-
1
-
-
0036545614
-
Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae
-
Griffin TJ, Gygi SP, Ideker T, Rist B, Eng J, Hood L, Aebersold R (2002) Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae. Mol Cell Proteomics 1(4):323-333
-
(2002)
Mol Cell Proteomics
, vol.1
, Issue.4
, pp. 323-333
-
-
Griffin, T.J.1
Gygi, S.P.2
Ideker, T.3
Rist, B.4
Eng, J.5
Hood, L.6
Aebersold, R.7
-
2
-
-
0037453060
-
Protein pathway and complex clustering of correlated mRNA and protein expression analyses in Saccharomyces cerevisiae
-
doi:10.1073/pnas.0634629100 0634629100 [pii]
-
Washburn MP, Koller A, Oshiro G, Ulaszek RR, Plouffe D, Deciu C, Winzeler E, Yates JR 3rd (2003) Protein pathway and complex clustering of correlated mRNA and protein expression analyses in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A 100(6):3107-3112. doi:10.1073/pnas.0634629100 0634629100 [pii]
-
(2003)
Proc Natl Acad Sci U S a
, vol.100
, Issue.6
, pp. 3107-3112
-
-
Washburn, M.P.1
Koller, A.2
Oshiro, G.3
Ulaszek, R.R.4
Plouffe, D.5
Deciu, C.6
Winzeler, E.7
Yates III, J.R.8
-
3
-
-
84984042980
-
Protein and polymer analyses up to m/z 100,000 by laser ionization timeof-flight mass spectrometry
-
Tanaka K, Waki H, Ido Y, Akita S, Yoshida Y, Yoshida T, Matsuo T (1988) Protein and polymer analyses up to m/z 100,000 by laser ionization timeof-flight mass spectrometry. Rapid Comm Mass Spectrom 2(8):151-153
-
(1988)
Rapid Comm Mass Spectrom
, vol.2
, Issue.8
, pp. 151-153
-
-
Tanaka, K.1
Waki, H.2
Ido, Y.3
Akita, S.4
Yoshida, Y.5
Yoshida, T.6
Matsuo, T.7
-
4
-
-
0024438708
-
Electrospray ionization for mass spectrometry of large biomolecules
-
Fenn JB, Mann M, Meng CK, Wong SF, Whitehouse CM (1989) Electrospray ionization for mass spectrometry of large biomolecules. Science 246(4926):64-71
-
(1989)
Science
, vol.246
, Issue.4926
, pp. 64-71
-
-
Fenn, J.B.1
Mann, M.2
Meng, C.K.3
Wong, S.F.4
Whitehouse, C.M.5
-
5
-
-
0025900079
-
Nanoscale separations combined with tandem mass spectrometry
-
Deterding LJ, Moseley MA, Tomer KB, Jorgenson JW (1991) Nanoscale separations combined with tandem mass spectrometry. J Chromatogr 554(1-2):73-82
-
(1991)
J Chromatogr
, vol.554
, Issue.1-2
, pp. 73-82
-
-
Deterding, L.J.1
Moseley, M.A.2
Tomer, K.B.3
Jorgenson, J.W.4
-
6
-
-
0000312004
-
Protein sequencing by tandem mass spectrometry
-
Hunt DF, Yates JR 3rd, Shabanowitz J, Winston S, Hauer CR (1986) Protein sequencing by tandem mass spectrometry. Proc Natl Acad Sci U S A 83(17):6233-6237
-
(1986)
Proc Natl Acad Sci U S a
, vol.83
, Issue.17
, pp. 6233-6237
-
-
Hunt, D.F.1
Yates III, J.R.2
Shabanowitz, J.3
Winston, S.4
Hauer, C.R.5
-
7
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
Eng JK, McCormack AL, Yates JRI (1994) An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J Am Soc Mass Spectrom 5:976-989
-
(1994)
J Am Soc Mass Spectrom
, vol.5
, pp. 976-989
-
-
Eng, J.K.1
McCormack, A.L.2
Yates, J.R.I.3
-
8
-
-
0033434080
-
Probability-based protein identification by searching sequence databases using mass spectrometry data
-
doi:10.1002/(SICI)1522-2683(19991201)20:18 <3551::AID-ELPS3551> 3.0.CO;2-2 [pii] 10.1002/ (SICI)1522-2683(19991201)20:18 <3551:: AIDELPS3551> 3.0.CO;2-2
-
Perkins DN, Pappin DJ, Creasy DM, Cottrell JS (1999) Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 20(18):3551-3567. doi:10.1002/(SICI)1522-2683(19991201)20: 18 3.0.CO;2-2 [pii] 10.1002/(SICI)1522-2683(19991201)20:18 3.0.CO;2-2
-
(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
-
9
-
-
0036391454
-
Proteome analysis of low-abundance proteins using multidimensional chromatography and isotope-coded affinity tags
-
Gygi SP, Rist B, Griffin TJ, Eng J, Aebersold R (2002) Proteome analysis of low-abundance proteins using multidimensional chromatography and isotope-coded affinity tags. J Proteome Res 1(1): 47-54
-
(2002)
J Proteome Res
, vol.1
, Issue.1
, pp. 47-54
-
-
Gygi, S.P.1
Rist, B.2
Griffin, T.J.3
Eng, J.4
Aebersold, R.5
-
10
-
-
0033051101
-
Direct analysis of protein complexes using mass spectrometry
-
Link AJ, Eng J, Schieltz DM, Carmack E, Mize GJ, Morris DR, Garvik BM, Yates JR 3rd (1999) Direct analysis of protein complexes using mass spectrometry. Nat Biotechnol 17(7):676-682
-
(1999)
Nat Biotechnol
, vol.17
, Issue.7
, pp. 676-682
-
-
Link, A.J.1
Eng, J.2
Schieltz, D.M.3
Carmack, E.4
Mize, G.J.5
Morris, D.R.6
Garvik, B.M.7
Yates III, J.R.8
-
11
-
-
0035106351
-
Large-scale analysis of the yeast proteome by multidimensional protein identification technology
-
Washburn MP, Wolters D, Yates JR 3rd (2001) Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat Biotechnol 19(3):242-247
-
(2001)
Nat Biotechnol
, vol.19
, Issue.3
, pp. 242-247
-
-
Washburn, M.P.1
Wolters, D.2
Yates III, J.R.3
-
12
-
-
0034662907
-
Evaluation of two-dimensional gel electrophoresis-based proteome analysis technology
-
Gygi SP, Corthals GL, Zhang Y, Rochon Y, Aebersold R (2000) Evaluation of two-dimensional gel electrophoresis-based proteome analysis technology. Proc Natl Acad Sci U S A 97(17): 9390-9395
-
(2000)
Proc Natl Acad Sci U S a
, vol.97
, Issue.17
, pp. 9390-9395
-
-
Gygi, S.P.1
Corthals, G.L.2
Zhang, Y.3
Rochon, Y.4
Aebersold, R.5
-
13
-
-
0036198435
-
Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae
-
Ficarro SB, McCleland ML, Stukenberg PT, Burke DJ, Ross MM, Shabanowitz J, Hunt DF, White FM (2002) Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae. Nat Biotechnol 20(3):301-305
-
(2002)
Nat Biotechnol
, vol.20
, Issue.3
, pp. 301-305
-
-
Ficarro, S.B.1
McCleland, M.L.2
Stukenberg, P.T.3
Burke, D.J.4
Ross, M.M.5
Shabanowitz, J.6
Hunt, D.F.7
White, F.M.8
-
14
-
-
0035067251
-
Enrichment analysis of phosphorylated proteins as a tool for probing the phosphoproteome
-
Oda Y, Nagasu T, Chait BT (2001) Enrichment analysis of phosphorylated proteins as a tool for probing the phosphoproteome. Nat Biotechnol 19(4): 379-382
-
(2001)
Nat Biotechnol
, vol.19
, Issue.4
, pp. 379-382
-
-
Oda, Y.1
Nagasu, T.2
Chait, B.T.3
-
15
-
-
0035072715
-
A systematic approach to the analysis of protein phosphorylation
