-
1
-
-
1042264075
-
Protein sequence databases
-
Apweiler, R.; Bairoch, A.; Wu, C. H. Protein sequence databases Curr. Opin. Chem. Biol. 2004, 8 (1) 76-80
-
(2004)
Curr. Opin. Chem. Biol.
, vol.8
, Issue.1
, pp. 76-80
-
-
Apweiler, R.1
Bairoch, A.2
Wu, C.H.3
-
2
-
-
0033434080
-
Probability-based protein identification by searching sequence databases using mass spectrometry data
-
Perkins, D. N.; Pappin, D. J.; Creasy, D. M.; Cottrell, J. S. Probability-based protein identification by searching sequence databases using mass spectrometry data Electrophoresis 1999, 20 (18) 3551-67
-
(1999)
Electrophoresis
, vol.20
, Issue.18
, pp. 3551-3567
-
-
Perkins, D.N.1
Pappin, D.J.2
Creasy, D.M.3
Cottrell, J.S.4
-
3
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
Eng, J. An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database J. Am. Soc. Mass Spectrom. 1994, 5 (11) 976-89
-
(1994)
J. Am. Soc. Mass Spectrom.
, vol.5
, Issue.11
, pp. 976-989
-
-
Eng, J.1
-
4
-
-
0141955057
-
A method for reducing the time required to match protein sequences with tandem mass spectra
-
Craig, R.; Beavis, R. C. A method for reducing the time required to match protein sequences with tandem mass spectra Rapid Commun. Mass Spectrom. 2003, 17 (20) 2310-6
-
(2003)
Rapid Commun. Mass Spectrom.
, vol.17
, Issue.20
, pp. 2310-2316
-
-
Craig, R.1
Beavis, R.C.2
-
5
-
-
3142702204
-
TANDEM: Matching proteins with tandem mass spectra
-
Craig, R.; Beavis, R. C. TANDEM: matching proteins with tandem mass spectra Bioinformatics 2004, 20 (9) 1466-7
-
(2004)
Bioinformatics
, vol.20
, Issue.9
, pp. 1466-1467
-
-
Craig, R.1
Beavis, R.C.2
-
6
-
-
4444237022
-
Exploiting the kernel trick to correlate fragment ions for peptide identification via tandem mass spectrometry
-
Fu, Y.; Yang, Q.; Sun, R.; Li, D.; Zeng, R.; Ling, C. X.; Gao, W. Exploiting the kernel trick to correlate fragment ions for peptide identification via tandem mass spectrometry Bioinformatics 2004, 20 (12) 1948-54
-
(2004)
Bioinformatics
, vol.20
, Issue.12
, pp. 1948-1954
-
-
Fu, Y.1
Yang, Q.2
Sun, R.3
Li, D.4
Zeng, R.5
Ling, C.X.6
Gao, W.7
-
7
-
-
21444449702
-
PFind: A novel database-searching software system for automated peptide and protein identification via tandem mass spectrometry
-
Li, D.; Fu, Y.; Sun, R.; Ling, C. X.; Wei, Y.; Zhou, H.; Zeng, R.; Yang, Q.; He, S.; Gao, W. pFind: a novel database-searching software system for automated peptide and protein identification via tandem mass spectrometry Bioinformatics 2005, 21 (13) 3049-50
-
(2005)
Bioinformatics
, vol.21
, Issue.13
, pp. 3049-3050
-
-
Li, D.1
Fu, Y.2
Sun, R.3
Ling, C.X.4
Wei, Y.5
Zhou, H.6
Zeng, R.7
Yang, Q.8
He, S.9
Gao, W.10
-
8
-
-
34548620571
-
PFind 2.0: A software package for peptide and protein identification via tandem mass spectrometry
-
Wang, L. H.; Li, D. Q.; Fu, Y.; Wang, H. P.; Zhang, J. F.; Yuan, Z. F.; Sun, R. X.; Zeng, R.; He, S. M.; Gao, W. pFind 2.0: a software package for peptide and protein identification via tandem mass spectrometry Rapid Commun. Mass Spectrom. 2007, 21 (18) 2985-91
-
(2007)
Rapid Commun. Mass Spectrom.
