-
An automated multidimensional protein identification technology for shotgun proteomics
-
DOI 10.1021/ac010617e
-
Wolters, D. A.; Washburn, M. P.; Yates, J. R. An Automated Multidimensional Protein Identification Technology for Shotgun Proteomics Anal. Chem. 2001, 73, 5683-5690 (Pubitemid 33126725)
-
(2001)
Analytical Chemistry
, vol.73
, Issue.23
, pp. 5683-5690
-
-
Wolters, D.A.1
Washburn, M.P.2
Yates III, J.R.3
-
5
-
-
0035106351
-
Large-scale analysis of the yeast proteome by multidimensional protein identification technology
-
DOI 10.1038/85686
-
Washburn, M. P.; Wolters, D.; Yates, J. R. Large-Scale Analysis of the Yeast Proteome by Multidimensional Protein Identification Technology Nat. Biotechnol. 2001, 19, 242-247 (Pubitemid 32220565)
-
(2001)
Nature Biotechnology
, vol.19
, Issue.3
, pp. 242-247
-
-
Washburn, M.P.1
Wolters, D.2
Yates, J.R.3
-
6
-
-
0037277179
-
Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large-scale protein analysis: The yeast proteome
-
DOI 10.1021/pr025556v
-
Peng, J.; Elias, J. E.; Thoreen, C. C.; Licklider, L. J.; Gygi, S. P. Evaluation of Multidimensional Chromatography Coupled with Tandem Mass Spectrometry (LC/LC-MS/MS) for Large-Scale Protein Analysis: The Yeast Proteome J. Proteome Res. 2003, 2, 43-50 (Pubitemid 36207189)
-
(2003)
Journal of Proteome Research
, vol.2
, Issue.1
, pp. 43-50
-
-
Peng, J.1
Elias, J.E.2
Thoreen, C.C.3
Licklider, L.J.4
Gygi, S.P.5
-
7
-
-
0003206867
-
Toward a Human Blood Serum Proteome: Analysis by Multidimensional Separation Coupled with Mass Spectrometry
-
Adkins, J. N.; Varnum, S. M.; Auberry, K. J.; Moore, R. J.; Angell, N. H.; Smith, R. D.; Springer, D. L.; Pounds, J. G. Toward a Human Blood Serum Proteome: Analysis by Multidimensional Separation Coupled with Mass Spectrometry Mol. Cell. Proteomics 2002, 1, 947-955
-
(2002)
Mol. Cell. Proteomics
, vol.1
, pp. 947-955
-
-
Adkins, J.N.1
Varnum, S.M.2
Auberry, K.J.3
Moore, R.J.4
Angell, N.H.5
Smith, R.D.6
Springer, D.L.7
Pounds, J.G.8
-
8
-
-
0041733300
-
Evaluation of shotgun sequencing for proteomic analysis of human plasma using HPLC coupled with either ion trap or Fourier transform mass spectrometry
-
DOI 10.1021/pr034015i
-
Wu, S. L.; Choudhary, G.; Ramstrom, M.; Bergquist, J.; Hancock, W. S. Evaluation of Shotgun Sequencing for Proteomic Analysis of Human Plasma Using HPLC Coupled with either Ion Trap or Fourier Transform Mass Spectrometry J. Proteome Res. 2003, 2, 383-393 (Pubitemid 36988417)
-
(2003)
Journal of Proteome Research
, vol.2
, Issue.4
, pp. 383-393
-
-
Wu, S.-L.1
Choudhary, G.2
Ramstrom, M.3
Bergquist, J.4
Hancock, W.S.5
-
9
-
-
3042526342
-
An Investigation into the Human Serum "interactome
-
Zhou, M.; Lucas, D. A.; Chan, K. C.; Issaq, H. J.; Petricoin, E. F.; Liotta, L. A.; Veenstra, T. D.; Conrads, T. R. An Investigation into the Human Serum "Interactome Electrophoresis 2004, 25, 1289-1298
-
(2004)
Electrophoresis
, vol.25
, pp. 1289-1298
-
-
Zhou, M.1
Lucas, D.A.2
Chan, K.C.3
Issaq, H.J.4
Petricoin, E.F.5
Liotta, L.A.6
Veenstra, T.D.7
Conrads, T.R.8
-
10
-
-
1242316198
-
Ultra-High-Efficiency Strong Cation Exchange LC/RPLC/MS/MS for High Dynamic Range Characterization of the Human Plasma Proteome
-
DOI 10.1021/ac034869m
-
Shen, Y.; Jacobs, J. M.; Camp, D. G., II; Fang, R.; Moore, R. J.; Smith, R. D.; Xiao, W.; Davis, R. W.; Tompkins, R. G. Ultra-High-Efficiency Strong Cation Exchange LC/RPLC/MS/MS for High Dynamic Range Characterization of the Human Plasma Proteome Anal. Chem. 2004, 76, 1134-1144 (Pubitemid 38235564)
-
(2004)
Analytical Chemistry
, vol.76
, Issue.4
, pp. 1134-1144
-
-
Shen, Y.1
Jacobs, J.M.2
Camp II, D.G.3
Fang, R.4
Moore, R.J.5
Smith, R.D.6
Xiao, W.7
Davis, R.W.8
Tompkins, R.G.9
-
11
-
-
3042731730
-
Industrial-scale proteomics: From liters of plasma to chemically synthesized proteins
-
DOI 10.1002/pmic.200300718
-
Rose, K.; Bougueleret, L.; Baussant, T.; Böhm, G.; Botti, P; Colinge, J.; Cusin, I.; Gaertner, H.; Gleizes, A.; Heller, M.; Jimenez, S.; Johnson, A.; Kussmann, M.; Menin, L.; Menzel, C.; Ranno, F.; Rodriguez-Tomé, P.; Rogers, J.; Saudrais, C.; Villain, M.; Wetmore, D.; Bairoch, A.; Hochstrasser, D. Industrial-Scale Proteomics: From Liters of Plasma to Chemically Synthesized Proteins Proteomics 2004, 4, 2125-2150 (Pubitemid 38880378)
-
(2004)
Proteomics
, vol.4
, Issue.7
, pp. 2125-2150
-
-
Rose, K.1
Bougueleret, L.2
Baussant, T.3
Bohm, G.4
Botti, P.5
Colinge, J.6
Cusin, I.7
Gaertner, H.8
Gleizes, A.9
Heller, M.10
Jimenez, S.11
Johnson, A.12
Kussmann, M.13
Menin, L.14
Menzel, C.15
Ranno, F.16
Rodriguez-Tome, P.17
Rogers, J.18
Saudrais, C.19
Villain, M.20
Wetmore, D.21
Bairoch, A.22
Hochstrasser, D.23
more..