-
Zhou H, Watts JD, Aebersold R (2001) A systematic approach to the analysis of protein phosphorylation. Nat Biotechnol 19(4):375-378
-
(2001)
Nat Biotechnol
, vol.19
, Issue.4
, pp. 375-378
-
-
Zhou, H.1
Watts, J.D.2
Aebersold, R.3
-
16
-
-
0038699625
-
Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry
-
Zhang H, Li XJ, Martin DB, Aebersold R (2003) Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry. Nat Biotechnol 21(6):660-666
-
(2003)
Nat Biotechnol
, vol.21
, Issue.6
, pp. 660-666
-
-
Zhang, H.1
Li, X.J.2
Martin, D.B.3
Aebersold, R.4
-
18
-
-
2942568222
-
Unimod: Protein modifications for mass spectrometry
-
doi:10.1002/pmic.200300744
-
Creasy DM, Cottrell JS (2004) Unimod: protein modifications for mass spectrometry. Proteomics 4(6):1534-1536. doi:10.1002/pmic.200300744
-
(2004)
Proteomics
, vol.4
, Issue.6
, pp. 1534-1536
-
-
Creasy, D.M.1
Cottrell, J.S.2
-
19
-
-
79953719716
-
More than 100,000 detectable peptide species elute in single shotgun proteomics runs but the majority is inaccessible to data-dependent LC-MS/MS
-
doi:10.1021/pr101060v
-
Michalski A, Cox J, Mann M (2011) More than 100,000 detectable peptide species elute in single shotgun proteomics runs but the majority is inaccessible to data-dependent LC-MS/MS. J Proteome Res 10(4):1785-1793. doi:10.1021/pr101060v
-
(2011)
J Proteome Res
, vol.10
, Issue.4
, pp. 1785-1793
-
-
Michalski, A.1
Cox, J.2
Mann, M.3
-
20
-
-
57449099068
-
Precision proteomics: The case for high resolution and high mass accuracy
-
doi:10.1073/pnas.0800788105
-
Mann M, Kelleher NL (2008) Precision proteomics: the case for high resolution and high mass accuracy. Proc Natl Acad Sci U S A 105(47):18132-18138. doi:10.1073/pnas.0800788105
-
(2008)
Proc Natl Acad Sci U S a
, vol.105
, Issue.47
, pp. 18132-18138
-
-
Mann, M.1
Kelleher, N.L.2
-
21
-
-
2742576125
-
Accuracy requirements for peptide characterization by monoisotopic molecular mass measurements
-
doi:10.1021/ac9604651
-
Zubarev RA, Hakansson P, Sundqvist B (1996) Accuracy requirements for peptide characterization by monoisotopic molecular mass measurements. Anal Chem 68(22):4060-4063. doi:10.1021/ac9604651
-
(1996)
Anal Chem
, vol.68
, Issue.22
, pp. 4060-4063
-
-
Zubarev, R.A.1
Hakansson, P.2
Sundqvist, B.3
-
22
-
-
29244448703
-
Parts per million mass accuracy on an orbitrap mass spectrometer via lock mass injection into a C-trap
-
doi:10.1074/mcp.T500030-MCP200
-
Olsen JV, de Godoy LMF, Li GQ, Macek B, Mortensen P, Pesch R, Makarov A, Lange O, Horning S, Mann M (2005) Parts per million mass accuracy on an orbitrap mass spectrometer via lock mass injection into a C-trap. Mol Cell Proteomics 4(12):2010-2021. doi:10.1074/mcp.T500030-MCP200
-
(2005)
Mol Cell Proteomics
, vol.4
, Issue.12
, pp. 2010-2021
-
-
Olsen, J.V.1
De Godoy, L.M.F.2
Li, G.Q.3
Macek, B.4
Mortensen, P.5
Pesch, R.6
Makarov, A.7
Lange, O.8
Horning, S.9
Mann, M.10
-
23
-
-
83655164803
-
Improving proteomics mass accuracy by dynamic offline lock mass
-
doi:10.1021/ac201867h
-
Zhang Y, Wen Z, Washburn MP, Florens LA (2011) Improving proteomics mass accuracy by dynamic offline lock mass. Anal Chem. doi:10.1021/ac201867h
-
(2011)
Anal Chem.
-
-
Zhang, Y.1
Wen, Z.2
Washburn, M.P.3
Florens, L.A.4
-
24
-
-
0842285056
-
The interpretation of collision-induced dissociation tandem mass-spectra of peptides
-
doi:10.1002/mas.1280140104
-
Papayannopoulos IA (1995) The interpretation of collision-induced dissociation tandem mass-spectra of peptides. Mass Spectrom Rev 14(1):49-73. doi:10.1002/mas.1280140104
-
(1995)
Mass Spectrom Rev
, vol.14
, Issue.1
, pp. 49-73
-
-
Papayannopoulos, I.A.1
-
25
-
-
0037398266
-
Interfacing the orbitrap mass analyzer to an electrospray ion source
-
doi:10.1021/ac0258047
-
Hardman M, Makarov AA (2003) Interfacing the orbitrap mass analyzer to an electrospray ion source. Anal Chem. 75(7):1699-1705. doi:10.1021/ac0258047
-
(2003)
Anal Chem.
, vol.75
, Issue.7
, pp. 1699-1705
-
-
Hardman, M.1
Makarov, A.A.2
-
26
-
-
0041408938
-
Electrostatic axially harmonic orbital trapping: A high-performance technique of mass analysis
-
doi:10.1021/ac991131p
-
Makarov A (2000) Electrostatic axially harmonic orbital trapping: a high-performance technique of mass analysis. Anal Chem 72(6):1156-1162. doi:10.1021/ac991131p
-
(2000)
Anal Chem
, vol.72
, Issue.6
, pp. 1156-1162
-
-
Makarov, A.1
-
27
-
-
33645654439
-
Performance evaluation of a hybrid linear ion trap/orbitrap mass spectrometer
-
doi:10.1021/ac0518811
-
Makarov A, Denisov E, Kholomeev A, Baischun W, Lange O, Strupat K, Horning S (2006) Performance evaluation of a hybrid linear ion trap/orbitrap mass spectrometer. Anal Chem 78(7):2113-2120. doi:10.1021/ac0518811
-
(2006)
Anal Chem
, vol.78
, Issue.7
, pp. 2113-2120
-
-
Makarov, A.1
Denisov, E.2
Kholomeev, A.3
Baischun, W.4
Lange, O.5
Strupat, K.6
Horning, S.7
-
28
-
-
75149144996
-
A dual pressure linear Ion trap orbitrap instrument with very high sequencing speed
-
doi:10.1074/mcp.M900375-MCP200
-
Olsen JV, Schwartz JC, Griep-Raming J, Nielsen ML, Damoc E, Denisov E, Lange O, Remes P, Taylor D, Splendore M, Wouters ER, Senko M, Makarov A, Mann M, Horning S (2009) A dual pressure linear Ion trap orbitrap instrument with very high sequencing speed. Mol Cell Proteomics 8(12):2759-2769. doi:10.1074/mcp. M900375-MCP200
-
(2009)
Mol Cell Proteomics
, vol.8
, Issue.12
, pp. 2759-2769
-
-
Olsen, J.V.1
Schwartz, J.C.2
Griep-Raming, J.3
Nielsen, M.L.4
Damoc, E.5
Denisov, E.6
Lange, O.7
Remes, P.8
Taylor, D.9
Splendore, M.10
Wouters, E.R.11
Senko, M.12
Makarov, A.13
Mann, M.14
Horning, S.15
-
29
-
-
67650711335
-
Performance evaluation of a high-field orbitrap mass analyzer
-
doi:10.1016/j.jasms.2009.01.005
-
Makarov A, Denisov E, Lange O (2009) Performance evaluation of a high-field orbitrap mass analyzer. J Am Soc Mass Spectrom 20(8):1391-1396. doi:10.1016/j.jasms.2009.01.005
-
(2009)
J Am Soc Mass Spectrom
, vol.20
, Issue.8
, pp. 1391-1396
-
-
Makarov, A.1
Denisov, E.2
Lange, O.3
-
30
-
-
80052769923
-