, vol.21
, Issue.18
, pp. 2985-2991
-
-
Wang, L.H.1
Li, D.Q.2
Fu, Y.3
Wang, H.P.4
Zhang, J.F.5
Yuan, Z.F.6
Sun, R.X.7
Zeng, R.8
He, S.M.9
Gao, W.10
-
9
-
-
3042735333
-
High-performance peptide identification by tandem mass spectrometry allows reliable automatic data processing in proteomics
-
Colinge, J.; Masselot, A.; Cusin, I.; Mahe, E.; Niknejad, A.; Argoud-Puy, G.; Reffas, S.; Bederr, N.; Gleizes, A.; Rey, P. A.; Bougueleret, L. High-performance peptide identification by tandem mass spectrometry allows reliable automatic data processing in proteomics Proteomics 2004, 4 (7) 1977-84
-
(2004)
Proteomics
, vol.4
, Issue.7
, pp. 1977-1984
-
-
Colinge, J.1
Masselot, A.2
Cusin, I.3
Mahe, E.4
Niknejad, A.5
Argoud-Puy, G.6
Reffas, S.7
Bederr, N.8
Gleizes, A.9
Rey, P.A.10
Bougueleret, L.11
-
10
-
-
0041358793
-
OLAV: Towards high-throughput tandem mass spectrometry data identification
-
Colinge, J.; Masselot, A.; Giron, M.; Dessingy, T.; Magnin, J. OLAV: towards high-throughput tandem mass spectrometry data identification Proteomics 2003, 3 (8) 1454-63
-
(2003)
Proteomics
, vol.3
, Issue.8
, pp. 1454-1463
-
-
Colinge, J.1
Masselot, A.2
Giron, M.3
Dessingy, T.4
Magnin, J.5
-
11
-
-
7044246160
-
Open mass spectrometry search algorithm
-
Geer, L. Y.; Markey, S. P.; Kowalak, J. A.; Wagner, L.; Xu, M.; Maynard, D. M.; Yang, X.; Shi, W.; Bryant, S. H. Open mass spectrometry search algorithm J. Proteome Res. 2004, 3 (5) 958-64
-
(2004)
J. Proteome Res.
, vol.3
, Issue.5
, pp. 958-964
-
-
Geer, L.Y.1
Markey, S.P.2
Kowalak, J.A.3
Wagner, L.4
Xu, M.5
Maynard, D.M.6
Yang, X.7
Shi, W.8
Bryant, S.H.9
-
12
-
-
12344266755
-
Algorithms for de novo peptide sequencing via tandem mass spectrometry
-
Lu, B.; Chen, T. Algorithms for de novo peptide sequencing via tandem mass spectrometry Biosilico 2004, 2 (2) 85-90
-
(2004)
Biosilico
, vol.2
, Issue.2
, pp. 85-90
-
-
Lu, B.1
Chen, T.2
-
13
-
-
0032750293
-
De novo peptide sequencing via tandem mass spectrometry
-
Dancik, V.; Addona, T. A.; Clauser, K. R.; Vath, J. E.; Pevzner, P. A. De novo peptide sequencing via tandem mass spectrometry J. Comput. Biol. 1999, 6 (3-4) 327-42
-
(1999)
J. Comput. Biol.
, vol.6
, Issue.3-4
, pp. 327-342
-
-
Dancik, V.1
Addona, T.A.2
Clauser, K.R.3
Vath, J.E.4
Pevzner, P.A.5
-
14
-
-
13844319908
-
PepNovo: De novo peptide sequencing via probabilistic network modeling
-
Frank, A.; Pevzner, P. PepNovo: de novo peptide sequencing via probabilistic network modeling Anal. Chem. 2005, 77 (4) 964-73
-
(2005)
Anal. Chem.
, vol.77
, Issue.4
, pp. 964-973
-
-
Frank, A.1
Pevzner, P.2
-
15
-
-
0141989734
-
PEAKS: Powerful software for peptide de novo sequencing by tandem mass spectrometry
-
Ma, B.; Zhang, K.; Hendrie, C.; Liang, C.; Li, M.; Doherty-Kirby, A.; Lajoie, G. PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry Rapid Commun. Mass Spectrom. 2003, 17 (20) 2337-42
-
(2003)
Rapid Commun. Mass Spectrom.
