-
1
-
-
5644247544
-
Strategies for shotgun identification of post-translational modifications by mass spectrometry
-
DOI 10.1016/j.chroma.2004.06.046, PII S0021967304009719
-
Cantin, G. T.; Yates, J. R. Strategies for shotgun identification of post-translational modifications by mass spectrometry. J. Chromatogr., A. 2004, 1053, 7-14. (Pubitemid 39369755)
-
(2004)
Journal of Chromatography a
, vol.1053
, Issue.1-2 SPEC. ISS
, pp. 7-14
-
-
Cantin, G.T.1
Yates III, J.R.2
-
2
-
-
0037338365
-
Proteomic analysis of post-translational modifications
-
Mann, M.; Jensen, O. N. Proteomic analysis of post-translational modifications. Nat. Biotechnol. 2003, 21, 255-261.
-
(2003)
Nat. Biotechnol.
, vol.21
, pp. 255-261
-
-
Mann, M.1
Jensen, O.N.2
-
3
-
-
33846010726
-
Extent of modifications in human proteome samples and their effect on dynamic range of analysis in shotgun proteomics
-
Nielsen, M. L.; Savitski, M. M.; Zubarev, R. A. Extent of modifications in human proteome samples and their effect on dynamic range of analysis in shotgun proteomics. Mol. Cell. Proteomics 2006, 5, 2384-2391.
-
(2006)
Mol. Cell. Proteomics
, vol.5
, pp. 2384-2391
-
-
Nielsen, M.L.1
Savitski, M.M.2
Zubarev, R.A.3
-
4
-
-
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
-
5
-
-
4444335470
-
The ABC's (and XYZ's) of peptide sequencing
-
Steen, H.; Mann, M. The ABC's (and XYZ's) of peptide sequencing. Nat. Rev. Mol. Cell Biol. 2004, 5, 699-711.
-
(2004)
Nat. Rev. Mol. Cell Biol.
, vol.5
, pp. 699-711
-
-
Steen, H.1
Mann, M.2
-
6
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
Eng, J. K.; McCormack, A. L.; Yates, J. R. 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, 976-989.
-
(1994)
J. Am. Soc. Mass Spectrom.
, vol.5
, pp. 976-989
-
-
Eng, J.K.1
McCormack, A.L.2
Yates, J.R.3
-
7
-
-
0033434080
-
Probability-based protein identification by searching sequence databases using mass spectrometry data
-
Perkins, D. N.; Pappin, D. J. C.; Creasy, D. M.; Cottrell, J. S. Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 1999, 20, 3551-3567.
-
(1999)
Electrophoresis
, vol.20
, pp. 3551-3567
-
-
Perkins, D.N.1
Pappin, D.J.C.2
Creasy, D.M.3
Cottrell, J.S.4
-
8
-
-
33847242627
-
Large-scale unrestricted identification of post-translation modifications using tandem mass spectrometry
-
DOI 10.1021/ac061515x
-
Havilio, M.; Wool, A. Large-scale unrestricted identification of post-translation modifications using tandem mass spectrometry. Anal. Chem. 2007, 79, 1362-1368. (Pubitemid 46309627)
-
(2007)
Analytical Chemistry
, vol.79
, Issue.4
, pp. 1362-1368
-
-
Havilio, M.1
Wool, A.2
-
9
-
-
29144535689
-
VEMS 3.0: Algorithms and computational tools for tandem mass spectrometry based identification of post-translational modifications in proteins
-
Matthiesen, R.; Trelle, M. B.; Hojrup, P.; Bunkenborg, J.; Jensen, O. N. VEMS 3.0: algorithms and computational tools for tandem mass spectrometry based identification of post-translational modifications in proteins. J. Proteome Res. 2005, 4, 2338-2347.
-
(2005)
J. Proteome Res.
, vol.4
, pp. 2338-2347
-
-
Matthiesen, R.1
Trelle, M.B.2
Hojrup, P.3
Bunkenborg, J.4
Jensen, O.N.5
-
10
-
-
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, 4390-4399. (Pubitemid 124006101)
-
(1994)
Analytical Chemistry
, vol.66
, Issue.24
, pp. 4390-4399
-
-
Mann, M.1
Wilm, M.2
-
11
-
-
0345600791
-
GutenTag: High-throughput sequence tagging via an empirically derived fragmentation model
-
Tabb, D. L.; Saraf, A.; Yates, J. R. GutenTag: high-throughput sequence tagging via an empirically derived fragmentation model. Anal. Chem. 2003, 75, 6415-6421.