Mass spectrometrybased proteomics using Q exactive, a highperformance benchtop quadrupole orbitrap mass spectrometer
-
doi:10.1074/mcp.M111.011015
-
Michalski A, Damoc E, Hauschild JP, Lange O, Wieghaus A, Makarov A, Nagaraj N, Cox J, Mann M, Horning S (2011) Mass spectrometrybased proteomics using Q exactive, a highperformance benchtop quadrupole orbitrap mass spectrometer. Mol Cell Proteomics 10(9). doi:10.1074/mcp.M111.011015
-
(2011)
Mol Cell Proteomics
, vol.10
, Issue.9
-
-
Michalski, A.1
Damoc, E.2
Hauschild, J.P.3
Lange, O.4
Wieghaus, A.5
Makarov, A.6
Nagaraj, N.7
Cox, J.8
Mann, M.9
Horning, S.10
-
31
-
-
79959958529
-
Performance characteristics of a New hybrid quadrupole time-of-flight tandem mass spectrometer (TripleTOF 5600)
-
doi:10.1021/ac200812d
-
Andrews GL, Simons BL, Young JB, Hawkridge AM, Muddiman DC (2011) Performance characteristics of a New hybrid quadrupole time-of-flight tandem mass spectrometer (TripleTOF 5600). Anal Chem 83(13):5442-5446. doi:10.1021/ac200812d
-
(2011)
Anal Chem
, vol.83
, Issue.13
, pp. 5442-5446
-
-
Andrews, G.L.1
Simons, B.L.2
Young, J.B.3
Hawkridge, A.M.4
Muddiman, D.C.5
-
33
-
-
33645128611
-
Theoretical and experimental evaluation of the low m/z transmission of an electrodynamic ion funnel
-
doi:10.1016/j.jasms.2005.12.013
-
Page JS, Tolmachev AV, Tang KQ, Smith RD (2006) Theoretical and experimental evaluation of the low m/z transmission of an electrodynamic ion funnel. J Am Soc Mass Spectrom 17(4):586-592. doi:10.1016/j.jasms.2005.12.013
-
(2006)
J Am Soc Mass Spectrom
, vol.17
, Issue.4
, pp. 586-592
-
-
Page, J.S.1
Tolmachev, A.V.2
Tang, K.Q.3
Smith, R.D.4
-
34
-
-
16744362316
-
Design and implementation of a new electrodynamic ion funnel
-
doi:10.1021/ac991412x
-
Kim T, Tolmachev AV, Harkewicz R, Prior DC, Anderson G, Udseth HR, Smith RD, Bailey TH, Rakov S, Futrell JH (2000) Design and implementation of a new electrodynamic ion funnel. Anal Chem 72(10):2247-2255. doi:10.1021/ac991412x
-
(2000)
Anal Chem
, vol.72
, Issue.10
, pp. 2247-2255
-
-
Kim, T.1
Tolmachev, A.V.2
Harkewicz, R.3
Prior, D.C.4
Anderson, G.5
Udseth, H.R.6
Smith, R.D.7
Bailey, T.H.8
Rakov, S.9
Futrell, J.H.10
-
35
-
-
0030670216
-
A novel ion funnel for focusing ions at elevated pressure using electrospray ionization mass spectrometry
-
Shaffer SA, Tang KQ, Anderson GA, Prior DC, Udseth HR, Smith RD (1997) A novel ion funnel for focusing ions at elevated pressure using electrospray ionization mass spectrometry. Rapid Commun Mass Spectrom 11(16):1813-1817
-
(1997)
Rapid Commun Mass Spectrom
, vol.11
, Issue.16
, pp. 1813-1817
-
-
Shaffer, S.A.1
Tang, K.Q.2
Anderson, G.A.3
Prior, D.C.4
Udseth, H.R.5
Smith, R.D.6
-
36
-
-
77951028799
-
The ion funnel: Theory, implementations, and applications
-
doi:10.1002/mas.20232
-
Kelly RT, Tolmachev AV, Page JS, Tang KQ, Smith RD (2010) The ion funnel: theory, implementations, and applications. Mass Spectrom Rev 29(2):294-312. doi:10.1002/mas.20232
-
(2010)
Mass Spectrom Rev
, vol.29
, Issue.2
, pp. 294-312
-
-
Kelly, R.T.1
Tolmachev, A.V.2
Page, J.S.3
Tang, K.Q.4
Smith, R.D.5
-
37
-
-
0029924432
-
Stacked-ring electrostatic ion guide
-
doi:10.1016/1044-0305(95)00605-2
-
Guan SH, Marshall AG (1996) Stacked-ring electrostatic ion guide. J Am Soc Mass Spectrom 7(1):101-106. doi:10.1016/1044-0305(95)00605-2
-
(1996)
J Am Soc Mass Spectrom
, vol.7
, Issue.1
, pp. 101-106
-
-
Guan, S.H.1
Marshall, A.G.2
-
38
-
-
49049117384
-
Nanoelectrospray emitter arrays providing interemitter electric field uniformity
-
doi:10.1021/ac800508q
-
Kelly RT, Page JS, Marginean I, Tang KQ, Smith RD (2008) Nanoelectrospray emitter arrays providing interemitter electric field uniformity. Anal Chem 80(14):5660-5665. doi:10.1021/ac800508q
-
(2008)
Anal Chem
, vol.80
, Issue.14
, pp. 5660-5665
-
-
Kelly, R.T.1
Page, J.S.2
Marginean, I.3
Tang, K.Q.4
Smith, R.D.5
-
39
-
-
41149088254
-
Subambient pressure ionization with nanoelectrospray source and interface for improved sensitivity in mass spectrometry
-
doi:10.1021/ac702354b
-
Page JS, Tang K, Kelly RT, Smith RD (2008) Subambient pressure ionization with nanoelectrospray source and interface for improved sensitivity in mass spectrometry. Anal Chem 80(5):1800-1805. doi:10.1021/ac702354b
-
(2008)
Anal Chem
, vol.80
, Issue.5
, pp. 1800-1805
-
-
Page, J.S.1
Tang, K.2
Kelly, R.T.3
Smith, R.D.4
-
40
-
-
34548127562
-
Ionization and transmission efficiency in an electrospray ionization-mass spectrometry interface
-
doi:10.1016/j.jasms.2007.05.018
-
Page JS, Kelly RT, Tang K, Smith RD (2007) Ionization and transmission efficiency in an electrospray ionization-mass spectrometry interface. J Am Soc Mass Spectrom 18(9):1582-1590. doi:10.1016/j.jasms.2007.05.018
-
(2007)
J Am Soc Mass Spectrom
, vol.18
, Issue.9
, pp. 1582-1590
-
-
Page, J.S.1
Kelly, R.T.2
Tang, K.3
Smith, R.D.4
-
41
-
-
80052681763
-
Improving liquid chromatography-mass spectrometry sensitivity using a subambient pressure ionization with nanoelectrospray (SPIN) interface
-
doi:10.1007/s13361-011-0135-7
-
Tang KQ, Page JS, Marginean I, Kelly RT, Smith RD (2011) Improving liquid chromatography-mass spectrometry sensitivity using a subambient pressure ionization with nanoelectrospray (SPIN) interface. J Am Soc Mass Spectrom 22(8):1318-1325. doi:10.1007/s13361-011-0135-7
-
(2011)
J Am Soc Mass Spectrom
, vol.22
, Issue.8
, pp. 1318-1325
-
-
Tang, K.Q.1
Page, J.S.2
Marginean, I.3
Kelly, R.T.4
Smith, R.D.5
-
42
-
-
78449279144
-
Achieving 50% ionization efficiency in subambient pressure ionization with nanoelectrospray
-
doi:10.1021/ac1019123
-
Marginean I, Page JS, Tolmachev AV, Tang KQ, Smith RD (2010) Achieving 50% ionization efficiency in subambient pressure ionization with nanoelectrospray. Anal Chem 82(22):9344-9349. doi:10.1021/ac1019123
-
(2010)
Anal Chem
, vol.82
, Issue.22
, pp. 9344-9349
-
-
Marginean, I.1
Page, J.S.2
Tolmachev, A.V.3
Tang, K.Q.4
Smith, R.D.5
-
43
-
-
79952520637
-
Ion/neutral, ion/electron, ion/photon, and ion/Ion interactions in tandem mass spectrometry: Do we need them all? Are they enough?