, vol.17
, Issue.20
, pp. 2337-2342
-
-
Ma, B.1
Zhang, K.2
Hendrie, C.3
Liang, C.4
Li, M.5
Doherty-Kirby, A.6
Lajoie, G.7
-
16
-
-
0030959279
-
Sequence database searches via de novo peptide sequencing by tandem mass spectrometry
-
Taylor, J. A.; Johnson, R. S. Sequence database searches via de novo peptide sequencing by tandem mass spectrometry Rapid Commun. Mass Spectrom. 1997, 11 (9) 1067-75
-
(1997)
Rapid Commun. Mass Spectrom.
, vol.11
, Issue.9
, pp. 1067-1075
-
-
Taylor, J.A.1
Johnson, R.S.2
-
17
-
-
26844526643
-
AUDENS: A tool for automated peptide de novo sequencing
-
DOI 10.1021/pr050070a
-
Grossmann, J.; Roos, F. F.; Cieliebak, M.; Liptak, Z.; Mathis, L. K.; Muller, M.; Gruissem, W.; Baginsky, S. AUDENS: a tool for automated peptide de novo sequencing J. Proteome Res. 2005, 4 (5) 1768-74 (Pubitemid 41464805)
-
(2005)
Journal of Proteome Research
, vol.4
, Issue.5
, pp. 1768-1774
-
-
Grossmann, J.1
Roos, F.F.2
Cieliebak, M.3
Liptak, Z.4
Mathis, L.K.5
Muller, M.6
Gruissem, W.7
Baginsky, S.8
-
18
-
-
34447323085
-
MSNovo: A dynamic programming algorithm for de novo peptide sequencing via tandem mass spectrometry
-
Mo, L.; Dutta, D.; Wan, Y.; Chen, T. MSNovo: a dynamic programming algorithm for de novo peptide sequencing via tandem mass spectrometry Anal. Chem. 2007, 79 (13) 4870-8
-
(2007)
Anal. Chem.
, vol.79
, Issue.13
, pp. 4870-4878
-
-
Mo, L.1
Dutta, D.2
Wan, Y.3
Chen, T.4
-
19
-
-
0031735805
-
Automated interpretation of high-energy collision-induced dissociation spectra of singly protonated peptides by SeqMS, a software aid for de novo sequencing by tandem mass spectrometry
-
Fernandez-de-Cossio, J.; Gonzalez, J.; Betancourt, L.; Besada, V.; Padron, G.; Shimonishi, Y.; Takao, T. Automated interpretation of high-energy collision-induced dissociation spectra of singly protonated peptides by SeqMS, a software aid for de novo sequencing by tandem mass spectrometry Rapid Commun. Mass Spectrom. 1998, 12 (23) 1867-78
-
(1998)
Rapid Commun. Mass Spectrom.
, vol.12
, Issue.23
, pp. 1867-1878
-
-
Fernandez-De-Cossio, J.1
Gonzalez, J.2
Betancourt, L.3
Besada, V.4
Padron, G.5
Shimonishi, Y.6
Takao, T.7
-
20
-
-
0034091489
-
Automated interpretation of low-energy collision-induced dissociation spectra by SeqMS, a software aid for de novo sequencing by tandem mass spectrometry
-
Fernandez-de-Cossio, J.; Gonzalez, J.; Satomi, Y.; Shima, T.; Okumura, N.; Besada, V.; Betancourt, L.; Padron, G.; Shimonishi, Y.; Takao, T. Automated interpretation of low-energy collision-induced dissociation spectra by SeqMS, a software aid for de novo sequencing by tandem mass spectrometry Electrophoresis 2000, 21 (9) 1694-9
-
(2000)
Electrophoresis
, vol.21
, Issue.9
, pp. 1694-1699
-
-
Fernandez-De-Cossio, J.1
Gonzalez, J.2
Satomi, Y.3
Shima, T.4
Okumura, N.5
Besada, V.6
Betancourt, L.7
Padron, G.8
Shimonishi, Y.9
Takao, T.10
-
21
-
-
34548613589
-
Peptide Fragment Ion Analyser (PFIA): A simple and versatile tool for the interpretation of tandem mass spectrometric data and de novo sequencing of peptides
-
Jagannath, S.; Sabareesh, V. Peptide Fragment Ion Analyser (PFIA): a simple and versatile tool for the interpretation of tandem mass spectrometric data and de novo sequencing of peptides Rapid Commun. Mass Spectrom. 2007, 21 (18) 3033-8
-
(2007)
Rapid Commun. Mass Spectrom.