-
12
-
-
23944492134
-
Overview of the HUPO Plasma Proteome Project: Results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database
-
DOI 10.1002/pmic.200500358
-
Omenn, G. S.; States, D. J.; Adamski, M.; Blackwell, T. W.; Menon, R.; Hermjakob, H.; Apweiler, R.; Haab, B. B.; Simpson, R. J.; Eddes, J. S.; Kapp, E. A.; Moritz, R. L.; Chan, D. W.; Rai, A. J.; Admon, A.; Aebersold, R.; Eng, J.; Hancock, W. S.; Hefta, S. A.; Meyer, H.; Paik, Y.; Yoo, J.; Ping, P.; Pounds, J.; Adkins, J.; Qian, X.; Wang, R.; Wasinger, V.; Wu, C. Y.; Zhao, X.; Zeng, R.; Archakov, A.; Tsugita, A.; Beer, I.; Pandey, A.; Pisano, M.; Andrews, P.; Tammen, H.; Speicher, D. W.; Hanash, S. M. Overview of the HUPO Plasma Proteome Project: Results from the Pilot Phase with 35 Collaborating Laboratories and Multiple Analytical Groups, Generating a Core Dataset of 3020 Proteins and a Publicly-Available Database Proteomics 2005, 5, 3226-3245 (Pubitemid 41192032)
-
(2005)
Proteomics
, vol.5
, Issue.13
, pp. 3226-3245
-
-
Omenn, G.S.1
States, D.J.2
Adamski, M.3
Blackwell, T.W.4
Menon, R.5
Hermjakob, H.6
Apweiler, R.7
Haab, B.B.8
Simpson, R.J.9
Eddes, J.S.10
Kapp, E.A.11
Moritz, R.L.12
Chan, D.W.13
Rai, A.J.14
Admon, A.15
Aebersold, R.16
Eng, J.17
Hancock, W.S.18
Hefta, S.A.19
Meyer, H.20
Paik, Y.-K.21
Yoo, J.-S.22
Ping, P.23
Pounds, J.24
Adkins, J.25
Qian, X.26
Wang, R.27
Wasinger, V.28
Wu, C.Y.29
Zhao, X.30
Zeng, R.31
Archakov, A.32
Tsugita, A.33
Beer, I.34
Pandey, A.35
Pisano, M.36
Andrews, P.37
Tammen, H.38
Speicher, D.W.39
Hanash, S.M.40
more..
-
13
-
-
38649126540
-
What's driving false discovery rates?
-
DOI 10.1021/pr700728t
-
Tabb, D. L. What's driving the false discovery rate? J. Proteome Res. 2008, 7, 45-46 (Pubitemid 351171113)
-
(2008)
Journal of Proteome Research
, vol.7
, Issue.1
, pp. 45-46
-
-
Tabb, D.L.1
-
14
-
-
34547732831
-
Using statistical models to identify factors that have a role in defining the abundance of ions produced by tandem MS
-
DOI 10.1021/ac0700272
-
Barton, S.; Richardson, S.; Perkins, D.; Bellahn, I.; Bryant, T.; Whittaker, J. Using Statistical Models To Identify Factors That Have a Role in Defining the Abundance of Ions Produced by Tandem MS Anal. Chem. 2007, 79, 5601-5607 (Pubitemid 47229805)
-
(2007)
Analytical Chemistry
, vol.79
, Issue.15
, pp. 5601-5607
-
-
Barton, S.J.1
Richardson, S.2
Perkins, D.N.3
Bellahn, I.4
Bryant, T.N.5
Whittaker, J.C.6
-
15
-
-
0346158344
-
Deriving statistical models for predicting peptide tandem MS product ion intensities
-
Schutz, F.; Kapp, E.; Simpson, R.; Speed, T. Deriving statistical models for predicting peptide tandem MS product ion intensities Biochem. Soc. Trans. 2003, 31, 1479-1483 (Pubitemid 38031006)
-
(2003)
Biochemical Society Transactions
, vol.31
, Issue.6
, pp. 1479-1483
-
-
Schutz, F.1
Kapp, E.A.2
Simpson, R.J.3
Speed, T.P.4
-
16
-
-
0742305695
-
Intensity-based protein identification by machine learning from a library of tandem mass spectra
-
DOI 10.1038/nbt930
-
Elias, J.; Gibbons, F.; King, O.; Roth, F.; Gygi, S. Intensity-based protein identification by machine learning from a library of tandem mass spectra Nat. Biotechnol. 2004, 22, 214-219 (Pubitemid 38160538)
-
(2004)
Nature Biotechnology
, vol.22
, Issue.2
, pp. 214-219
-
-
Elias, J.E.1
Gibbons, F.D.2
King, O.D.3
Roth, F.P.4
Gygi, S.P.5
-
17
-
-
13844319908
-
PepNovo: De novo peptide sequencing via probabilistic network modeling
-
DOI 10.1021/ac048788h
-