-
doi:10.1007/s13361-010-0004-9
-
McLuckey SA, Mentinova M (2011) Ion/neutral, ion/electron, ion/photon, and ion/Ion interactions in tandem mass spectrometry: do we need them all? Are they enough? J Am Soc Mass Spectrom 22(1):3-12. doi:10.1007/s13361-010-0004-9
-
(2011)
J Am Soc Mass Spectrom
, vol.22
, Issue.1
, pp. 3-12
-
-
McLuckey, S.A.1
Mentinova, M.2
-
44
-
-
75749136525
-
Analysis of tandem mass spectra by FTMS for improved large-scale proteomics with superior protein quantification
-
doi:10.1021/ac902005s
-
McAlister GC, Phanstiel D, Wenger CD, Lee MV, Coon JJ (2010) Analysis of tandem mass spectra by FTMS for improved large-scale proteomics with superior protein quantification. Anal Chem 82(1):316-322. doi:10.1021/ac902005s
-
(2010)
Anal Chem
, vol.82
, Issue.1
, pp. 316-322
-
-
McAlister, G.C.1
Phanstiel, D.2
Wenger, C.D.3
Lee, M.V.4
Coon, J.J.5
-
45
-
-
0023386279
-
Instrumentation, applications, and energy deposition in quadrupole ion-trap tandem mass-spectrometry
-
doi:10.1021/ac00140a021
-
Louris JN, Cooks RG, Syka JEP, Kelley PE, Stafford GC, Todd JFJ (1987) Instrumentation, applications, and energy deposition in quadrupole ion-trap tandem mass-spectrometry. Anal Chem 59(13):1677-1685. doi:10.1021/ac00140a021
-
(1987)
Anal Chem
, vol.59
, Issue.13
, pp. 1677-1685
-
-
Louris, J.N.1
Cooks, R.G.2
Syka, J.E.P.3
Kelley, P.E.4
Stafford, G.C.5
Todd, J.F.J.6
-
46
-
-
19944432197
-
Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents
-
doi:10.1074/mcp.M400129-MCP200
-
Ross PL, Huang YLN, Marchese JN, Williamson B, Parker K, Hattan S, Khainovski N, Pillai S, Dey S, Daniels S, Purkayastha S, Juhasz P, Martin S, Bartlet-Jones M, He F, Jacobson A, Pappin DJ (2004) Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents. Mol Cell Proteomics 3(12):1154-1169. doi:10.1074/mcp.M400129-MCP200
-
(2004)
Mol Cell Proteomics
, vol.3
, Issue.12
, pp. 1154-1169
-
-
Ross, P.L.1
Huang, Y.L.N.2
Marchese, J.N.3
Williamson, B.4
Parker, K.5
Hattan, S.6
Khainovski, N.7
Pillai, S.8
Dey, S.9
Daniels, S.10
Purkayastha, S.11
Juhasz, P.12
Martin, S.13
Bartlet-Jones, M.14
He, F.15
Jacobson, A.16
Pappin, D.J.17
-
47
-
-
12444345515
-
Tandem mass tags: A novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS
-
doi:10.1021/ac0262560
-
Thompson A, Schafer J, Kuhn K, Kienle S, Schwarz J, Schmidt G, Neumann T, Hamon C (2003) Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS. Anal Chem 75(8):1895-1904. doi:10.1021/ac0262560
-
(2003)
Anal Chem
, vol.75
, Issue.8
, pp. 1895-1904
-
-
Thompson, A.1
Schafer, J.2
Kuhn, K.3
Kienle, S.4
Schwarz, J.5
Schmidt, G.6
Neumann, T.7
Hamon, C.8
-
48
-
-
36348987990
-
ITRAQ reagentbased quantitative proteomic analysis on a linear ion trap mass spectrometer
-
doi:10.1021/pr070291b
-
Griffin TJ, Xie HW, Bandhakavi S, Popko J, Mohan A, Carlis JV, Higgins L (2007) iTRAQ reagentbased quantitative proteomic analysis on a linear ion trap mass spectrometer. J Proteome Res 6(11):4200-4209. doi:10.1021/pr070291b
-
(2007)
J Proteome Res
, vol.6
, Issue.11
, pp. 4200-4209
-
-
Griffin, T.J.1
Xie, H.W.2
Bandhakavi, S.3
Popko, J.4
Mohan, A.5
Carlis, J.V.6
Higgins, L.7
-
49
-
-
52649098504
-
Robust and sensitive iTRAQ quantification on an LTQ orbitrap mass spectrometer
-
doi:10.1074/mcp.M800029-MCP200
-
Bantscheff M, Boesche M, Eberhard D, Matthieson T, Sweetman G, Kuster B (2008) Robust and sensitive iTRAQ quantification on an LTQ orbitrap mass spectrometer. Mol Cell Proteomics 7(9):1702-1713. doi:10.1074/mcp.M800029-MCP200
-
(2008)
Mol Cell Proteomics
, vol.7
, Issue.9
, pp. 1702-1713
-
-
Bantscheff, M.1
Boesche, M.2
Eberhard, D.3
Matthieson, T.4
Sweetman, G.5
Kuster, B.6
-
50
-
-
79951635872
-
Improved precision of iTRAQ and TMT quantification by an axial extraction field in an orbitrap HCD cell
-
doi:10.1021/ac102265w
-
Pichler P, Kocher T, Holzmann J, Mohring T, Ammerer G, Mechtler K (2011) Improved precision of iTRAQ and TMT quantification by an axial extraction field in an orbitrap HCD cell. Anal Chem 83(4):1469-1474. doi:10.1021/ac102265w
-
(2011)
Anal Chem
, vol.83
, Issue.4
, pp. 1469-1474
-
-
Pichler, P.1
Kocher, T.2
Holzmann, J.3
Mohring, T.4
Ammerer, G.5
Mechtler, K.6
-
51
-
-
78649849874
-
Feasibility of large-scale phosphoproteomics with higher energy collisional dissociation fragmentation
-
doi:10.1021/pr100637q
-
Nagaraj N, D'Souza RCJ, Cox J, Olsen JV, Mann M (2010) Feasibility of large-scale phosphoproteomics with higher energy collisional dissociation fragmentation. J Proteome Res 9(12):6786-6794. doi:10.1021/pr100637q
-
(2010)
J Proteome Res
, vol.9
, Issue.12
, pp. 6786-6794
-
-
Nagaraj, N.1
D'Souza, R.C.J.2
Cox, J.3
Olsen, J.V.4
Mann, M.5
-
52
-
-
0000944563
-
Electron capture dissociation of multiply charged protein cations. A nonergodic process
-
doi:10.1021/ja973478k
-
Zubarev RA, Kelleher NL, McLafferty FW (1998) Electron capture dissociation of multiply charged protein cations. A nonergodic process. J Am Chem Soc 120(13):3265-3266. doi:10.1021/ja973478k
-
(1998)
J Am Chem Soc
, vol.120
, Issue.13
, pp. 3265-3266
-
-
Zubarev, R.A.1
Kelleher, N.L.2
McLafferty, F.W.3
-
53
-
-
33745684811
-
Electron capture dissociation mass spectrometry in characterization of peptides and proteins
-
doi:10.1007/s10529-006-9065-z
-
Bakhtiar R, Guan ZQ (2006) Electron capture dissociation mass spectrometry in characterization of peptides and proteins. Biotechnol Lett 28(14):1047-1059. doi:10.1007/s10529-006-9065-z
-
(2006)
Biotechnol Lett
, vol.28
, Issue.14
, pp. 1047-1059
-
-
Bakhtiar, R.1
Guan, Z.Q.2
-
54
-
-
22144482323
-
Protein identification using sequential ion/ion reactions and tandem mass spectrometry
-
doi:10.1073/pnas.0503189102
-
Coon JJ, Ueberheide B, Syka JEP, Dryhurst DD, Ausio J, Shabanowitz J, Hunt DF (2005) Protein identification using sequential ion/ion reactions and tandem mass spectrometry. Proc Natl Acad Sci U S A 102(27):9463-9468. doi:10.1073/pnas.0503189102
-
(2005)
Proc Natl Acad Sci U S a
, vol.102
, Issue.27
, pp. 9463-9468
-
-
Coon, J.J.1
Ueberheide, B.2
Syka, J.E.P.3
Dryhurst, D.D.4
Ausio, J.5
Shabanowitz, J.6
Hunt, D.F.7
-
55
-
-
3042789073
-
Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry
-
doi:10.1073/pnas.0402700101
-
