-
1
-
-
33746102929
-
Proteome research based on modern liquid chromatography - Tandem mass spectrometry: Separation, identification and quantification
-
DOI 10.1007/s00702-006-0509-3, Proteomics in neurodegeneration - from samples to target proteins and biomarkers
-
T. Fröhlich and G. J. Arnold, "Proteome research based on modern liquid chromatography-tandem mass spectrometry: separation, identification and quantification," Journal of Neural Transmission, vol. 113, no. 8, pp. 973-994, 2006. (Pubitemid 44079933)
-
(2006)
Journal of Neural Transmission
, vol.113
, Issue.8
, pp. 973-994
-
-
Frohlich, T.1
Arnold, G.J.2
-
2
-
-
40649126964
-
Informatics for peptide retention properties in proteomic LC-MS
-
DOI 10.1002/pmic.200700692
-
K. Shinoda, M. Sugimoto, M. Tomita, and Y. Ishihama, "Informatics for peptide retention properties in proteomic LC-MS," Proteomics, vol. 8, no. 4, pp. 787-798, 2008. (Pubitemid 351372029)
-
(2008)
Proteomics
, vol.8
, Issue.4
, pp. 787-798
-
-
Shinoda, K.1
Sugimoto, M.2
Tomita, M.3
Ishihama, Y.4
-
3
-
-
0029644596
-
Method to correlate tandem mass spectra of modified peptides to amino acid sequences in the protein database
-
J. R. Yates III, J. K. Eng, A. L. McCormack, and D. Schieltz, "Method to correlate tandem mass spectra of modified peptides to amino acid sequences in the protein database," Analytical Chemistry, vol. 67, no. 8, pp. 1426-1436, 1995.
-
(1995)
Analytical Chemistry
, vol.67
, Issue.8
, pp. 1426-1436
-
-
Yates Iii, J.R.1
Eng, J.K.2
McCormack, A.L.3
Schieltz, D.4
-
4
-
-
0042972838
-
A new algorithm for the evaluation of shotgun peptide sequencing in proteomics: Support vector machine classification of peptide MS/MS spectra and SEQUEST scores
-
DOI 10.1021/pr0255654
-
D. C. Anderson, W. Li, D. G. Payan, and W. S. Noble, "A new algorithm for the evaluation of shotgun peptide sequencing in proteomics: support vector machine classification of peptide MS/MS spectra and SEQUEST scores," Journal of Proteome Research, vol. 2, no. 2, pp. 137-146, 2003. (Pubitemid 37099049)
-
(2003)
Journal of Proteome Research
, vol.2
, Issue.2
, pp. 137-146
-
-
Anderson, D.C.1
Li, W.2
Payan, D.G.3
Noble, W.S.4
-
5
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
J. K. Eng, A. L. McCormack, and J. R. Yates III, "An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database," Journal of the American Society for Mass Spectrometry, vol. 5, no. 11, pp. 976-989, 1994.
-
(1994)
Journal of the American Society for Mass Spectrometry
, vol.5
, Issue.11
, pp. 976-989
-
-
Eng, J.K.1
McCormack, A.L.2
Yates Iii, J.R.3
-
6
-
-
0036393898
-
DTASelect and contrast: Tools for assembling and comparing protein identifications from shotgun proteomics
-
D. L. Tabb, W. H. McDonald, and J. R. Yates III, "DTASelect and contrast: tools for assembling and comparing protein identifications from shotgun proteomics," Journal of Proteome Research, vol. 1, no. 1, pp. 21-26, 2002.