-
(2003)
Anal. Chem.
, vol.75
, pp. 6415-6421
-
-
Tabb, D.L.1
Saraf, A.2
Yates, J.R.3
-
12
-
-
27544511899
-
InsPecT: Identification of posttranslationally modified peptides from tandem mass spectra
-
DOI 10.1021/ac050102d
-
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, 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
-
13
-
-
58149307960
-
Unrestrictive identification of multiple post-translational modifications from tandem mass spectrometry using an error-tolerant algorithm based on an extended sequence tag approach
-
Na, S.; Jeong, J.; Park, H.; Lee, K.-J.; Paek, E. Unrestrictive identification of multiple post-translational modifications from tandem mass spectrometry using an error-tolerant algorithm based on an extended sequence tag approach. Mol. Cell. Proteomics 2008, 7, 2452-2463.
-
(2008)
Mol. Cell. Proteomics
, vol.7
, pp. 2452-2463
-
-
Na, S.1
Jeong, J.2
Park, H.3
Lee, K.-J.4
Paek, E.5
-
14
-
-
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, 1307-1315.
-
(2003)
Anal. Chem.
, vol.75
, pp. 1307-1315
-
-
Sunyaev, S.1
Liska, A.J.2
Golod, A.3
Shevchenko, A.4
Shevchenko, A.5
-
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, 2337-2342. (Pubitemid 37243319)
-
(2003)
Rapid Communications in Mass Spectrometry
, 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
-
-
0034814613
-
A dynamic programming approach to de novo peptide sequencing via tandem mass spectrometry
-
DOI 10.1089/10665270152530872
-
Chen, T.; Kao, M.; Tepel, M.; Rush, J.; Church, G. M. Dynamic programming approach to de novo peptide sequencing via tandem mass spectrometry. J. Comput. Biol. 2001, 8, 325-337. (Pubitemid 32911660)
-
(2001)
Journal of Computational Biology
, vol.8
, Issue.3
, pp. 325-337
-
-
Chen, T.1
Kao, M.-Y.2
Tepel, M.3
Rush, J.4
Church, G.M.5
-
17
-
-
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, 1067-1075.
-
(1997)
Rapid Commun. Mass Spectrom.
, vol.11
, pp. 1067-1075
-
-
Taylor, J.A.1
Johnson, R.S.2
-
18
-
-
22544465253
-
Spider: Software for protein identification from sequence tags with de novo sequencing error
-
DOI 10.1142/S0219720005001247, PII S0219720005001247
-
Han, Y.; Ma, B.; Zhang, K. SPIDER: software for protein identification from sequence tags with de novo sequencing error. J. Bioinform. Comput. Biol. 2005, 3, 697-716. (Pubitemid 41015284)
-
(2005)
Journal of Bioinformatics and Computational Biology
, vol.3
, Issue.3
, pp. 697-716
-
-
Han, Y.1
Ma, B.2
Zhang, K.3
-
19
-
-
1942423061
-
High-throughput identification of proteins and unanticipated sequence modifications using a mass-based alignment algorithm for MS/MS de novo sequencing results
-
Searle, B. C.; Dasari, S.; Turner, M.; Reddy, A. P.; Choi, D.; Wilmarth, P. A.; McCormack, A. L.; David, L. L.; Nagalla, S. R. High-throughput identification of proteins and unanticipated sequence modifications using a mass-based alignment algorithm for MS/MS de novo sequencing results. Anal. Chem. 2004, 76, 2220-2230.
-
(2004)
Anal. Chem.