, vol.21
, Issue.18
, pp. 3033-3038
-
-
Jagannath, S.1
Sabareesh, V.2
-
22
-
-
27944456862
-
NovoHMM: A hidden Markov model for de novo peptide sequencing
-
Fischer, B.; Roth, V.; Roos, F.; Grossmann, J.; Baginsky, S.; Widmayer, P.; Gruissem, W.; Buhmann, J. M. NovoHMM: a hidden Markov model for de novo peptide sequencing Anal. Chem. 2005, 77 (22) 7265-73
-
(2005)
Anal. Chem.
, vol.77
, Issue.22
, pp. 7265-7273
-
-
Fischer, B.1
Roth, V.2
Roos, F.3
Grossmann, J.4
Baginsky, S.5
Widmayer, P.6
Gruissem, W.7
Buhmann, J.M.8
-
23
-
-
0034814613
-
A dynamic programming approach to de novo peptide sequencing via tandem mass spectrometry
-
Chen, T.; Kao, M. Y.; Tepel, M.; Rush, J.; Church, G. M. A dynamic programming approach to de novo peptide sequencing via tandem mass spectrometry J. Comput. Biol. 2001, 8 (3) 325-37
-
(2001)
J. Comput. Biol.
, vol.8
, Issue.3
, pp. 325-337
-
-
Chen, T.1
Kao, M.Y.2
Tepel, M.3
Rush, J.4
Church, G.M.5
-
24
-
-
0037223678
-
A suboptimal algorithm for de novo peptide sequencing via tandem mass spectrometry
-
Lu, B.; Chen, T. A suboptimal algorithm for de novo peptide sequencing via tandem mass spectrometry J. Comput. Biol. 2003, 10 (1) 1-12
-
(2003)
J. Comput. Biol.
, vol.10
, Issue.1
, pp. 1-12
-
-
Lu, B.1
Chen, T.2
-
25
-
-
46049091563
-
On preprocessing and antisymmetry in de novo peptide sequencing: Improving efficiency and accuracy
-
Ning, K.; Ye, N.; Leong, H. W. On preprocessing and antisymmetry in de novo peptide sequencing: improving efficiency and accuracy J. Bioinform. Comput. Biol. 2008, 6 (3) 467-92
-
(2008)
J. Bioinform. Comput. Biol.
, vol.6
, Issue.3
, pp. 467-492
-
-
Ning, K.1
Ye, N.2
Leong, H.W.3
-
26
-
-
33846600820
-
De novo peptide sequencing and identification with precision mass spectrometry
-
Frank, A. M.; Savitski, M. M.; Nielsen, M. L.; Zubarev, R. A.; Pevzner, P. A. De novo peptide sequencing and identification with precision mass spectrometry J. Proteome Res. 2007, 6 (1) 114-23
-
(2007)
J. Proteome Res.
, vol.6
, Issue.1
, pp. 114-123
-
-
Frank, A.M.1
Savitski, M.M.2
Nielsen, M.L.3
Zubarev, R.A.4
Pevzner, P.A.5
-
27
-
-
29144437803
-
Proteomics-grade de novo sequencing approach
-
Savitski, M. M.; Nielsen, M. L.; Kjeldsen, F.; Zubarev, R. A. Proteomics-grade de novo sequencing approach J. Proteome Res. 2005, 4 (6) 2348-54
-
(2005)