-
(2002)
Journal of Proteome Research
, vol.1
, Issue.1
, pp. 21-26
-
-
Tabb, D.L.1
McDonald, W.H.2
Yates Iii, J.R.3
-
7
-
-
0035106351
-
Large-scale analysis of the yeast proteome by multidimensional protein identification technology
-
DOI 10.1038/85686
-
M. P. Washburn, D. Wolters, and J. R. Yates III, "Large-scale analysis of the yeast proteome by multidimensional protein identification technology," Nature Biotechnology, vol. 19, no. 3, pp. 242-247, 2001. (Pubitemid 32220565)
-
(2001)
Nature Biotechnology
, vol.19
, Issue.3
, pp. 242-247
-
-
Washburn, M.P.1
Wolters, D.2
Yates, J.R.3
-
8
-
-
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
-
J. Peng, J. E. Elias, C. C. Thoreen, L. J. Licklider, and S. P. Gygi, "Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large-scale protein analysis: the yeast proteome," Journal of Proteome Research, vol. 2, no. 1, pp. 43-50, 2003. (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
-
9
-
-
14844360847
-
Probability-based evaluation of peptide and protein identifications from tandem mass spectrometry and SEQUEST analysis: The human proteome
-
DOI 10.1021/pr0498638
-
W.-J. Qian, T. Liu, M. E. Monroe, et al., "Probability-based evaluation of peptide and protein identifications from tandem mass spectrometry and SEQUEST analysis: the human pro-teome," Journal of Proteome Research, vol. 4, no. 1, pp. 53-62, 2005. (Pubitemid 40352578)
-
(2005)
Journal of Proteome Research
, vol.4
, Issue.1
, pp. 53-62
-
-
Qian, W.-J.1
Liu, T.2
Monroe, M.E.3
Strittmatter, E.F.4
Jacobs, J.M.5
Kangas, L.J.6
Petritis, K.7
Camp II, D.G.8
Smith, R.D.9
-
10
-
-
33847630405
-
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry
-
DOI 10.1038/nmeth1019, PII NMETH1019
-
J. E. Elias and S. P. Gygi, "Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry," Nature Methods, vol. 4, no. 3, pp. 207-214, 2007. (Pubitemid 46358868)
-
(2007)
Nature Methods
, vol.4
, Issue.3
, pp. 207-214
-
-
Elias, J.E.1
Gygi, S.P.2
-
11
-
-
61349150487
-
Predictions of peptides' retention times in reversed-phase liquid chromatography as a new supportive tool to improve protein identification in proteomics
-
T. Baçzek and R. Kaliszan, "Predictions of peptides' retention times in reversed-phase liquid chromatography as a new supportive tool to improve protein identification in proteomics," Proteomics, vol. 9, no. 4, pp. 835-847, 2009.
-
(2009)
Proteomics
, vol.9
, Issue.4
, pp. 835-847
-
-
Baçzek, T.1
Kaliszan, R.2
-
12
-
-
51949083217
-
Practical implementation of 2D HPLC scheme with accurate peptide retention prediction in both dimensions for high-throughput bottom-up proteomics
-
R. C. Dwivedi, V. Spicer, M. Harder, et al., "Practical implementation of 2D HPLC scheme with accurate peptide retention prediction in both dimensions for high-throughput bottom-up proteomics," Analytical Chemistry, vol. 80, no. 18, pp. 7036-7042, 2008.
-
(2008)
Analytical Chemistry
, vol.80
, Issue.18
, pp. 7036-7042
-
-
Dwivedi, R.C.1
Spicer, V.2
Harder, M.3
-
13
-
-
33746448330
-
Improved peptide elution time prediction for reversed-phase liquid chromatography-MS by incorporating peptide sequence information
-
DOI 10.1021/ac060143p
-