Syka JEP, Coon JJ, Schroeder MJ, Shabanowitz J, Hunt DF (2004) Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry. Proc Natl Acad Sci U S A 101(26):9528-9533. doi:10.1073/pnas. 0402700101
-
(2004)
Proc Natl Acad Sci U S a
, vol.101
, Issue.26
, pp. 9528-9533
-
-
Syka, J.E.P.1
Coon, J.J.2
Schroeder, M.J.3
Shabanowitz, J.4
Hunt, D.F.5
-
56
-
-
33845435463
-
The utility of ETD mass spectrometry in proteomic analysis
-
doi:10.1016/j.bbapap. 2006.10.003
-
Mikesh LM, Ueberheide B, Chi A, Coon JJ, Syka JEP, Shabanowitz J, Hunt DF (2006) The utility of ETD mass spectrometry in proteomic analysis. BBA-Proteins Proteomics 1764(12):1811-1822. doi:10.1016/j.bbapap. 2006.10.003
-
(2006)
BBA-Proteins Proteomics
, vol.1764
, Issue.12
, pp. 1811-1822
-
-
Mikesh, L.M.1
Ueberheide, B.2
Chi, A.3
Coon, J.J.4
Syka, J.E.P.5
Shabanowitz, J.6
Hunt, D.F.7
-
57
-
-
0038610834
-
Reactions of polypeptide ions with electrons in the gas phase
-
doi:10.1002/mas.10042
-
Zubarev RA (2003) Reactions of polypeptide ions with electrons in the gas phase. Mass Spectrom Rev 22(1):57-77. doi:10.1002/mas.10042
-
(2003)
Mass Spectrom Rev
, vol.22
, Issue.1
, pp. 57-77
-
-
Zubarev, R.A.1
-
58
-
-
55849104839
-
Application of electron transfer dissociation (ETD) for the analysis of posttranslational modifications
-
doi:10.1002/ pmic.200800329
-
Wiesner J, Premsler T, Sickmann A (2008) Application of electron transfer dissociation (ETD) for the analysis of posttranslational modifications. Proteomics 8(21):4466-4483. doi:10.1002/ pmic.200800329
-
(2008)
Proteomics
, vol.8
, Issue.21
, pp. 4466-4483
-
-
Wiesner, J.1
Premsler, T.2
Sickmann, A.3
-
59
-
-
70349113034
-
Determination of glycosylation sites and site-specific heterogeneity in glycoproteins
-
doi:10.1016/j.cbpa.2009.07.022
-
An HJ, Froehlich JW, Lebrilla CB (2009) Determination of glycosylation sites and site-specific heterogeneity in glycoproteins. Curr Opin Chem Biol 13(4):421-426. doi:10.1016/j.cbpa.2009.07.022
-
(2009)
Curr Opin Chem Biol
, vol.13
, Issue.4
, pp. 421-426
-
-
An, H.J.1
Froehlich, J.W.2
Lebrilla, C.B.3
-
60
-
-
67649213067
-
Phosphopeptide fragmentation and analysis by mass spectrometry
-
doi:10.1002/jms.1599
-
Boersema PJ, Mohammed S, Heck AJR (2009) Phosphopeptide fragmentation and analysis by mass spectrometry. J Mass Spectrom 44(6):861-878. doi:10.1002/jms.1599
-
(2009)
J Mass Spectrom
, vol.44
, Issue.6
, pp. 861-878
-
-
Boersema, P.J.1
Mohammed, S.2
Heck, A.J.R.3
-
61
-
-
55849105589
-
Quantitative phosphoproteomics: An emerging key technology in signal-transduction research
-
doi:10.1002/pmic. 200800132
-
Schreiber TB, Mausbacher N, Breitkopf SB, Grundner-Culemann K, Daub H (2008) Quantitative phosphoproteomics: an emerging key technology in signal-transduction research. Proteomics 8(21):4416-4432. doi:10.1002/pmic. 200800132
-
(2008)
Proteomics
, vol.8
, Issue.21
, pp. 4416-4432
-
-
Schreiber, T.B.1
Mausbacher, N.2
Breitkopf, S.B.3
Grundner-Culemann, K.4
Daub, H.5
-
62
-
-
7244221587
-
Infrared multiphoton dissociation (IRMPD) and collisionally activated dissociation of peptides in a quadrupole ion trap with selective IRMPD of phosphopeptides
-
doi:10.1016/j.jasms.2004.07.016
-
Crowe MC, Brodbelt JS (2004) Infrared multiphoton dissociation (IRMPD) and collisionally activated dissociation of peptides in a quadrupole ion trap with selective IRMPD of phosphopeptides. J Am Soc Mass Spectrom 15(11):1581-1592. doi:10.1016/j.jasms.2004.07.016
-
(2004)
J Am Soc Mass Spectrom
, vol.15
, Issue.11
, pp. 1581-1592
-
-
Crowe, M.C.1
Brodbelt, J.S.2
-
63
-
-
24644456406
-
Differentiation of phosphorylated and unphosphorylated peptides by high-performance liquid chromatographyelectrospray ionization-infrared multiphoton dissociation in a quadrupole ion trap
-
doi:10.1021/ac0509410
-
Crowe MC, Brodbelt JS (2005) Differentiation of phosphorylated and unphosphorylated peptides by high-performance liquid chromatographyelectrospray ionization-infrared multiphoton dissociation in a quadrupole ion trap. Anal Chem 77(17):5726-5734. doi:10.1021/ac0509410
-
(2005)
Anal Chem
, vol.77
, Issue.17
, pp. 5726-5734
-
-
Crowe, M.C.1
Brodbelt, J.S.2
-
64
-
-
66149102368
-
Infrared multiphoton dissociation in quadrupole ion traps
-
doi:10.1002/mas.20216
-
Brodbelt JS, Wilson JJ (2009) Infrared multiphoton dissociation in quadrupole ion traps. Mass Spectrom Rev 28(3):390-424. doi:10.1002/mas.20216
-
(2009)
Mass Spectrom Rev
, vol.28
, Issue.3
, pp. 390-424
-
-
Brodbelt, J.S.1
Wilson, J.J.2
-
65
-
-
0027997748
-
Infrared multiphoton dissociation of large multiply-charged ions for biomolecule sequencing
-
doi:10.1021/ac00090a004
-
Little DP, Speir JP, Senko MW, Oconnor PB, McLafferty FW (1994) Infrared multiphoton dissociation of large multiply-charged ions for biomolecule sequencing. Anal Chem 66(18):2809-2815. doi:10.1021/ac00090a004
-
(1994)
Anal Chem
, vol.66
, Issue.18
, pp. 2809-2815
-
-
Little, D.P.1
Speir, J.P.2
Senko, M.W.3
Oconnor, P.B.4
McLafferty, F.W.5
-
66
-
-
70349917570
-
Ultraviolet photodissociation: Developments towards applications for massspectrometry-based proteomics
-
doi:10.1002/anie.200900613
-
Ly T, Julian RR (2009) Ultraviolet photodissociation: developments towards applications for massspectrometry-based proteomics. Angew Chem Int Ed 48(39):7130-7137. doi:10.1002/anie.200900613
-
(2009)
Angew Chem Int Ed
, vol.48
, Issue.39
, pp. 7130-7137
-
-
Ly, T.1
Julian, R.R.2
-
67
-
-
66149151341
-
Ultraviolet photofragmentation of biomolecular ions
-
doi:10.1002/mas.20214
-
Reilly JP (2009) Ultraviolet photofragmentation of biomolecular ions. Mass Spectrom Rev 28(3):425-447. doi:10.1002/mas.20214
-
(2009)
Mass Spectrom Rev
, vol.28
, Issue.3
, pp. 425-447
-
-
Reilly, J.P.1
-
68
-
-
0034652301
-
Automated identification of amino acid sequence variations in proteins by HPLC/microspray tandem mass spectrometry
-
doi:10.1021/ac991025n
-
Gatlin CL, Eng JK, Cross ST, Detter JC, Yates JR (2000) Automated identification of amino acid sequence variations in proteins by HPLC/microspray tandem mass spectrometry. Anal Chem 72(4):757-763. doi:10.1021/ac991025n
-
(2000)
Anal Chem
, vol.72
, Issue.4
, pp. 757-763
-
-
Gatlin, C.L.1
Eng, J.K.2
Cross, S.T.3
Detter, J.C.4
Yates, J.R.5
-
69
-
-
0034655385
-
Accurate mass multiplexed tandem mass spectrometry for high-throughput polypeptide identification from mixtures
-
doi:10.1021/ac991133C 70.