J. Proteome Res.
, vol.4
, Issue.6
, pp. 2348-2354
-
-
Savitski, M.M.1
Nielsen, M.L.2
Kjeldsen, F.3
Zubarev, R.A.4
-
28
-
-
2342593352
-
De novo sequencing, peptide composition analysis, and composition-based sequencing: A new strategy employing accurate mass determination by fourier transform ion cyclotron resonance mass spectrometry
-
Spengler, B. De novo sequencing, peptide composition analysis, and composition-based sequencing: a new strategy employing accurate mass determination by fourier transform ion cyclotron resonance mass spectrometry J. Am. Soc. Mass Spectrom. 2004, 15 (5) 703-14
-
(2004)
J. Am. Soc. Mass Spectrom.
, vol.15
, Issue.5
, pp. 703-714
-
-
Spengler, B.1
-
29
-
-
43549095027
-
Electron capture/transfer versus collisionally activated/induced dissociations: Solo or duet
-
Zubarev, R. A.; Zubarev, A. R.; Savitski, M. M. Electron capture/transfer versus collisionally activated/induced dissociations: solo or duet J. Am. Soc. Mass Spectrom. 2008, 19 (6) 753-61
-
(2008)
J. Am. Soc. Mass Spectrom.
, vol.19
, Issue.6
, pp. 753-761
-
-
Zubarev, R.A.1
Zubarev, A.R.2
Savitski, M.M.3
-
30
-
-
0034641742
-
Automated de novo sequencing of proteins by tandem high-resolution mass spectrometry
-
Horn, D. M.; Zubarev, R. A.; McLafferty, F. W. Automated de novo sequencing of proteins by tandem high-resolution mass spectrometry Proc. Natl. Acad. Sci. U.S.A. 2000, 97 (19) 10313-7
-
(2000)
Proc. Natl. Acad. Sci. U.S.A.
, vol.97
, Issue.19
, pp. 10313-10317
-
-
Horn, D.M.1
Zubarev, R.A.2
McLafferty, F.W.3
-
31
-
-
70349207551
-
Spectrum fusion: Using multiple mass spectra for de novo Peptide sequencing
-
Datta, R.; Bern, M. Spectrum fusion: using multiple mass spectra for de novo Peptide sequencing J. Comput. Biol. 2009, 16 (8) 1169-82
-
(2009)
J. Comput. Biol.
, vol.16
, Issue.8
, pp. 1169-1182
-
-
Datta, R.1
Bern, M.2
-
32
-
-
58149265516
-
A comparative study of the accuracy of several de novo sequencing software packages for datasets derived by matrix-assisted laser desorption/ionisation and electrospray
-
Bringans, S.; Kendrick, T. S.; Lui, J.; Lipscombe, R. A comparative study of the accuracy of several de novo sequencing software packages for datasets derived by matrix-assisted laser desorption/ionisation and electrospray Rapid Commun. Mass Spectrom. 2008, 22 (21) 3450-4
-
(2008)
Rapid Commun. Mass Spectrom.
, vol.22
, Issue.21
, pp. 3450-3454
-
-
Bringans, S.1
Kendrick, T.S.2
Lui, J.3
Lipscombe, R.4
-
33
-
-
33751068791
-
Performance evaluation of existing de novo sequencing algorithms
-
Pevtsov, S.; Fedulova, I.; Mirzaei, H.; Buck, C.; Zhang, X. Performance evaluation of existing de novo sequencing algorithms J. Proteome Res. 2006, 5 (11) 3018-28
-
(2006)
J. Proteome Res.
, vol.5
, Issue.11
, pp. 3018-3028
-
-
Pevtsov, S.1
Fedulova, I.2
Mirzaei, H.3
Buck, C.4
Zhang, X.5
-
34
-
-
34748910256
-
Assessing peptide de novo sequencing algorithms performance on large and diverse data sets
-
Pitzer, E.; Masselot, A.; Colinge, J. Assessing peptide de novo sequencing algorithms performance on large and diverse data sets Proteomics 2007, 7 (17) 3051-4
-
(2007)
Proteomics
, vol.7
, Issue.17
, pp. 3051-3054
-
-
Pitzer, E.1
Masselot, A.2
Colinge, J.3
-
35
-
-
0028575316
-
Error-tolerant identification of peptides in sequence databases by peptide sequence tags
-
Mann, M.; Wilm, M. Error-tolerant identification of peptides in sequence databases by peptide sequence tags Anal. Chem. 1994, 66 (24) 4390-9
-
(1994)
Anal. Chem.