K. Petritis, L. J. Kangas, B. Yan, et al., "Improved pep-tide elution time prediction for reversed-phase liquid chromatography-MS by incorporating peptide sequence information," Analytical Chemistry, vol. 78, no. 14, pp. 5026-5039, 2006. (Pubitemid 44121117)
-
(2006)
Analytical Chemistry
, vol.78
, Issue.14
, pp. 5026-5039
-
-
Petritis, K.1
Kangas, L.J.2
Yan, B.3
Monroe, M.E.4
Strittmatter, E.F.5
Qian, W.-J.6
Adkins, J.N.7
Moore, R.J.8
Xu, Y.9
Lipton, M.S.10
Camp II, D.G.11
Smith, R.D.12
-
14
-
-
33751208935
-
Sequence-specific retention calculator. Algorithm for peptide retention prediction in ion-pair RP-HPLC: Application to 300- and 100-A pore size C18 sorbents
-
DOI 10.1021/ac060777w
-
O. V. Krokhin, "Sequence-specific retention calculator. Algorithm for peptide retention prediction in ion-pair RP-HPLC: application to 300-and 100-A pore size C18 sorbents," Analytical Chemistry, vol. 78, no. 22, pp. 7785-7795, 2006. (Pubitemid 44788723)
-
(2006)
Analytical Chemistry
, vol.78
, Issue.22
, pp. 7785-7795
-
-
Krokhin, O.V.1
-
15
-
-
34547495638
-
QSRR: Quantitative structure-(chromatographic) retention relationships
-
DOI 10.1021/cr068412z
-
R. Kaliszan, "QSRR: quantitative structure-(chro-matographic) retention relationships," Chemical Reviews, vol. 107, no. 7, pp. 3212-3246, 2007. (Pubitemid 47177110)
-
(2007)
Chemical Reviews
, vol.107
, Issue.7
, pp. 3212-3246
-
-
Kaliszan, R.1
-
17
-
-
0003798584
-
-
John Wiley & Sons, New York, NY, USA
-
R. Kaliszan, Quantitative Structure-Chromatographic Retention Relationships, John Wiley & Sons, New York, NY, USA, 1987.
-
(1987)
Quantitative Structure-Chromatographic Retention Relationships
-
-
Kaliszan, R.1
-
18
-
-
0018990802
-
Prediction of peptide retention times in high-pressure liquid chromatography on the basis of amino acid composition
-
J. L. Meek, "Prediction of peptide retention times in high-pressure liquid chromatography on the basis of amino acid composition," Proceedings of the National Academy of Sciences of the United States of America, vol. 77, no. 3, pp. 1632-1636, 1980.
-
(1980)
Proceedings of the National Academy of Sciences of the United States of America
, vol.77
, Issue.3
, pp. 1632-1636
-
-
Meek, J.L.1
-
19
-
-
0020427613
-
The isolation of peptides by high-performance liquid chromatography using predicted elution positions
-
DOI 10.1016/0003-2697(82)90238-X
-
C. A. Browne, H. P. J. Bennett, and S. Solomon, "The isolation of peptides by high-performance liquid chromatography using predicted elution positions," Analytical Biochemistry, vol. 124, no. 1, pp. 201-208, 1982. (Pubitemid 13250026)
-
(1982)
Analytical Biochemistry
, vol.124
, Issue.1
, pp. 201-208
-
-
Browne, C.A.1
Bennett, H.P.J.2
Solomon, S.3
-
20
-
-
0030005560
-
Comparative prediction of the retention behaviour of small peptides in several reversed-phase high-performance liquid chromatography columns by using partial least squares and multiple linear regression
-
V. Casal, P. J. Martin-Alvarez, and T. Herraiz, "Comparative prediction of the retention behaviour of small peptides in several reversed-phase high-performance liquid chromatography columns by using partial least squares and multiple linear regression," Analytica Chimica Acta, vol. 326, no. 1-3, pp. 77-84, 1996.