, vol.76
, pp. 2220-2230
-
-
Searle, B.C.1
Dasari, S.2
Turner, M.3
Reddy, A.P.4
Choi, D.5
Wilmarth, P.A.6
McCormack, A.L.7
David, L.L.8
Nagalla, S.R.9
-
20
-
-
28644447919
-
Identification of post-translational modifications by blind search of mass spectra
-
DOI 10.1038/nbt1168
-
Tsur, D.; Tanner, S.; Zandi, E.; Bafna, V.; Pevzner, P. A. Identification of post-translational modifications by blind search of mass spectra. Nat. Biotechnol. 2005, 23, 1562-1567. (Pubitemid 41752935)
-
(2005)
Nature Biotechnology
, vol.23
, Issue.12
, pp. 1562-1567
-
-
Tsur, D.1
Tanner, S.2
Zandi, E.3
Bafna, V.4
Pevzner, P.A.5
-
21
-
-
33646903914
-
ModifiComb, a new proteomic tool for mapping substoichiometric post-translational modifications, finding novel types of modifications, and fingerprinting complex protein mixtures
-
Savitski, M. M.; Nielsen, M. L.; Zubarev, R. A. ModifiComb, a new proteomic tool for mapping substoichiometric post-translational modifications, finding novel types of modifications, and fingerprinting complex protein mixtures. Mol. Cell. Proteomics 2006, 5, 935-948.
-
(2006)
Mol. Cell. Proteomics
, vol.5
, pp. 935-948
-
-
Savitski, M.M.1
Nielsen, M.L.2
Zubarev, R.A.3
-
22
-
-
0025183708
-
Basic local alignment search tool
-
DOI 10.1006/jmbi.1990.9999
-
Altschul, S. F.; Gish, W.; Miller, W.; Myers, E. W.; Lipman, D. J. Basic local alignment search tool. J. Mol. Biol. 1990, 215, 403-410. (Pubitemid 20364473)
-
(1990)
Journal of Molecular Biology
, vol.215
, Issue.3
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
23
-
-
0023989064
-
Improved tools for biological sequence comparison
-
Pearson, W. R.; Lipman, D. J. Improved tools for biological sequence comparison. Proc. Natl. Acad. Sci. U.S.A. 1988, 85, 2444-2448.
-
(1988)
Proc. Natl. Acad. Sci. U.S.A.
, vol.85
, pp. 2444-2448
-
-
Pearson, W.R.1
Lipman, D.J.2
-
24
-
-
0019887799
-
Identification of common molecular subsequences
-
Smith, T. F.; Waterman, M. S. Identification of common molecular subsequences. J. Mol. Biol. 1981, 147, 195-197.
-
(1981)
J. Mol. Biol.
, vol.147
, pp. 195-197
-
-
Smith, T.F.1
Waterman, M.S.2
-
25
-
-
17444406699
-
Identification of protein modifications using MS/MS de novo sequencing and the OpenSea alignment algorithm
-
Searle, B. C.; Dasari, S.; Wilmarth, P. A.; Turner, M.; Reddy, A. P.; David, L. L.; Nagalla, S. R. Identification of protein modifications using MS/MS de novo sequencing and the OpenSea alignment algorithm. J. Proteome Res. 2005, 4, 546-554.
-
(2005)
J. Proteome Res.
, vol.4
, pp. 546-554
-
-
Searle, B.C.1
Dasari, S.2
Wilmarth, P.A.3
Turner, M.4
Reddy, A.P.5
David, L.L.6
Nagalla, S.R.7
-
26
-
-
38649111957
-
Accurate annotation of peptide modifications through unrestrictive database search
-
DOI 10.1021/pr070444v
-
Tanner, S.; Payne, S. H.; Dasari, S.; Shen, Z.; Wilmarth, P. A.; David, L. L.; Loomis, W. F.; Briggs, S. P.; Bafna, V. Accurate annotation of peptide modifications through unrestrictive database search. J. Proteome Res. 2008, 7, 170-181. (Pubitemid 351171129)
-
(2008)
Journal of Proteome Research
, vol.7
, Issue.1
, pp. 170-181
-
-
Tanner, S.1
Payne, S.H.2
Dasari, S.3
Shen, Z.4
Wilmarth, P.A.5
David, L.L.6
Loomis, W.F.7
Briggs, S.P.8
Bafna, V.9
-
27
-
-
33750142707
-
Age-related changes in human crystallins determined from comparative analysis of post-translational modifications in young and aged lens: Does deamidation contribute to crystalline insolubility
-
Wilmarth, P. A.; Tanner, S.; Dasari, S.; Nagalla, S. R.; Riviere, M. A.; Bafna, V.; Pevzner, P. A.; David, L. L. Age-related changes in human crystallins determined from comparative analysis of post-translational modifications in young and aged lens: does deamidation contribute to crystalline insolubility. J. Proteome Res. 2006, 5, 2554-2566.