, vol.66
, Issue.24
, pp. 4390-4399
-
-
Mann, M.1
Wilm, M.2
-
36
-
-
0037444813
-
MultiTag: Multiple error-tolerant sequence tag search for the sequence-similarity identification of proteins by mass spectrometry
-
Sunyaev, S.; Liska, A. J.; Golod, A.; Shevchenko, A.; Shevchenko, A. MultiTag: multiple error-tolerant sequence tag search for the sequence-similarity identification of proteins by mass spectrometry Anal. Chem. 2003, 75 (6) 1307-15
-
(2003)
Anal. Chem.
, vol.75
, Issue.6
, pp. 1307-1315
-
-
Sunyaev, S.1
Liska, A.J.2
Golod, A.3
Shevchenko, A.4
Shevchenko, A.5
-
37
-
-
0345600791
-
3rd, GutenTag: High-throughput sequence tagging via an empirically derived fragmentation model
-
Tabb, D. L.; Saraf, A.; Yates, J. R. 3rd, GutenTag: high-throughput sequence tagging via an empirically derived fragmentation model Anal. Chem. 2003, 75 (23) 6415-21
-
(2003)
Anal. Chem.
, vol.75
, Issue.23
, pp. 6415-6421
-
-
Tabb, D.L.1
Saraf, A.2
Yates III, J.R.3
-
38
-
-
27544511899
-
InsPecT: Identification of posttranslationally modified peptides from tandem mass spectra
-
Tanner, S.; Shu, H.; Frank, A.; Wang, L. C.; Zandi, E.; Mumby, M.; Pevzner, P. A.; Bafna, V. InsPecT: identification of posttranslationally modified peptides from tandem mass spectra Anal. Chem. 2005, 77 (14) 4626-39
-
(2005)
Anal. Chem.
, 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
-
39
-
-
34848889259
-
The Paragon Algorithm, a next generation search engine that uses sequence temperature values and feature probabilities to identify peptides from tandem mass spectra
-
Shilov, I. V.; Seymour, S. L.; Patel, A. A.; Loboda, A.; Tang, W. H.; Keating, S. P.; Hunter, C. L.; Nuwaysir, L. M.; Schaeffer, D. A. The Paragon Algorithm, a next generation search engine that uses sequence temperature values and feature probabilities to identify peptides from tandem mass spectra Mol. Cell. Proteomics 2007, 6 (9) 1638-55
-
(2007)
Mol. Cell. Proteomics
, vol.6
, Issue.9
, pp. 1638-1655
-
-
Shilov, I.V.1
Seymour, S.L.2
Patel, A.A.3
Loboda, A.4
Tang, W.H.5
Keating, S.P.6
Hunter, C.L.7
Nuwaysir, L.M.8
Schaeffer, D.A.9
-
40
-
-
59149096107
-
Spectral dictionaries: Integrating de novo peptide sequencing with database search of tandem mass spectra
-
Kim, S.; Gupta, N.; Bandeira, N.; Pevzner, P. A. Spectral dictionaries: Integrating de novo peptide sequencing with database search of tandem mass spectra Mol. Cell. Proteomics 2009, 8, 53-69
-
(2009)
Mol. Cell. Proteomics
, vol.8
, pp. 53-69
-
-
Kim, S.1
Gupta, N.2
Bandeira, N.3
Pevzner, P.A.4
-
41
-
-
34548336772
-
Higher-energy C-trap dissociation for peptide modification analysis
-
Olsen, J. V.; Macek, B.; Lange, O.; Makarov, A.; Horning, S.; Mann, M. Higher-energy C-trap dissociation for peptide modification analysis Nat. Methods 2007, 4 (9) 709-12
-
(2007)
Nat. Methods
, vol.4
, Issue.9
, pp. 709-712
-
-
Olsen, J.V.1
MacEk, B.2
Lange, O.3
Makarov, A.4
Horning, S.5
Mann, M.6
-
42
-
-
0000183664
-
Low-mass ions produced from peptides by high-energy collision-induced dissociation in tandem mass-spectrometry
-
Falick, A. M.; Hines, W. M.; Medzihradszky, K. F.; Baldwin, M. A.; Gibson, B. W. Low-mass ions produced from peptides by high-energy collision-induced dissociation in tandem mass-spectrometry J. Am. Soc. Mass Spectrom. 1993, 4 (11) 882-93
-
(1993)