Frank, A.; Pevzner, P. PepNovo: De Novo Peptide Sequencing via Probabilistic Network Modeling Anal. Chem. 2005, 77, 964-973 (Pubitemid 40261761)
-
(2005)
Analytical Chemistry
, vol.77
, Issue.4
, pp. 964-973
-
-
Frank, A.1
Pevzner, P.2
-
18
-
-
27544511899
-
InsPecT: Identification of posttranslationally modified peptides from tandem mass spectra
-
DOI 10.1021/ac050102d
-
Tanner, S.; Shu, H.; Frank, A.; Mumby, M.; Pevzner, P.; Bafna, V. InsPecT: Fast and accurate identification of post-translationally modified peptides from tandem mass spectra Anal. Chem. 2005, 77, 4626-4639 (Pubitemid 41542287)
-
(2005)
Analytical Chemistry
, vol.77
, Issue.14
, pp. 4626-4639
-
-
Tanner, S.1
Shu, H.2
Frank, A.3
Wang, L.-C.4
Zandi, E.5
Mumby, M.6
Pevzner, P.A.7
Bafna, V.8
-
19
-
-
30744444934
-
PepHMM: A hidden Markov model based scoring function for mass spectrometry database search
-
DOI 10.1021/ac051319a
-
Wan, Y.; Chen, T. PepHMM: A hidden Markov model based scoring function for tandem mass spectrometry Anal. Chem. 2006, 78, 432-437 (Pubitemid 43100374)
-
(2006)
Analytical Chemistry
, vol.78
, Issue.2
, pp. 432-437
-
-
Wan, Y.1
Yang, A.2
Chen, T.3
-
20
-
-
33847234661
-
Lookup Peaks: A Hybrid of de Novo Sequencing and Database Search for Protein Identification by Tandem Mass Spectrometry
-
Bern, M.; Cai, Y.; Goldberg, D. Lookup Peaks: A Hybrid of de Novo Sequencing and Database Search for Protein Identification by Tandem Mass Spectrometry Anal. Chem. 2007, 79, 1393-1400
-
(2007)
Anal. Chem.
, vol.79
, pp. 1393-1400
-
-
Bern, M.1
Cai, Y.2
Goldberg, D.3
-
21
-
-
35349021975
-
Peptide fragment intensity statistical modeling
-
DOI 10.1021/ac070488n
-
Colinge, J. Peptide Fragment Intensity Statistical Modeling Anal. Chem. 2007, 79, 7286-7290 (Pubitemid 47606094)
-
(2007)
Analytical Chemistry
, vol.79
, Issue.19
, pp. 7286-7290
-
-
Colinge, J.1
-
22
-
-
46249088907
-
Modeling peptide fragmentation with dynamic Bayesian networks for peptide identification
-
Klammer, A.; Reynolds, S.; Bilmes, J.; MacCoss, M.; Noble, W. Modeling peptide fragmentation with dynamic Bayesian networks for peptide identification Bioinformatics 2008, 24, i348-356
-
(2008)
Bioinformatics
, vol.24
, pp. 348-356
-
-
Klammer, A.1
Reynolds, S.2
Bilmes, J.3
MacCoss, M.4
Noble, W.5
-
23
-
-
3242660851
-
Prediction of low-energy collision-induced dissociation spectra of peptides
-
DOI 10.1021/ac049951b
-
Zhang, Z. Prediction of Low-Energy Collision-Induced Dissociation Spectra of Peptides Anal. Chem. 2004, 76, 3908-3922 (Pubitemid 38943659)
-
(2004)
Analytical Chemistry
, vol.76
, Issue.14
, pp. 3908-3922
-
-
Zhang, Z.1
-
24
-
-
26444607864
-
Prediction of low-energy collision-induced dissociation spectra of peptides with three or more charges
-
DOI 10.1021/ac050857k
-
Zhang, Z. Prediction of Low-Energy Collision-Induced Dissociation Spectra of Peptides with Three or More Charges Anal. Chem. 2005, 77, 6364-6373 (Pubitemid 41436975)
-
(2005)
Analytical Chemistry
, vol.77
, Issue.19
, pp. 6364-6373
-
-
Zhang, Z.1
-
25
-
-
66749169317
-
Predicting Intensity Ranks of Peptide Fragment Ions
-
Frank, A. M. Predicting Intensity Ranks of Peptide Fragment Ions J. Proteome Res. 2009, 8, 2226-2240
-
(2009)
J. Proteome Res.
, vol.8
, pp. 2226-2240
-
-
Frank, A.M.1
-
26
-
-
12444272753
-
-
Petritis, K.; Kangas, L. J.; Ferguson, P. L.; Anderson, G. A.; Pasa-Tolic, L.; Lipton, M. S.; Auberry, K. J.; Strittmatter, E.; Shen, Y.; Zhao, R.; Smith, R. D. Anal. Chem. 2003, 75, 1039-1048
-
(2003)
Anal. Chem.