-
(1996)
Analytica Chimica Acta
, vol.326
, Issue.1-3
, pp. 77-84
-
-
Casal, V.1
Martin-Alvarez, P.J.2
Herraiz, T.3
-
21
-
-
0022452397
-
Prediction of peptide retention times in reversed-phase high-performance liquid chromatography. I. Determination of retention coefficients of amino acid residues of model synthetic peptides
-
D. Guo, C. T. Mant, A. K. Taneja, J. M. R. Parker, and R. S. Rodges, "Prediction of peptide retention times in reversed-phase high-performance liquid chromatography-I: determination of retention coefficients of amino acid residues of model synthetic peptides," Journal of Chromatography, vol. 359, pp. 499-517, 1986. (Pubitemid 16061421)
-
(1986)
Journal of Chromatography
, vol.359
, pp. 499-517
-
-
Guo, D.1
Mant, C.T.2
Taneja, A.K.3
-
22
-
-
0037112383
-
Prediction of chromatographic retention and protein identification in liquid chromatography/mass spectrometry
-
DOI 10.1021/ac0256890
-
M. Palmblad, M. Ramström, K. E. Markides, P. Hakansson, and J. Bergquist, "Prediction of chromatographic retention and protein identification in liquid chromatography/mass spectrometry," Analytical Chemistry, vol. 74, no. 22, pp. 5826-5830, 2002. (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
-
23
-
-
12444272753
-
Use of artificial neural networks for the accurate prediction of peptide liquid chromatography elution times in proteome analyses
-
DOI 10.1021/ac0205154
-
K. Petritis, L. J. Kangas, P. L. Ferguson, et al., "Use of artificial neural networks for the accurate prediction of peptide liquid chromatography elution times in proteome analyses," Analytical Chemistry, vol. 75, no. 5, pp. 1039-1048, 2003. (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
-
24
-
-
33845436279
-
Prediction of liquid chromatographic retention times of peptides generated by protease digestion of the Escherichia coli proteome usina artificial neural networks
-
DOI 10.1021/pr0602038
-
K. Shinoda, M. Sugimoto, N. Yachie, et al., "Prediction of liquid chromatographic retention times of peptides generated by protease digestion of the Escherichia coli proteome usina artificial neural networks," Journal of Proteome Research, vol. 5, no. 12, pp. 3312-3317, 2006. (Pubitemid 44904322)
-
(2006)
Journal of Proteome Research
, vol.5
, Issue.12
, pp. 3312-3317
-
-
Shinoda, K.1
Sugimoto, M.2
Yachie, N.3
Sugiyama, N.4
Masuda, T.5
Robert, M.6
Soga, T.7
Tomita, M.8
-
25
-
-
4444350538
-
Application of peptide LC retention time information in a discriminant function for peptide identification by tandem mass spectrometry
-
DOI 10.1021/pr049965y
-
E. F. Strittmatter, L. J. Kangas, K. Petritis, et al., "Application of peptide LC retention time information in a discriminant function for peptide identification by tandem mass spectrometry," Journal of Proteome Research, vol. 3, no. 4, pp. 760-769, 2004. (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
-
26
-
-
13844307725
-
Prediction of high-performance liquid chromatography retention of peptides with the use of quantitative structure-retention relationships
-
DOI 10.1002/pmic.200400973
-
R. Kaliszan, T. Baçzek, A. Cimochowska, P. Juszczyk, K. Wiśniewska, and Z. Grzonka, "Prediction of high-performance liquid chromatography retention of peptides with the use of quantitative structure-retention relationships," Proteomics, vol. 5, no. 2, pp. 409-415, 2005. (Pubitemid 40262057)
-
(2005)
Proteomics
, vol.5
, Issue.2
, pp. 409-415
-
-
Kaliszan, R.1
Baczek, T.2
Cimochowska, A.3
Juszczyk, P.4
Wisniewska, K.5
Grzonka, Z.6
-
27
-
-
17444419756
-
Prediction of peptide retention at different HPLC conditions from multiple linear regression models
-
DOI 10.1021/pr049780r
-
T. Baçzek, P. Wiczling, M. Marszałł, Y. Vander Heyden, and R. Kaliszan, "Prediction of peptide retention at different HPLC conditions from multiple linear regression models," Journal of Proteome Research, vol. 4, no. 2, pp. 555-563, 2005. (Pubitemid 40548163)
-
(2005)
Journal of Proteome Research
, vol.4
, Issue.2
, pp. 555-563
-
-
Baczek, T.1
Wiczling, P.2
Marszall, M.3
Heyden, Y.V.4
Kaliszan, R.5
-
28
-
-
34548247682
-
Identification of peptides in proteomics supported by prediction of peptide retention by means of quantitative structure-retention relationships
-
T. Baçzek, C. Temporini, E. Perani, G. Massolini, and R. Kaliszan, "Identification of peptides in proteomics supported by prediction of peptide retention by means of quantitative structure-retention relationships," Acta Chromatographica, no. 18, pp. 72-92, 2007.