-
(2006)
J. Proteome Res.
, vol.5
, pp. 2554-2566
-
-
Wilmarth, P.A.1
Tanner, S.2
Dasari, S.3
Nagalla, S.R.4
Riviere, M.A.5
Bafna, V.6
Pevzner, P.A.7
David, L.L.8
-
28
-
-
38649094868
-
The standard protein mix database: A diverse data set to assist in the production of improved peptide and protein identification software tools
-
Klimek, J.; Eddes, J. S.; Hohmann, L.; Jackson, J.; Peterson, A.; Letarte, S.; Gafken, P. R.; Katz, J. E.; Mallick, P.; Lee, H.; Schmidt, A.; Ossola, R.; Eng, J. K.; Aebersold, R.; Martin, D. B. The standard protein mix database: a diverse data set to assist in the production of improved peptide and protein identification software tools. J. Proteome Res. 2008, 7, 96-103.
-
(2008)
J. Proteome Res.
, vol.7
, pp. 96-103
-
-
Klimek, J.1
Eddes, J.S.2
Hohmann, L.3
Jackson, J.4
Peterson, A.5
Letarte, S.6
Gafken, P.R.7
Katz, J.E.8
Mallick, P.9
Lee, H.10
Schmidt, A.11
Ossola, R.12
Eng, J.K.13
Aebersold, R.14
Martin, D.B.15
-
29
-
-
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, 2310-2316.
-
(2003)
Rapid Commun. Mass Spectrom.
, vol.17
, pp. 2310-2316
-
-
Craig, R.1
Beavis, R.C.2
-
30
-
-
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, 207-214.
-
(2007)
Nat. Methods
, vol.4
, pp. 207-214
-
-
Elias, J.E.1
Gygi, S.P.2
-
31
-
-
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
-
32
-
-
0742305695
-
Intensity-based protein identification by machine learning from a library of tandem mass spectra
-
Elias, J. E.; Gibbons, F. D.; King, O. D.; Roth, F. P.; Gygi, S. P. Intensity-based protein identification by machine learning from a library of tandem mass spectra. Nat. Biotechnol. 2004, 22, 214-219.
-
(2004)
Nat. Biotechnol.
, vol.22
, pp. 214-219
-
-
Elias, J.E.1
Gibbons, F.D.2
King, O.D.3
Roth, F.P.4
Gygi, S.P.5
-
33
-
-
30744444934
-
PepHMM: A hidden Markov model based scoring function for mass spectrometry database search
-
DOI 10.1021/ac051319a
-
Wan, Y.; Yang, A.; Chen, T. PepHMM: a hidden markov model based scoring function for mass spectrometry database search. 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
-
34
-
-
0034915775
-
Mutation-tolerant protein identification by mass-spectrometry
-
Pevzner, P. A.; Dancik, V.; Tang, C. L. Mutation-tolerant protein identification by mass-spectrometry. J. Comput. Biol. 2000, 7, 777-787.
-
(2000)
J. Comput. Biol.
, vol.7
, pp. 777-787
-
-
Pevzner, P.A.1
Dancik, V.2
Tang, C.L.3
-
35
-
-
0035107717
-
Efficiency of database search for identification of mutated and modified proteins via mass spectrometry
-
Pevzner, P. A.; Mulyukov, Z.; Dancik, V.; Tang, C. L. Efficiency of database search for identification of mutated and modified proteins via mass spectrometry. Genome Res. 2001, 11, 290-299.
-
(2001)
Genome Res.
, vol.11
, pp. 290-299
-
-
Pevzner, P.A.1
Mulyukov, Z.2
Dancik, V.3
Tang, C.L.4
-
36
-
-
34249826390
-
Protein identification by spectral networks analysis
-
DOI 10.1073/pnas.0701130104
-
Bandeira, N.; Tsur, D.; Frank, A.; Pevzner, P. A. Protein identification by spectral networks analysis. Proc. Natl. Acad. Sci. U.S.A. 2007, 104, 6140-6145. (Pubitemid 47186062)
-
(2007)
Proceedings of the National Academy of Sciences of the United States of America
, vol.104
, Issue.15
, pp. 6140-6145
-
-
Bandeira, N.1
Tsur, D.2
Frank, A.3
Pevzner, P.A.4
-
37
-
-
41849093753
-
Interpreting top-down mass spectra using spectral alignment
-
Frank, A. M.; Pesavento, J. J.; Mizzen, C. A.; Kelleher, N. L.; Pevzner, P. A. Interpreting top-down mass spectra using spectral alignment. Anal. Chem. 2008, 80, 2499-2505.