, vol.75
, pp. 1039-1048
-
-
Petritis, K.1
Kangas, L.J.2
Ferguson, P.L.3
Anderson, G.A.4
Pasa-Tolic, L.5
Lipton, M.S.6
Auberry, K.J.7
Strittmatter, E.8
Shen, Y.9
Zhao, R.10
Smith, R.D.11
-
27
-
-
4444350538
-
Application of peptide LC retention time information in a discriminant function for peptide identification by tandem mass spectrometry
-
DOI 10.1021/pr049965y
-
Strittmatter, E. F.; Kangas, L. J.; Petritis, K.; Mottaz, H. M.; Anderson, G. A.; Shen, Y.; Jacobs, J. M.; Camp, D. G., II; Smith, R. D. Application of Peptide LC Retention Time Information in a Discriminant Function for Peptide Identification by Tandem Mass Spectrometry J. Proteome Res. 2004, 3 (4) 760-769 (Pubitemid 39166236)
-
(2004)
Journal of Proteome Research
, vol.3
, Issue.4
, pp. 760-769
-
-
Strittmatter, E.F.1
Kangas, L.J.2
Petritis, K.3
Mottaz, H.M.4
Anderson, G.A.5
Shen, Y.6
Jacobs, J.M.7
Camp II, D.G.8
Smith, R.D.9
-
28
-
-
5744223586
-
An improved model for prediction of retention times of tryptic peptides in ion pair reversed-phase HPLC: Its application to protein peptide mapping by off-line HPLC-MALDI MS
-
DOI 10.1074/mcp.M400031-MCP200
-
Krokhin, O. V.; Craig, R.; Spicer, V.; Ens, W.; Standing, K. G.; Beavis, R. C.; Wilkins, J. A. An Improved Model for Prediction of Retention Times of Tryptic Peptides in Ion Pair Reversed-phase HPLC Its Application to Protein Peptide Mapping by Off-Line HPLC-MALDI MS Mol. Cell. Proteomics 2004, 3.9, 908-919 (Pubitemid 39377699)
-
(2004)
Molecular and Cellular Proteomics
, vol.3
, Issue.9
, pp. 908-919
-
-
Krokhin, O.V.1
Craig, R.2
Spicer, V.3
Ens, W.4
Standing, K.G.5
Beavis, R.C.6
Wilkins, J.A.7
-
29
-
-
12444272753
-
Use of artificial neural networks for the accurate prediction of peptide liquid chromatography elution times in proteome analyses
-
DOI 10.1021/ac0205154
-
Petritis, K.; Kangas, L. J.; Ferguson, P. L.; Anderson, G. A.; Pasa-Tolic, L.; Lipton, M. S.; Auberry, K. J.; Strittmatter, E. F.; Shen, Y.; Zhao, R.; Smith, R. D. Use of artificial neural networks for the accurate prediction of peptide liquid chromatography elution times in proteome analyses Anal. Chem. 2003, 75, 1039-1048 (Pubitemid 36402631)
-
(2003)
Analytical Chemistry
, vol.75
, Issue.5
, pp. 1039-1048
-
-
Petritis, K.1
Kangas, L.J.2
Ferguson, P.L.3
Anderson, G.A.4
Pasa-Tolic, L.5
Lipton, M.S.6
Auberry, K.J.7
Strittmatter, E.F.8
Shen, Y.9
Zhao, R.10
Smith, R.D.11
-
30
-
-
0037112383
-
Prediction of chromatographic retention and protein identification in liquid chromatography/mass spectrometry
-
DOI 10.1021/ac0256890
-
Palmblad, M.; Ramstrom, M.; Markides, K. E.; Hakansson, P.; Bergquist, J. Prediction of chromatographic retention and protein identification in liquid chromatography/mass spectrometry Anal. Chem. 2002, 74, 5826-5830 (Pubitemid 35364839)
-
(2002)
Analytical Chemistry
, vol.74
, Issue.22
, pp. 5826-5830
-
-
Palmblad, M.1
Ramstrom, M.2
Markides, K.E.3
Hakansson, P.4
Bergquist, J.5
-
31
-
-
33845889721
-
Neural network prediction of peptide separation in strong anion exchange chromatography
-
DOI 10.1093/bioinformatics/btl561
-
Oh, C.; Zak, S. H.; Mirzaei, H.; Buck, C.; Regnier, F. E.; Zhang, X. Neural network prediction of peptide separation in strong anion exchange chromatography Bioinformatics 2007, 23 (1) 114-118 (Pubitemid 46017863)
-
(2007)
Bioinformatics
, vol.23
, Issue.1
, pp. 114-118
-
-
Oh, C.1
Zak, S.H.2
Mirzaei, H.3
Buck, C.4
Regnier, F.E.5
Zhang, X.6
-
32
-
-
76149132007
-
Comparison of Database Search Strategies for High Precursor Mass Accuracy MS/MS Data
-
Hsieh, E. J.; Hoopmann, M. R.; MacLean, B.; MacCoss, M. J. Comparison of Database Search Strategies for High Precursor Mass Accuracy MS/MS Data J. Proteome Res. 2010, 9 (2) 1138-1143
-
(2010)
J. Proteome Res.
, vol.9
, Issue.2
, pp. 1138-1143
-
-
Hsieh, E.J.1
Hoopmann, M.R.2
MacLean, B.3
MacCoss, M.J.4
-
33
-
-
34249094851
-
A mass accuracy sensitive probability based scoring algorithm for database searching of tandem mass spectrometry data
-
Xu, H.; Freitas, M. A. A mass accuracy sensitive probability based scoring algorithm for database searching of tandem mass spectrometry data BMC Bioinform. 2007, 8, 133
-
(2007)
BMC Bioinform.
, vol.8
, pp. 133
-
-
Xu, H.1
Freitas, M.A.2
-
34
-
-
57449099068
-
Precision proteomics: The case for high resolution andhigh mass accuracy
-
Mann, M.; Kelleher, N. L. Precision proteomics: The case for high resolution andhigh mass accuracy Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 18132-18138
-
(2008)
Proc. Natl. Acad. Sci. U.S.A.