-
Masselon C, Anderson GA, Harkewicz R, Bruce JE, Pasa-Tolic L, Smith RD (2000) Accurate mass multiplexed tandem mass spectrometry for high-throughput polypeptide identification from mixtures. Anal Chem 72(8):1918-1924. doi:10.1021/ac991133C 70.
-
(2000)
Anal Chem
, vol.72
, Issue.8
, pp. 1918-1924
-
-
Masselon, C.1
Anderson, G.A.2
Harkewicz, R.3
Bruce, J.E.4
Pasa-Tolic, L.5
Smith, R.D.6
-
70
-
-
0038047154
-
Shotgun collision-induced dissociation of peptides using a time of flight mass analyzer
-
doi:10.1002/pmic.200300362
-
Purvine S, Eppel JT, Yi EC, Goodlett DR (2003) Shotgun collision-induced dissociation of peptides using a time of flight mass analyzer. Proteomics 3(6):847-850. doi:10.1002/pmic.200300362
-
(2003)
Proteomics
, vol.3
, Issue.6
, pp. 847-850
-
-
Purvine, S.1
Eppel, J.T.2
Yi, E.C.3
Goodlett, D.R.4
-
71
-
-
20144388265
-
Quantitative proteomic analysis by accurate mass retention time pairs
-
doi:10.1021/ac048455k
-
Silva JC, Denny R, Dorschel CA, Gorenstein M, Kass IJ, Li GZ, McKenna T, Nold MJ, Richardson K, Young P, Geromanos S (2005) Quantitative proteomic analysis by accurate mass retention time pairs. Anal Chem 77(7):2187-2200. doi:10.1021/ac048455k
-
(2005)
Anal Chem
, 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
-
72
-
-
77957990113
-
Proteomics on an orbitrap benchtop mass spectrometer using All-ion fragmentation
-
doi:10.1074/mcp.M110.001537
-
Geiger T, Cox J, Mann M (2010) Proteomics on an orbitrap benchtop mass spectrometer using All-ion fragmentation. Mol Cell Proteomics 9(10):2252-2261. doi:10.1074/mcp.M110.001537
-
(2010)
Mol Cell Proteomics
, vol.9
, Issue.10
, pp. 2252-2261
-
-
Geiger, T.1
Cox, J.2
Mann, M.3
-
73
-
-
20244381257
-
Highthroughput peptide identification from protein digests using data-dependent multiplexed tandem FTICR mass spectrometry coupled with capillary liquid chromatography
-
doi:10.1021/ac010192w
-
Li LJ, Masselon CD, Anderson GA, Pasa-Tolic L, Lee SW, Shen YF, Zhao R, Lipton MS, Conrads TP, Tolic N, Smith RD (2001) Highthroughput peptide identification from protein digests using data-dependent multiplexed tandem FTICR mass spectrometry coupled with capillary liquid chromatography. Anal Chem 73(14):3312-3322. doi:10.1021/ac010192w
-
(2001)
Anal Chem
, vol.73
, Issue.14
, pp. 3312-3322
-
-
Li, L.J.1
Masselon, C.D.2
Anderson, G.A.3
Pasa-Tolic, L.4
Lee, S.W.5
Shen, Y.F.6
Zhao, R.7
Lipton, M.S.8
Conrads, T.P.9
Tolic, N.10
Smith, R.D.11
-
74
-
-
68049114653
-
Precursor acquisition independent from ion count: How to dive deeper into the proteomics ocean
-
doi:10.1021/ac900888s
-
Panchaud A, Scherl A, Shaffer SA, von Haller PD, Kulasekara HD, Miller SI, Goodlett DR (2009) Precursor acquisition independent from ion count: how to dive deeper into the proteomics ocean. Anal Chem 81(15):6481-6488. doi:10.1021/ac900888s
-
(2009)
Anal Chem
, vol.81
, Issue.15
, pp. 6481-6488
-
-
Panchaud, A.1
Scherl, A.2
Shaffer, S.A.3
Von Haller, P.D.4
Kulasekara, H.D.5
Miller, S.I.6
Goodlett, D.R.7
-
75
-
-
14744293536
-
Automated approach for quantitative analysis of complex peptide mixtures from tandem mass spectra
-
doi:10.1038/nmeth705
-
Venable JD, Dong MQ, Wohlschlegel J, Dillin A, Yates JR (2004) Automated approach for quantitative analysis of complex peptide mixtures from tandem mass spectra. Nat Methods 1(1):39-45. doi:10.1038/nmeth705
-
(2004)
Nat Methods
, vol.1
, Issue.1
, pp. 39-45
-
-
Venable, J.D.1
Dong, M.Q.2
Wohlschlegel, J.3
Dillin, A.4
Yates, J.R.5
-
76
-
-
79954569537
-
Faster, quantitative, and accurate precursor acquisition independent from ion count
-
doi:10.1021/ac103079q
-
Panchaud A, Jung S, Shaffer SA, Aitchison JD, Goodlett DR (2011) Faster, quantitative, and accurate precursor acquisition independent from ion count. Anal Chem 83(6):2250-2257. doi:10.1021/ac103079q
-
(2011)
Anal Chem
, vol.83
, Issue.6
, pp. 2250-2257
-
-
Panchaud, A.1
Jung, S.2
Shaffer, S.A.3
Aitchison, J.D.4
Goodlett, D.R.5
-
77
-
-
0035226437
-
Towards defining the urinary proteome using liquid chromatographytandem mass spectrometry - II. Limitations of complex mixture analyses
-
doi:10.1002/1615-9861(200101)1:1 <108:aidprot108> 3.0.co;2-5
-
Davis MT, Spahr CS, McGinley MD, Robinson JH, Bures EJ, Beierle J, Mort J, Yu W, Luethy R, Patterson SD (2001) Towards defining the urinary proteome using liquid chromatographytandem mass spectrometry - II. Limitations of complex mixture analyses. Proteomics 1(1):108-117. doi:10.1002/1615-9861(200101)1: 1<108:aidprot108>3.0.co;2-5
-
(2001)
Proteomics
, vol.1
, Issue.1
, pp. 108-117
-
-
Davis, M.T.1
Spahr, C.S.2
McGinley, M.D.3
Robinson, J.H.4
Bures, E.J.5
Beierle, J.6
Mort, J.7
Yu, W.8
Luethy, R.9
Patterson, S.D.10
-
78
-
-
0034016574
-
Mass spectrometric identification of proteins released from mitochondria undergoing permeability transition
-
doi:10.1038/sj.cdd.4400640
-
Patterson SD, Spahr CS, Daugas E, Susin SA, Irinopoulou T, Koehler C, Kroemer G (2000) Mass spectrometric identification of proteins released from mitochondria undergoing permeability transition. Cell Death Differ 7(2):137-144. doi:10.1038/sj.cdd.4400640
-
(2000)
Cell Death Differ
, vol.7
, Issue.2
, pp. 137-144
-
-
Patterson, S.D.1
Spahr, C.S.2
Daugas, E.3
Susin, S.A.4
Irinopoulou, T.5
Koehler, C.6
Kroemer, G.7
-
79
-
-
0035237935
-
Towards defining the urinary proteome using liquid chromatography-tandem mass spectrometry I. Profiling an unfractionated tryptic digest
-
doi:10.1002/1615-9861(200101)1:1 <93::aid-prot93> 3.0.co;2-3
-
Spahr CS, Davis MT, McGinley MD, Robinson JH, Bures EJ, Beierle J, Mort J, Courchesne PL, Chen K, Wahl RC, Yu W, Luethy R, Patterson SD (2001) Towards defining the urinary proteome using liquid chromatography-tandem mass spectrometry I. Profiling an unfractionated tryptic digest. Proteomics 1(1):93-107. doi:10.1002/1615-9861(200101)1:1<93::aid-prot93>3.0.co;2-3
-
(2001)
Proteomics
, vol.1
, Issue.1
, pp. 93-107
-
-
Spahr, C.S.1
Davis, M.T.2
McGinley, M.D.3
Robinson, J.H.4
Bures, E.J.5
Beierle, J.6
Mort, J.7
Courchesne, P.L.8
Chen, K.9
Wahl, R.C.10