-
(2008)
Anal. Chem.
, vol.80
, pp. 2499-2505
-
-
Frank, A.M.1
Pesavento, J.J.2
Mizzen, C.A.3
Kelleher, N.L.4
Pevzner, P.A.5
-
38
-
-
38649086702
-
Algorithm for identification of fusion proteins via mass spectrometry
-
Ng, J.; Pevzner, P. A. Algorithm for identification of fusion proteins via mass spectrometry. J. Proteome Res. 2008, 7, 89-95.
-
(2008)
J. Proteome Res.
, vol.7
, pp. 89-95
-
-
Ng, J.1
Pevzner, P.A.2
-
39
-
-
33845453748
-
Quality assessment of tandem mass spectra based on cumulative intensity normalization
-
DOI 10.1021/pr0603248
-
Na, S.; Paek, E. Quality assessment of tandem mass spectra based on cumulative intensity normalization. J. Proteome Res. 2006, 5, 3241-3248. (Pubitemid 44904315)
-
(2006)
Journal of Proteome Research
, vol.5
, Issue.12
, pp. 3241-3248
-
-
Na, S.1
Paek, E.2
-
40
-
-
33749853607
-
A probability-based approach for high-throughput protein phosphorylation analysis and site localization
-
Beausoleil, S. A.; Villen, J.; Gerber, S. A.; Rush, J.; Gygi, S. P. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. Nat. Biotechnol. 2006, 24, 1285-1292.
-
(2006)
Nat. Biotechnol.
, vol.24
, pp. 1285-1292
-
-
Beausoleil, S.A.1
Villen, J.2
Gerber, S.A.3
Rush, J.4
Gygi, S.P.5
-
41
-
-
34248161554
-
Low energy peptide fragmentations in an ESI-Q-Tof type mass spectrometer
-
DOI 10.1021/pr060574o
-
Mouls, L.; Aubagnac, J.-L.; Martinez, J.; Enjalbal, C. Low energy peptide fragmentations in an ESI-Q-Tof type mass spectrometer. J. Proteome Res. 2007, 6, 1378-1391. (Pubitemid 46724035)
-
(2007)
Journal of Proteome Research
, vol.6
, Issue.4
, pp. 1378-1391
-
-
Mouls, L.1
Aubagnac, J.-L.2
Martinez, J.3
Enjalbal, C.4
-
42
-
-
49049104638
-
Quantification of the compositional information provided by immonium ions on a quadrupole-time-of-flight mass spectrometer
-
Hohmann, L. J.; Eng, J. K.; Gemmill, A.; Klimek, J.; Vitek, O.; Reid, G. E.; Martin, D. B. Quantification of the compositional information provided by immonium ions on a quadrupole-time-of-flight mass spectrometer. Anal. Chem. 2008, 80, 5596-5606.
-
(2008)
Anal. Chem.
, vol.80
, pp. 5596-5606
-
-
Hohmann, L.J.1
Eng, J.K.2
Gemmill, A.3
Klimek, J.4
Vitek, O.5
Reid, G.E.6
Martin, D.B.7
-
43
-
-
34548452940
-
Whole proteome analysis of post-translational modifications: Applications of mass-spectrometry for proteogenomic annotation
-
Gupta, N.; Tanner, S.; Jaitly, N.; Adkins, J. N.; Lipton, M.; Edwards, R.; Romine, M.; Osterman, A.; Bafna, V.; Smith, R. D.; Pevzner, P. A. Whole proteome analysis of post-translational modifications: applications of mass-spectrometry for proteogenomic annotation. Genome Res. 2007, 17, 1362-1377.
-
(2007)
Genome Res.