, vol.105
, pp. 18132-18138
-
-
Mann, M.1
Kelleher, N.L.2
-
35
-
-
72149119458
-
Multidimensional protein fractionation of blood proteins coupled to data-independent nanoLC-MS/MS analysis
-
Levin, Y.; Jaros, J. A.; Schwarz, E.; Bahn, S. Multidimensional protein fractionation of blood proteins coupled to data-independent nanoLC-MS/MS analysis J. Protoemics 2010, 73 (3) 689-695
-
(2010)
J. Protoemics
, vol.73
, Issue.3
, pp. 689-695
-
-
Levin, Y.1
Jaros, J.A.2
Schwarz, E.3
Bahn, S.4
-
36
-
-
77954365852
-
Improving Protein and Proteome Coverage through Data-Independent Multiplexed Peptide Fragmentation
-
Blackburn, K.; Mbeunkui, F.; Mitra, S. K.; Mentzel, T.; Goshe, M. B. Improving Protein and Proteome Coverage through Data-Independent Multiplexed Peptide Fragmentation J. Proteome Res. 2010, 9 (7) 3621-3637
-
(2010)
J. Proteome Res.
, vol.9
, Issue.7
, pp. 3621-3637
-
-
Blackburn, K.1
Mbeunkui, F.2
Mitra, S.K.3
Mentzel, T.4
Goshe, M.B.5
-
37
-
-
16644396658
-
Intrinsic Amino Acid Size Parameters from a Series of 113 Lysine-Terminated Tryptic Digest Peptide Ions
-
Valentine, S. J.; Counterman, A. E.; Hoaglund-Hyzer, C. S.; Clemmer, D. E. Intrinsic Amino Acid Size Parameters from a Series of 113 Lysine-Terminated Tryptic Digest Peptide Ions J. Phys. Chem. B 1999, 103, 1203-1207
-
(1999)
J. Phys. Chem. B
, vol.103
, pp. 1203-1207
-
-
Valentine, S.J.1
Counterman, A.E.2
Hoaglund-Hyzer, C.S.3
Clemmer, D.E.4
-
38
-
-
0001070559
-
Intrinsic Size Parameters for Val, Ile, Leu, Gln, Thr, Phe, and Trp Residues from Ion Mobility Measurements of Polyamino Acid Ions
-
Henderson, S. C.; Li, J.; Counterman, A. E.; Clemmer, D. E. Intrinsic Size Parameters for Val, Ile, Leu, Gln, Thr, Phe, and Trp Residues from Ion Mobility Measurements of Polyamino Acid Ions J. Phys. Chem. B 1999, 103, 8780-8785 (Pubitemid 129613923)
-
(1999)
Journal of Physical Chemistry B
, vol.103
, Issue.41
, pp. 8780-8785
-
-
Henderson, S.C.1
Li, J.2
Counterman, A.E.3
Clemmer, D.E.4
-
39
-
-
0033473749
-
A database of 660 peptide ion cross sections: Use of intrinsic size parameters for bona fide predictions of cross sections
-
DOI 10.1016/S1044-0305(99)00079-3, PII S1044030599000793
-
Valentine, S. J.; Counterman, A. E.; Clemmer, D. E. A Database of 660 Peptide Ion Cross Sections: Use of Intrinsic Size Parameters for Bona Fide Predictions of Cross Sections J. Am. Soc. Mass Spectrom. 1999, 10, 1188-1211 (Pubitemid 34498675)
-
(1999)
Journal of the American Society for Mass Spectrometry
, vol.10
, Issue.11
, pp. 1188-1211
-
-
Valentine, S.J.1
Counterman, A.E.2
Clemmer, D.E.3
-
40
-
-
0033611971
-
Volumes of Individual Amino Acid Residues in Gas-Phase Peptide Ions
-
Counterman, A. E.; Clemmer, D. E. Volumes of Individual Amino Acid Residues in Gas-Phase Peptide Ions J. Am. Chem. Soc. 1999, 121, 4031-4039
-
(1999)
J. Am. Chem. Soc.
, vol.121
, pp. 4031-4039
-
-
Counterman, A.E.1
Clemmer, D.E.2
-
41
-
-
77950664005
-
Artificial neural networks for the prediction of peptide drift time in ion mobility mass spectrometry
-
Wang, B.; Valentine, S.; Plasencia, M.; Raghuraman, S.; Zhang, X. Artificial neural networks for the prediction of peptide drift time in ion mobility mass spectrometry BMC Bioinform. 2010, 11, 182
-
(2010)
BMC Bioinform.
, vol.11
, pp. 182
-
-
Wang, B.1
Valentine, S.2
Plasencia, M.3
Raghuraman, S.4
Zhang, X.5
-
42
-
-
80051751860
-
Ion Mobility Spectrometry in Analytical Chemistry
-
For a review of IMS techniques see (and references therein)
-
For a review of IMS techniques see (and references therein): St. Louis, R. H.; Hill, H. H. Ion Mobility Spectrometry in Analytical Chemistry Crit. Rev. Anal. Chem. 1990, 21, 321-355
-
(1990)
Crit. Rev. Anal. Chem.