Yu, W.11
Luethy, R.12
Patterson, S.D.13
-
80
-
-
0036747350
-
Approaching complete peroxisome characterization by gas-phase fractionation
-
doi:10.1002/1522-2683(200209)23:18 <3205::aidelps3205> 3.0.co;2-y
-
Yi EC, Marelli M, Lee H, Purvine SO, Aebersold R, Aitchison JD, Goodlett DR (2002) Approaching complete peroxisome characterization by gas-phase fractionation. Electrophoresis 23(18):3205-3216. doi:10.1002/1522-2683(200209) 23:18<3205::aidelps3205>3.0.co;2-y
-
(2002)
Electrophoresis
, vol.23
, Issue.18
, pp. 3205-3216
-
-
Yi, E.C.1
Marelli, M.2
Lee, H.3
Purvine, S.O.4
Aebersold, R.5
Aitchison, J.D.6
Goodlett, D.R.7
-
81
-
-
39449111536
-
Genome-specific gas-phase fractionation strategy for improved shotgun proteomic profiling of proteotypic peptides
-
doi:10.1021/ ac701680f
-
Scherl A, Shaffer SA, Taylor GK, Kulasekara HD, Miller SI, Goodlett DR (2008) Genome-specific gas-phase fractionation strategy for improved shotgun proteomic profiling of proteotypic peptides. Anal Chem 80(4):1182-1191. doi:10.1021/ ac701680f
-
(2008)
Anal Chem
, vol.80
, Issue.4
, pp. 1182-1191
-
-
Scherl, A.1
Shaffer, S.A.2
Taylor, G.K.3
Kulasekara, H.D.4
Miller, S.I.5
Goodlett, D.R.6
-
82
-
-
79961185259
-
Ion mobility mass spectrometry for peptide analysis
-
doi:10.1016/j.ymeth. 2011.05.004
-
Harvey SR, MacPhee CE, Barran PE (2011) Ion mobility mass spectrometry for peptide analysis. Methods 54(4):454-461. doi:10.1016/j.ymeth. 2011.05.004
-
(2011)
Methods
, vol.54
, Issue.4
, pp. 454-461
-
-
Harvey, S.R.1
Macphee, C.E.2
Barran, P.E.3
-
83
-
-
0035891934
-
Multidimensional separations of complex peptide mixtures: A combined high-performance liquid chromatography/ion mobility/time-of-flight mass spectrometry approach
-
doi:10.1016/s1387-3806(01) 00511-5
-
Valentine SJ, Kulchania M, Barnes CAS, Clemmer DE (2001) Multidimensional separations of complex peptide mixtures: a combined high-performance liquid chromatography/ion mobility/time-of-flight mass spectrometry approach. Int J Mass Spectrom 212(1-3):97-109. doi:10.1016/s1387-3806(01) 00511-5
-
(2001)
Int J Mass Spectrom
, vol.212
, Issue.1-3
, pp. 97-109
-
-
Valentine, S.J.1
Kulchania, M.2
Barnes, C.A.S.3
Clemmer, D.E.4
-
84
-
-
0033567898
-
Gas phase separations of electrosprayed peptide libraries
-
doi:10.1021/ac9903757
-
Srebalus CA, Li JW, Marshall WS, Clemmer DE (1999) Gas phase separations of electrosprayed peptide libraries. Anal Chem 71(18):3918-3927. doi:10.1021/ac9903757
-
(1999)
Anal Chem
, vol.71
, Issue.18
, pp. 3918-3927
-
-
Srebalus, C.A.1
Li, J.W.2
Marshall, W.S.3
Clemmer, D.E.4
-
85
-
-
77949801007
-
High-resolution differential ion mobility separations using helium-rich gases
-
doi:10.1021/ac902852a
-
Shvartsburg AA, Danielson WF, Smith RD (2010) High-resolution differential ion mobility separations using helium-rich gases. Anal Chem 82(6):2456-2462. doi:10.1021/ac902852a
-
(2010)
Anal Chem
, vol.82
, Issue.6
, pp. 2456-2462
-
-
Shvartsburg, A.A.1
Danielson, W.F.2
Smith, R.D.3
-
86
-
-
75749092642
-
Differential ion mobility separations of peptides with resolving power exceeding 50
-
doi:10.1021/ac902133n
-
Shvartsburg AA, Tang KQ, Smith RD (2010) Differential ion mobility separations of peptides with resolving power exceeding 50. Anal Chem 82(1):32-35. doi:10.1021/ac902133n
-
(2010)
Anal Chem
, vol.82
, Issue.1
, pp. 32-35
-
-
Shvartsburg, A.A.1
Tang, K.Q.2
Smith, R.D.3
-
87
-
-
77956574893
-
High-resolution differential ion mobility separations using planar analyzers at elevated dispersion fields
-
doi:10.1021/ac101413k
-
Shvartsburg AA, Prior DC, Tang KQ, Smith RD (2010) High-resolution differential ion mobility separations using planar analyzers at elevated dispersion fields. Anal Chem 82(18):7649-7655. doi:10.1021/ac101413k
-
(2010)
Anal Chem
, vol.82
, Issue.18
, pp. 7649-7655
-
-
Shvartsburg, A.A.1
Prior, D.C.2
Tang, K.Q.3
Smith, R.D.4
-
88
-
-
33744949963
-
High-resolution field asymmetric waveform ion mobility spectrometry using new planar geometry analyzers
-
doi:10.1021/ac052020v
-
Shvartsburg AA, Li FM, Tang KQ, Smith RD (2006) High-resolution field asymmetric waveform ion mobility spectrometry using new planar geometry analyzers. Anal Chem 78(11):3706-3714. doi:10.1021/ac052020v
-
(2006)
Anal Chem
, vol.78
, Issue.11
, pp. 3706-3714
-
-
Shvartsburg, A.A.1
Li, F.M.2
Tang, K.Q.3
Smith, R.D.4
-
89
-
-
79959964339
-
Ion mobility separation of isomeric phosphopeptides from a protein with variant modification of adjacent residues
-
doi:10.1021/ac200985s
-
Shvartsburg AA, Singer D, Smith RD, Hoffmann R (2011) Ion mobility separation of isomeric phosphopeptides from a protein with variant modification of adjacent residues. Anal Chem 83(13):5078-5085. doi:10.1021/ac200985s
-
(2011)
Anal Chem
, vol.83
, Issue.13
, pp. 5078-5085
-
-
Shvartsburg, A.A.1
Singer, D.2
Smith, R.D.3
Hoffmann, R.4
-
90
-
-
5444250387
-
Applications of a travelling wave-based radio-frequencyonly stacked ring ion guide
-
doi:10.1002/rcm.1641
-
Giles K, Pringle SD, Worthington KR, Little D, Wildgoose JL, Bateman RH (2004) Applications of a travelling wave-based radio-frequencyonly stacked ring ion guide. Rapid Commun Mass Spectrom 18(20):2401-2414. doi:10.1002/rcm.1641
-
(2004)
Rapid Commun Mass Spectrom
, vol.18
, Issue.20
, pp. 2401-2414
-
-
Giles, K.1
Pringle, S.D.2
Worthington, K.R.3
Little, D.4
Wildgoose, J.L.5
Bateman, R.H.6
-
91
-
-
33846811132
-
An investigation of the mobility separation of some peptide and protein ions using a new hybrid quadrupole/travelling wave IMS/oa-ToF instrument
-
doi:10.1016/j.ijms.2006.07.021
-
Pringle SD, Giles K, Wildgoose JL, Williams JP, Slade SE, Thalassinos K, Bateman RH, Bowers MT, Scrivens JH (2007) An investigation of the mobility separation of some peptide and protein ions using a new hybrid quadrupole/travelling wave IMS/oa-ToF instrument. Int J Mass Spectrom 261(1):1-12. doi:10.1016/j.ijms.2006.07.021
-
(2007)
Int J Mass Spectrom
, vol.261
, Issue.1
, pp. 1-12
-
-
Pringle, S.D.1
Giles, K.2
Wildgoose, J.L.3
Williams, J.P.4
Slade, S.E.5