J. Am. Soc. Mass Spectrom.
, vol.4
, Issue.11
, pp. 882-893
-
-
Falick, A.M.1
Hines, W.M.2
Medzihradszky, K.F.3
Baldwin, M.A.4
Gibson, B.W.5
-
43
-
-
17644368549
-
The probability distribution for a random match between an experimental-theoretical spectral pair in tandem mass spectrometry
-
Fridman, T.; Razumovskaya, J.; Verberkmoes, N.; Hurst, G.; Protopopescu, V.; Xu, Y. The probability distribution for a random match between an experimental-theoretical spectral pair in tandem mass spectrometry J. Bioinform. Comput. Biol. 2005, 3 (2) 455-76
-
(2005)
J. Bioinform. Comput. Biol.
, vol.3
, Issue.2
, pp. 455-476
-
-
Fridman, T.1
Razumovskaya, J.2
Verberkmoes, N.3
Hurst, G.4
Protopopescu, V.5
Xu, Y.6
-
44
-
-
63049091003
-
Bayesian nonparametric model for the validation of peptide identification in shotgun proteomics
-
Zhang, J.; Ma, J.; Dou, L.; Wu, S.; Qian, X.; Xie, H.; Zhu, Y.; He, F. Bayesian nonparametric model for the validation of peptide identification in shotgun proteomics Mol. Cell. Proteomics 2009, 8 (3) 547-57
-
(2009)
Mol. Cell. Proteomics
, vol.8
, Issue.3
, pp. 547-557
-
-
Zhang, J.1
Ma, J.2
Dou, L.3
Wu, S.4
Qian, X.5
Xie, H.6
Zhu, Y.7
He, F.8
-
45
-
-
0036684101
-
Comparison of three directly coupled HPLC MS/MS strategies for identification of proteins from complex mixtures: Single-dimension LC-MS/MS, 2-phase MudPIT, and 3-phase MudPIT
-
McDonald, W. H.; Ohi, R.; Miyamoto, D. T.; Mitchison, T. J.; Yates, J. R. Comparison of three directly coupled HPLC MS/MS strategies for identification of proteins from complex mixtures: single-dimension LC-MS/MS, 2-phase MudPIT, and 3-phase MudPIT Int. J. Mass Spectrom. 2002, 219 (1) 245-251
-
(2002)
Int. J. Mass Spectrom.
, vol.219
, Issue.1
, pp. 245-251
-
-
McDonald, W.H.1
Ohi, R.2
Miyamoto, D.T.3
Mitchison, T.J.4
Yates III, J.R.5
-
46
-
-
0001116877
-
Binary codes capable of correcting deletions, insertions, and reversals
-
Levenshtein, V. Binary codes capable of correcting deletions, insertions, and reversals Sov. Phys.-Dokl 1966, 10 (8) 707-710
-
(1966)
Sov. Phys.-Dokl
, vol.10
, Issue.8
, pp. 707-710
-
-
Levenshtein, V.1
-
47
-
-
0016518897
-
Efficient string matching: An aid to bibliographic search
-
Aho, A.; Corasick, M. Efficient string matching: an aid to bibliographic search Commun. ACM 1975, 18 (6) 333-40
-
(1975)
Commun. ACM
, vol.18
, Issue.6
, pp. 333-340
-
-
Aho, A.1
Corasick, M.2
-
48
-
-
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.; Aebersold, R. Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search Anal. Chem. 2002, 74 (20) 5383-92
-
(2002)
Anal. Chem.