, vol.21
, pp. 321-355
-
-
St. Louis, R.H.1
Hill, H.H.2
-
43
-
-
0030905633
-
Ion mobility measurements and their applications to clusters and biomolecules
-
DOI 10.1002/(SICI)1096-9888(19 9706)32:6<577::AID-JMS530>3.0.CO;2-4
-
For a review of IMS techniques see (and references therein): Clemmer, D. E.; Jarrold, M. F. Ion Mobility Measurements and their Applications to Clusters and Biomolecules J. Mass Spectrom. 1997, 32, 577-592 (Pubitemid 27273948)
-
(1997)
Journal of Mass Spectrometry
, vol.32
, Issue.6
, pp. 577-592
-
-
Clemmer, D.E.1
Jarrold, M.F.2
-
44
-
-
15144345257
-
Characterizing Oligosaccharides Using Injected-Ion Mobility/Mass Spectrometry
-
Liu, Y.; Clemmer, D. E. Characterizing Oligosaccharides Using Injected-Ion Mobility/Mass Spectrometry Anal. Chem. 1997, 69, 2504-2509
-
(1997)
Anal. Chem.
, vol.69
, pp. 2504-2509
-
-
Liu, Y.1
Clemmer, D.E.2
-
45
-
-
0000402366
-
Injected-ion Mobility Analysis of Biomolecules
-
Liu, Y.; Valentine, S. J.; Counterman, A. E.; Hoaglund, C. S.; Clemmer, D. E. Injected-ion Mobility Analysis of Biomolecules Anal. Chem. 1997, 69, 728A
-
(1997)
Anal. Chem.
, vol.69
-
-
Liu, Y.1
Valentine, S.J.2
Counterman, A.E.3
Hoaglund, C.S.4
Clemmer, D.E.5
-
46
-
-
57449100366
-
Biomolecule Analysis by Ion Mobility Spectrometry
-
For a review of IMS techniques see (and references therein):;;;;, ()
-
For a review of IMS techniques see (and references therein): Bohrer, B. C.; Merenbloom, S. I.; Koeniger, S. L.; Hilderbrand, A. E.; Clemmer, D. E. Biomolecule Analysis by Ion Mobility Spectrometry Annu. Rev. Anal. Chem. 2008, 1 (10) 1-10
-
(2008)
Annu. Rev. Anal. Chem.
, vol.1
, Issue.10
, pp. 1-10
-
-
Bohrer, B.C.1
Merenbloom, S.I.2
Koeniger, S.L.3
Hilderbrand, A.E.4
Clemmer, D.E.5
-
47
-
-
0001015266
-
Electrospray Ionization Ion Mobility Spectrometry
-
Wittmer, D.; Luckenbill, B. K.; Hill, H. H.; Chen, Y. H. Electrospray Ionization Ion Mobility Spectrometry Anal. Chem. 1994, 66, 2348-2355
-
(1994)
Anal. Chem.
, vol.66
, pp. 2348-2355
-
-
Wittmer, D.1
Luckenbill, B.K.2
Hill, H.H.3
Chen, Y.H.4
-
48
-
-
0032093224
-
Three-Dimensional Ion Mobility/TOFMS Analysis of Electrosprayed Biomolecules
-
Hoaglund, C. S.; Valentine, S. J.; Sporleder, C. R.; Reilly, J. P.; Clemmer, D. E. Three-Dimensional Ion Mobility/TOFMS Analysis of Electrosprayed Biomolecules Anal. Chem. 1998, 70, 2236-2242
-
(1998)
Anal. Chem.
, vol.70
, pp. 2236-2242
-
-
Hoaglund, C.S.1
Valentine, S.J.2
Sporleder, C.R.3
Reilly, J.P.4
Clemmer, D.E.5
-
49
-
-
0034282963
-
Coupling High-Pressure MALDI with Ion Mobility/Orthogonal Time-of Flight Mass Spectrometry
-
Gillig, K. J.; Ruotolo, B.; Stone, E. G.; Russell, D. H.; Fuhrer, K.; Gonin, M.; Schultz, A. J. Coupling High-Pressure MALDI with Ion Mobility/Orthogonal Time-of Flight Mass Spectrometry Anal. Chem. 2000, 72, 3965-3971
-
(2000)
Anal. Chem.
, vol.72
, pp. 3965-3971
-
-
Gillig, K.J.1
Ruotolo, B.2
Stone, E.G.3
Russell, D.H.4
Fuhrer, K.5
Gonin, M.6
Schultz, A.J.7
-
50
-
-
0034234619
-
Mobility labeling for parallel CID of ion mixtures
-
DOI 10.1021/ac0000170
-
Hoaglund-Hyzer, C. S.; Li, J.; Clemmer, D. E. Mobility Labeling for Parallel CID of Ion Mixtures Anal. Chem. 2000, 72, 2737-2740 (Pubitemid 30452237)
-
(2000)
Analytical Chemistry
, vol.72
, Issue.13
, pp. 2737-2740
-
-
Hoaglund-Hyzer, C.S.1
Li, J.2
Clemmer, D.E.3
-
51
-
-
0035863707
-
Ion trap/ion mobility/quadrupole/time-of-flight mass spectrometry for peptide mixture analysis
-
DOI 10.1021/ac0007783
-
Hoaglund-Hyzer, C. S.; Clemmer, D. E. Ion Trap/Ion Mobility/Quadrupole/ Time-of-Flight Mass Spectrometry for Peptide Mixture Analysis Anal. Chem. 2001, 73, 177-184 (Pubitemid 32061826)
-
(2001)
Analytical Chemistry
, vol.73
, Issue.2
, pp. 177-184
-
-
Hoaglund-Hyzer, C.S.1
Clemmer, D.E.2
-
52
-
-
0036500991
-