, vol.17
, pp. 1362-1377
-
-
Gupta, N.1
Tanner, S.2
Jaitly, N.3
Adkins, J.N.4
Lipton, M.5
Edwards, R.6
Romine, M.7
Osterman, A.8
Bafna, V.9
Smith, R.D.10
Pevzner, P.A.11
-
44
-
-
54749148348
-
Isotopic peak intensity ratio based algorithm for fast and accurate determination of isotopic clusters and monoisotopic masses of polypeptides from high resolution mass spectrometric data
-
Park, K.; Yoon, J.; Lee, S.; Paek, E.; Park, H.; Jung, H.-J.; Lee, S.-W. Isotopic peak intensity ratio based algorithm for fast and accurate determination of isotopic clusters and monoisotopic masses of polypeptides from high resolution mass spectrometric data. Anal. Chem. 2008, 80, 7294-7303.
-
(2008)
Anal. Chem.
, vol.80
, pp. 7294-7303
-
-
Park, K.1
Yoon, J.2
Lee, S.3
Paek, E.4
Park, H.5
Jung, H.-J.6
Lee, S.-W.7
-
45
-
-
33645235084
-
Cross-correlation algorithm for calculation of peptide molecular weight from tandem mass spectra
-
Venable, J. D.; Xu, T.; Cociorva, D.; Yates, J. R. Cross-correlation algorithm for calculation of peptide molecular weight from tandem mass spectra. Anal. Chem. 2006, 78, 1921-1929.
-
(2006)
Anal. Chem.
, vol.78
, pp. 1921-1929
-
-
Venable, J.D.1
Xu, T.2
Cociorva, D.3
Yates, J.R.4
-
46
-
-
38649083116
-
Statistical validation of peptide identifications in large-scale proteomics using the target-decoy database search strategy and flexible mixture modeling
-
Choi, H.; Ghosh, D.; Nesvizhskii, A. I. Statistical validation of peptide identifications in large-scale proteomics using the target-decoy database search strategy and flexible mixture modeling. J. Proteome Res. 2008, 7, 286-292.
-
(2008)
J. Proteome Res.
, vol.7
, pp. 286-292
-
-
Choi, H.1
Ghosh, D.2
Nesvizhskii, A.I.3
-
47
-
-
35748972060
-
A semi-supervised machine learning technique for peptide identification from shotgun proteomics datasets
-
Kall, L.; Canterbury, J.; Weston, J.; Noble, W. S.; MacCoss, M. J. A semi-supervised machine learning technique for peptide identification from shotgun proteomics datasets. Nat. Methods 2007, 4, 923-925.
-
(2007)
Nat. Methods
, vol.4
, pp. 923-925
-
-
Kall, L.1
Canterbury, J.2
Weston, J.3
Noble, W.S.4
MacCoss, M.J.5
-
48
-
-
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, 3354-3363.
-
(2008)
J. Proteome Res.
, vol.7
, pp. 3354-3363
-
-
Kim, S.1
Gupta, N.2
Pevzner, P.A.3
-
49
-
-
18744375196
-
Identifying and quantifying in vivo methylation sites by heavy methyl SILAC
-
Ong, S.; Mittler, G.; Mann, M. Identifying and quantifying in vivo methylation sites by heavy methyl SILAC. Nat. Methods 2004, 1, 1-8.
-
(2004)
Nat. Methods
, vol.1
, pp. 1-8
-
-
Ong, S.1
Mittler, G.2
Mann, M.3
-
50
-
-
43749090090
-
Comparative proteogenomics: Combining mass spectrometry and comparative genomics to analyze multiple genomes
-
Gupta, N.; Benhamida, J.; Bhargava, V.; Goodman, D.; Kain, E.; Kerman, I.; Nguyen, N.; Ollikainen, N.; Rodriguez, J.; Wang, J.; Lipton, M. S.; Romine, M.; Bafna, V.; Smith, R. D.; Pevzner, P. A. Comparative proteogenomics: combining mass spectrometry and comparative genomics to analyze multiple genomes. Genome Res. 2008, 18, 1133-1142.
-
(2008)
Genome Res.
, vol.18
, pp. 1133-1142
-
-
Gupta, N.1
Benhamida, J.2
Bhargava, V.3
Goodman, D.4
Kain, E.5
Kerman, I.6
Nguyen, N.7
Ollikainen, N.8
Rodriguez, J.9
Wang, J.10
Lipton, M.S.11
Romine, M.12
Bafna, V.13
Smith, R.D.14
Pevzner, P.A.15
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