, vol.74
, Issue.20
, pp. 5383-5392
-
-
Keller, A.1
Nesvizhskii, A.I.2
Kolker, E.3
Aebersold, R.4
-
49
-
-
0037442649
-
A method for assessing the statistical significance of mass spectrometry-based protein identifications using general scoring schemes
-
Fenyo, D.; Beavis, R. C. A method for assessing the statistical significance of mass spectrometry-based protein identifications using general scoring schemes Anal. Chem. 2003, 75 (4) 768-74
-
(2003)
Anal. Chem.
, vol.75
, Issue.4
, pp. 768-774
-
-
Fenyo, D.1
Beavis, R.C.2
-
50
-
-
33847630405
-
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry
-
Elias, J. E.; Gygi, S. P. Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry Nat. Methods 2007, 4 (3) 207-14
-
(2007)
Nat. Methods
, vol.4
, Issue.3
, pp. 207-214
-
-
Elias, J.E.1
Gygi, S.P.2
-
51
-
-
50149117169
-
Spectral probabilities and generating functions of tandem mass spectra: A strike against decoy databases
-
Kim, S.; Gupta, N.; Pevzner, P. A. Spectral probabilities and generating functions of tandem mass spectra: a strike against decoy databases J. Proteome Res. 2008, 7 (8) 3354-63
-
(2008)
J. Proteome Res.
, vol.7
, Issue.8
, pp. 3354-3363
-
-
Kim, S.1
Gupta, N.2
Pevzner, P.A.3
-
52
-
-
67650535647
-
Spectral profiles, a novel representation of tandem mass spectra and their applications for de novo peptide sequencing and identification
-
Kim, S.; Bandeira, N.; Pevzner, P. A. Spectral profiles, a novel representation of tandem mass spectra and their applications for de novo peptide sequencing and identification Mol. Cell. Proteomics 2009, 8 (6) 1391-400
-
(2009)
Mol. Cell. Proteomics
, vol.8
, Issue.6
, pp. 1391-1400
-
-
Kim, S.1
Bandeira, N.2
Pevzner, P.A.3
-
53
-
-
66149129985
-
Straightforward and de novo peptide sequencing by MALDI-MS/MS using a Lys-N metalloendopeptidase
-
Boersema, P. J.; Taouatas, N.; Altelaar, A. F.; Gouw, J. W.; Ross, P. L.; Pappin, D. J.; Heck, A. J.; Mohammed, S. Straightforward and de novo peptide sequencing by MALDI-MS/MS using a Lys-N metalloendopeptidase Mol. Cell. Proteomics 2009, 8 (4) 650-60
-
(2009)
Mol. Cell. Proteomics
, vol.8
, Issue.4
, pp. 650-660
-
-
Boersema, P.J.1
Taouatas, N.2
Altelaar, A.F.3
Gouw, J.W.4
Ross, P.L.5
Pappin, D.J.6
Heck, A.J.7
Mohammed, S.8
-
54
-
-
34249780156
-
Shotgun protein sequencing: Assembly of peptide tandem mass spectra from mixtures of modified proteins
-
Bandeira, N.; Clauser, K. R.; Pevzner, P. A. Shotgun protein sequencing: assembly of peptide tandem mass spectra from mixtures of modified proteins Mol. Cell. Proteomics 2007, 6 (7) 1123-34
-
(2007)
Mol. Cell. Proteomics
, vol.6
, Issue.7
, pp. 1123-1134
-
-
Bandeira, N.1
Clauser, K.R.2
Pevzner, P.A.3
-
55
-
-
69949152299
-
Automated protein (re)sequencing with MS/MS and a homologous database yields almost full coverage and accuracy
-
Liu, X.; Han, Y.; Yuen, D.; Ma, B. Automated protein (re)sequencing with MS/MS and a homologous database yields almost full coverage and accuracy Bioinformatics 2009, 25 (17) 2174-80
-
(2009)
Bioinformatics
, vol.25
, Issue.17
, pp. 2174-2180
-
-
Liu, X.1
Han, Y.2
Yuen, D.3
Ma, B.4
|