Coupling ion mobility separations, collisional activation techniques, and multiple stages of MS for analysis of complex peptide mixtures
-
DOI 10.1021/ac010837s
-
Hoaglund-Hyzer, C. S.; Lee, Y. J.; Counterman, A. E.; Clemmer, D. E. Coupling Ion Mobility Separations, Collisional Activation Techniques, and Multiple Stages of MS for Analysis of Complex Peptide Mixtures Anal. Chem. 2002, 74, 992-1006 (Pubitemid 34203021)
-
(2002)
Analytical Chemistry
, vol.74
, Issue.5
, pp. 992-1006
-
-
Hoaglund-Hyzer, C.S.1
Lee, Y.J.2
Counterman, A.E.3
Clemmer, D.E.4
-
53
-
-
18844425931
-
High-sensitivity ion mobility spectrometry/mass spectrometry using electrodynamic ion funnel interfaces
-
DOI 10.1021/ac048315a
-
Tang, K.; Shvartsburg, A. A.; Lee, H. N.; Prior, D. C.; Buschbach, M. A.; Li, F. M.; Tolmachev, A. V.; Anderson, G. A.; Smith, R. D. High-Sensitivity Ion Mobility Spectrometry/Mass Spectrometry Using Electrodynamic Ion Funnel Interfaces Anal. Chem. 2005, 77, 3330-3339 (Pubitemid 40695493)
-
(2005)
Analytical Chemistry
, vol.77
, Issue.10
, pp. 3330-3339
-
-
Tang, K.1
Shvarisburg, A.A.2
Lee, H.-N.3
Prior, D.C.4
Buschbach, M.A.5
Li, F.6
Tolmachev, A.V.7
Anderson, G.A.8
Smith, R.D.9
-
54
-
-
33745246362
-
An IMS-IMS Analogue of MS-MS
-
Koeniger, S. L.; Merenbloom, S. I.; Valentine, S. J.; Jarrold, M. F.; Udseth, H. R.; Smith, R. D.; Clemmer, D. E. An IMS-IMS Analogue of MS-MS Anal. Chem. 2006, 78, 4161
-
(2006)
Anal. Chem.
, vol.78
, pp. 4161
-
-
Koeniger, S.L.1
Merenbloom, S.I.2
Valentine, S.J.3
Jarrold, M.F.4
Udseth, H.R.5
Smith, R.D.6
Clemmer, D.E.7
-
55
-
-
0016520487
-
Theory of Plasma Chromatography Gaseous Electrophoresis - Review
-
Revercomb, H. E.; Mason, E. A. Theory of Plasma Chromatography Gaseous Electrophoresis-Review Anal. Chem. 1975, 47, 970-983
-
(1975)
Anal. Chem.
, vol.47
, pp. 970-983
-
-
Revercomb, H.E.1
Mason, E.A.2
-
57
-
-
0030580028
-
An exact hard-spheres scattering model for the mobilities of polyatomic ions
-
PII S0009261496009414
-
Shvartsburg, A. A.; Jarrold, M. F. An exact hard-spheres scattering model for the mobilities of polyatomic ions Chem. Phys. Lett. 1996, 261, 86-91 (Pubitemid 126163393)
-
(1996)
Chemical Physics Letters
, vol.261
, Issue.1-2
, pp. 86-91
-
-
Shvartsburg, A.A.1
Jarrold, M.F.2
-
58
-
-
33748887803
-
Structural information from ion mobility measurements: Effects of the long-range potential
-
Mesleh, M. F.; Hunter, J. M.; Shvartsburg, A. A.; Schatz, G. C.; Jarrold, M. F. Structural information from ion mobility measurements: effects of the long-range potential J. Phys. Chem. 1996, 100, 16082-16086 (Pubitemid 126799343)
-
(1996)
Journal of Physical Chemistry
, vol.100
, Issue.40
, pp. 16082-16086
-
-
Mesleh, M.F.1
Hunter, J.M.2
Shvartsburg, A.A.3
Schatz, G.C.4
Jarrold, M.F.5
-
59
-
-
0031106850
-
Effect of the long-range potential on ion mobility measurements
-
DOI 10.1016/S1044-0305(96)00236-X, PII S104403059600236X
-
Wyttenbach, T; von Helden, G; Batka, J. J.; Carlat, D.; Bowers, M. T. Effect of the long-range potential on ion mobility measurements J. Am. Chem. Soc. 1997, 8, 275-282 (Pubitemid 27113757)
-
(1997)
Journal of the American Society for Mass Spectrometry
, vol.8
, Issue.3
, pp. 275-282
-
-
Wyttenbach, T.1
Von Helden, G.2
Batka Jr., J.J.3
Carlat, D.4
Bowers, M.T.5
-
60
-
-
0035891934
-
Multidimensional separations of complex peptide mixtures: A combined high-performance liquid chromatography/ion mobility/time-of-flight mass spectrometry approach
-
Valentine, S. J.; Kulchania, M.; Srebalus Barnes, C. A.; Clemmer, D. E. Multidimensional separations of complex peptide mixtures: a combined high-performance liquid chromatography/ion mobility/time-of-flight mass spectrometry approach Int. J. Mass Spectrom. 2001, 212, 97-109
-
(2001)
Int. J. Mass Spectrom.