-
(2007)
Acta Chromatographica
, Issue.18
, pp. 72-92
-
-
Baçzek, T.1
Temporini, C.2
Perani, E.3
Massolini, G.4
Kaliszan, R.5
-
29
-
-
36148929818
-
Comparative evaluation of high-performance liquid chromatography stationary phases used for the separation of peptides in terms of quantitative structure-retention relationships
-
DOI 10.1016/j.chroma.2007.10.002, PII S0021967307017001
-
M. Michel, T. Baçzek, S. Studzińska, et al., "Comparative evaluation of high-performance liquid chromatography stationary phases used for the separation of peptides in terms of quantitative structure-retention relationships," Journal of Chromatography A, vol. 1175, no. 1, pp. 49-54, 2007. (Pubitemid 350116825)
-
(2007)
Journal of Chromatography A
, vol.1175
, Issue.1
, pp. 49-54
-
-
Michel, M.1
Baczek, T.2
Studzinska, S.3
Bodzioch, K.4
Jonsson, T.5
Kaliszan, R.6
Buszewski, B.7
-
30
-
-
58349115834
-
Standardization of retention time data for AMT tag proteomics database generation
-
I. A. Tarasova, V. Guryca, M. L. Pridatchenko, et al., "Standardization of retention time data for AMT tag proteomics database generation," Journal of Chromatography B, vol. 877, no. 4, pp. 433-440, 2009.
-
(2009)
Journal of Chromatography B
, vol.877
, Issue.4
, pp. 433-440
-
-
Tarasova, I.A.1
Guryca, V.2
Pridatchenko, M.L.3
-
31
-
-
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
-
O. V. Krokhin, R. Craig, V. Spicer, et al., "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," Molecular and Cellular Proteomics, vol. 3, no. 9, pp. 908-919, 2004. (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
-
32
-
-
65949098656
-
Comparison of 1-D and 2-D LC MS/MS methods for proteomic analysis of human serum
-
M. Gilar, P. Olivova, A. B. Chakraborty, A. Jaworski, S. J. Geromanos, and J. C. Gebler, "Comparison of 1-D and 2-D LC MS/MS methods for proteomic analysis of human serum," Electrophoresis, vol. 30, no. 7, pp. 1157-1167, 2009.
-
(2009)
Electrophoresis
, vol.30
, Issue.7
, pp. 1157-1167
-
-
Gilar, M.1
Olivova, P.2
Chakraborty, A.B.3
Jaworski, A.4
Geromanos, S.J.5
Gebler, J.C.6
-
33
-
-
23844513418
-
Structure and properties of the C-terminal domain of insulin-like growth factor-binding protein-1 isolated from human amniotic fluid
-
DOI 10.1074/jbc.M504304200
-
A. Sala, S. Capaldi, M. Campagnoli, et al., "Structure and properties of the C-terminal domain of insulin-like growth factor-binding protein-1 isolated from human amniotic fluid," Journal of Biological Chemistry, vol. 280, no. 33, pp. 29812-29819, 2005. (Pubitemid 41177059)
-
(2005)
Journal of Biological Chemistry
, vol.280
, Issue.33
, pp. 29812-29819
-
-
Sala, A.1
Capaldi, S.2
Campagnoli, M.3
Faggion, B.4
Labo, S.5
Perduca, M.6
Romano, A.7
Carrizo, M.E.8
Valli, M.9
Visai, L.10
Minchiotti, L.11
Galliano, M.12
Monaco, H.L.13
-
34
-
-
67849106283
-
The molecular descriptor log SumAA and its alternatives in QSRR models to predict the retention of peptides
-
K. Bodzioch, T. Baçzek, R. Kaliszan, and Y. Vander Heyden, "The molecular descriptor log SumAA and its alternatives in QSRR models to predict the retention of peptides," Journal of Pharmaceutical and Biomedical Analysis, vol. 50, no. 4, pp. 563-569, 2009.
-
(2009)
Journal of Pharmaceutical and Biomedical Analysis
, vol.50
, Issue.4
, pp. 563-569
-
-
Bodzioch, K.1
Baçzek, T.2
Kaliszan, R.3
Vander Heyden, Y.4
|