, vol.212
, pp. 97-109
-
-
Valentine, S.J.1
Kulchania, M.2
Srebalus Barnes, C.A.3
Clemmer, D.E.4
-
61
-
-
0036139784
-
Resolving isomeric peptide mixtures: A combined HPLC/ion mobility-TOFMS analysis of a 4000-component combinatorial library
-
DOI 10.1021/ac0108562
-
Srebalus Barnes, C. A.; Hilderbrand, A. E.; Valentine, S. J.; Clemmer, D. E. Resolving Isomeric Peptide Mixtures: A Combined HPLC/Ion Mobility-TOFMS Analysis of a 4000-Component Combinatorial Library Anal. Chem. 2002, 74, 26-36 (Pubitemid 34044420)
-
(2002)
Analytical Chemistry
, vol.74
, Issue.1
, pp. 26-36
-
-
Srebalus Barnes, C.A.1
Hilderbrand, A.E.2
Valentine, S.J.3
Clemmer, D.E.4
-
62
-
-
0348142994
-
Nanoflow LC/Ion Mobility/CID/TOF for Proteomics: Analysis of a Human Urinary Proteome
-
DOI 10.1021/pr034018v
-
Moon, M. H.; Myung, S.; Plasencia, M.; Hilderbrand, A. E.; Clemmer, D. E. Nanoflow LC/Ion Mobility/CID/TOF for Proteomics: Analysis of a Human Urinary Proteome J. Proteome Res. 2003, 2, 589-597 (Pubitemid 38017103)
-
(2003)
Journal of Proteome Research
, vol.2
, Issue.6
, pp. 589-597
-
-
Moon, M.H.1
Myung, S.2
Plasencia, M.3
Hilderbrand, A.E.4
Clemmer, D.E.5
-
63
-
-
23944506012
-
Mapping the proteome of Drosophila melanogaster. Analysis of embryos and adult heads by LC-IMS-MS methods
-
DOI 10.1021/pr050038g
-
Taraszka, J. A.; Kurulugama, R.; Sowell, R.; Valentine, S. J.; Koeniger, S. L; Arnold, R. J.; Miller, D. F.; Kaufman, T. C.; Clemmer, D. E. Mapping the Proteome of Drosophila melanogaster: Analysis of Embryos and Adult Heads by LC-IMS-MS Methods J. Proteome Res. 2005, 4, 1223-1237 (Pubitemid 41208678)
-
(2005)
Journal of Proteome Research
, vol.4
, Issue.4
, pp. 1223-1237
-
-
Taraszka, J.A.1
Kurulugama, R.2
Sowell, R.A.3
Valentine, S.J.4
Koeniger, S.L.5
Arnold, R.J.6
Miller, D.F.7
Kaufman, T.C.8
Clemmer, D.E.9
-
64
-
-
33750988179
-
Toward plasma proteome profiling with ion mobility-mass spectrometry
-
DOI 10.1021/pr060232i
-
Valentine, S. J.; Plasencia, M. D.; Liu, X.; Krishnan, M.; Naylor, S.; Udseth, H. R.; Smith, R. D.; Clemmer, D. E. Toward Plasma Proteome Profiling with Ion Mobility-Mass Spectrometry J. Proteome Res. 2006, 5, 2977-2984 (Pubitemid 44749216)
-
(2006)
Journal of Proteome Research
, vol.5
, Issue.11
, pp. 2977-2984
-
-
Valentine, S.J.1
Plasencia, M.D.2
Liu, X.3
Krishnan, M.4
Naylor, S.5
Udseth, H.R.6
Smith, R.D.7
Clemmer, D.E.8
-
65
-
-
34250759319
-
Mapping the Human Plasma Proteome by SCX-LC-IMS-MS
-
DOI 10.1016/j.jasms.2007.04.012, PII S1044030507003236
-
Liu, X.; Valentine, S. J.; Plasencia, M. D.; Trimpin, S.; Naylor, S.; Clemmer, D. E. Mapping the Human Plasma Proteome by SCX-LC-IMS-MS J. Am. Soc. Mass Spectrom. 2007, 18, 1249-1264 (Pubitemid 46963598)
-
(2007)
Journal of the American Society for Mass Spectrometry
, vol.18
, Issue.7
, pp. 1249-1264
-
-
Liu, X.1
Valentine, S.J.2
Plasencia, M.D.3
Trimpin, S.4
Naylor, S.5
Clemmer, D.E.6
-
66
-
-
20144388265
-
Quantitative proteomic analysis by accurate mass retention time pairs
-
DOI 10.1021/ac048455k
-
Silva, J. C.; Denny, R.; Dorschel, C. A.; Gorenstein, M.; Kass, I. J.; Li, G. Z.; McKenna, T.; Nold, M. J.; Richardson, K.; Young, P.; Geromanos, S. Quantitative proteomic analysis by accurate mass retention time pairs Anal. Chem. 2005, 77 (7) 2187-2200 (Pubitemid 40463836)
-
(2005)
Analytical Chemistry
, vol.77
, Issue.7
, pp. 2187-2200
-
-
Silva, J.C.1
Denny, R.2
Dorschel, C.A.3
Gorenstein, M.4
Kass, I.J.5
Li, G.-Z.6
McKenna, T.7
Nold, M.J.8
Richardson, K.9
Young, P.10
Geromanos, S.11
-
67
-
-
79955794619
-
-
The Mathworks, Inc.
-
The Mathworks, Inc. http://www.mathworks.com/products/matlab/.
-
-
-
-
69
-
-
79955795535
-
-
http://en.wikipedia.org/wiki/Numerical-methods-for-linear-least-squares.
-
-
-
-
72
-
-
75649125610
-
Empirical approach to false discovery rate estimation in shotgun proteomics
-
Goloborodko, A. A.; Mayerhofer, C.; Zubarev, A. R.; Tarasova, I. A.; Gorshkov, A. V.; Zubarev, R. A.; Gorshkov, M. G. Empirical approach to false discovery rate estimation in shotgun proteomics Rapid Commun. Mass Spectrom. 2010, 24, 454-462
-
(2010)
Rapid Commun. Mass Spectrom.
, vol.24
, pp. 454-462
-
-
Goloborodko, A.A.1
Mayerhofer, C.2
Zubarev, A.R.3
Tarasova, I.A.4
Gorshkov, A.V.5
Zubarev, R.A.6
Gorshkov, M.G.7
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