Thalassinos, K.6
Bateman, R.H.7
Bowers, M.T.8
Scrivens, J.H.9
-
92
-
-
70549084975
-
Directed mass spectrometry: Towards hypothesisdriven proteomics
-
doi:10.1016/j.cbpa.2009.08.016
-
Schmidt A, Claassen M, Aebersold R (2009) Directed mass spectrometry: towards hypothesisdriven proteomics. Curr Opin Chem Biol 13(5-6):510-517. doi:10.1016/j.cbpa.2009.08.016
-
(2009)
Curr Opin Chem Biol
, vol.13
, Issue.5-6
, pp. 510-517
-
-
Schmidt, A.1
Claassen, M.2
Aebersold, R.3
-
93
-
-
55349134214
-
The interface between biomarker discovery and clinical validation: The tar pit of the protein biomarker pipeline
-
doi:10.1002/prca.200780174
-
Paulovich AG, Whiteaker JR, Hoofnagle AN, Wang P (2008) The interface between biomarker discovery and clinical validation: the tar pit of the protein biomarker pipeline. Proteomics Clin Appl 2(10-11):1386-1402. doi:10.1002/prca.200780174
-
(2008)
Proteomics Clin Appl
, vol.2
, Issue.10-11
, pp. 1386-1402
-
-
Paulovich, A.G.1
Whiteaker, J.R.2
Hoofnagle, A.N.3
Wang, P.4
-
94
-
-
68749094119
-
Full dynamic range proteome analysis of S. Cerevisiae by targeted proteomics
-
doi:10.1016/ j.cell.2009.05.051
-
Picotti P, Bodenmiller B, Mueller LN, Domon B, Aebersold R (2009) Full dynamic range proteome analysis of S. Cerevisiae by targeted proteomics. Cell 138(4):795-806. doi:10.1016/ j.cell.2009.05.051
-
(2009)
Cell
, vol.138
, Issue.4
, pp. 795-806
-
-
Picotti, P.1
Bodenmiller, B.2
Mueller, L.N.3
Domon, B.4
Aebersold, R.5
-
95
-
-
59849093889
-
Prediction of high-responding peptides for targeted protein assays by mass spectrometry
-
doi:10.1038/nbt.1524
-
Fusaro VA, Mani DR, Mesirov JP, Carr SA (2009) Prediction of high-responding peptides for targeted protein assays by mass spectrometry. Nat Biotechnol 27(2):190-198. doi:10.1038/nbt.1524
-
(2009)
Nat Biotechnol
, vol.27
, Issue.2
, pp. 190-198
-
-
Fusaro, V.A.1
Mani, D.R.2
Mesirov, J.P.3
Carr, S.A.4
-
96
-
-
33846133955
-
Computational prediction of proteotypic peptides for quantitative proteomics
-
doi:10.1038/nbt1275
-
Mallick P, Schirle M, Chen SS, Flory MR, Lee H, Martin D, Raught B, Schmitt R, Werner T, Kuster B, Aebersold R (2007) Computational prediction of proteotypic peptides for quantitative proteomics. Nat Biotechnol 25(1):125-131. doi:10.1038/nbt1275
-
(2007)
Nat Biotechnol
, vol.25
, Issue.1
, pp. 125-131
-
-
Mallick, P.1
Schirle, M.2
Chen, S.S.3
Flory, M.R.4
Lee, H.5
Martin, D.6
Raught, B.7
Schmitt, R.8
Werner, T.9
Kuster, B.10
Aebersold, R.11
-
97
-
-
43049127826
-
PeptideAtlas: A resource for target selection for emerging targeted proteomics workflows
-
doi:10.1038/embor.2008.56
-
Deutsch EW, Lam H, Aebersold R (2008) PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows. EMBO Rep 9(5):429-434. doi:10.1038/embor.2008.56
-
(2008)
EMBO Rep
, vol.9
, Issue.5
, pp. 429-434
-
-
Deutsch, E.W.1
Lam, H.2
Aebersold, R.3
-
98
-
-
79959499115
-
A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas
-
doi:10.1074/mcp.M110.006353
-
Farrah T, Deutsch EW, Omenn GS, Campbell DS, Sun Z, Bletz JA, Mallick P, Katz JE, Malmstrom J, Ossola R, Watts JD, Lin BAY, Zhang H, Moritz RL, Aebersold R (2011) A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas. Mol Cell Proteomics 10(9). doi:10.1074/mcp.M110. 006353
-
(2011)
Mol Cell Proteomics
, vol.10
, Issue.9
-
-
Farrah, T.1
Deutsch, E.W.2
Omenn, G.S.3
Campbell, D.S.4
Sun, Z.5
Bletz, J.A.6
Mallick, P.7
Katz, J.E.8
Malmstrom, J.9
Ossola, R.10
Watts, J.D.11
Lin, B.A.Y.12
Zhang, H.13
Moritz, R.L.14
Aebersold, R.15
-
99
-
-
79953227740
-
Increased selectivity, analytical precision, and throughput in targeted proteomics
-
doi:10.1074/mcp.M110.002931
-
Kiyonami R, Schoen A, Prakash A, Peterman S, Zabrouskov V, Picotti P, Aebersold R, Huhmer A, Domon B (2011) Increased selectivity, analytical precision, and throughput in targeted proteomics. Mol Cell Proteomics 10(2). doi:10.1074/mcp.M110.002931
-
(2011)
Mol Cell Proteomics
, vol.10
, Issue.2
-
-
Kiyonami, R.1
Schoen, A.2
Prakash, A.3
Peterman, S.4
Zabrouskov, V.5
Picotti, P.6
Aebersold, R.7
Huhmer, A.8
Domon, B.9
-
100
-
-
67650564834
-
Multi-site assessment of the precision and reproducibility of multiple reaction monitoringbased measurements of proteins in plasma
-
doi:nbt.1546 [pii] 10.1038/ nbt.1546
-
Addona TA, Abbatiello SE, Schilling B, Skates SJ, Mani DR, Bunk DM, Spiegelman CH, Zimmerman LJ, Ham AJ, Keshishian H, Hall SC, Allen S, Blackman RK, Borchers CH, Buck C, Cardasis HL, Cusack MP, Dodder NG, Gibson BW, Held JM, Hiltke T, Jackson A, Johansen EB, Kinsinger CR, Li J, Mesri M, Neubert TA, Niles RK, Pulsipher TC, Ransohoff D, Rodriguez H, Rudnick PA, Smith D, Tabb DL, Tegeler TJ, Variyath AM, Vega-Montoto LJ, Wahlander A, Waldemarson S, Wang M, Whiteaker JR, Zhao L, Anderson NL, Fisher SJ, Liebler DC, Paulovich AG, Regnier FE, Tempst P, Carr SA (2009) Multi-site assessment of the precision and reproducibility of multiple reaction monitoringbased measurements of proteins in plasma. Nat Biotechnol 27(7):633-641. doi:nbt.1546 [pii] 10.1038/ nbt.1546
-
(2009)
Nat Biotechnol
, vol.27
, Issue.7
, pp. 633-641
-
-
Addona, T.A.1
Abbatiello, S.E.2
Schilling, B.3
Skates, S.J.4
Mani, D.R.5
Bunk, D.M.6
Spiegelman, C.H.7
Zimmerman, L.J.8
Ham, A.J.9
Keshishian, H.10
Hall, S.C.11
Allen, S.12
Blackman, R.K.13
Borchers, C.H.14
Buck, C.15
Cardasis, H.L.16
Cusack, M.P.17
Dodder, N.G.18
Gibson, B.W.19
Held, J.M.20
Hiltke, T.21
Jackson, A.22
Johansen, E.B.23
Kinsinger, C.R.24
Li, J.25
Mesri, M.26
Neubert, T.A.27
Niles, R.K.28
Pulsipher, T.C.29
Ransohoff, D.30
Rodriguez, H.31
Rudnick, P.A.32
Smith, D.33
Tabb, D.L.34
Tegeler, T.J.35
Variyath, A.M.36
Vega-Montoto, L.J.37
Wahlander, A.38
Waldemarson, S.39
Wang, M.40
Whiteaker, J.R.41
Zhao, L.42
Anderson, N.L.43
Fisher, S.J.44
Liebler, D.C.45
Paulovich, A.G.46
Regnier, F.E.47
Tempst, P.48
Carr, S.A.49
more..
-
101
-
-
79955069761
-
Applying selected reaction monitoring to targeted proteomics
-
doi:10.1586/epr.11.11
-
Calvo E, Camafeita E, Fernandez-Gutierrez B, Lopez JA (2011) Applying selected reaction monitoring to targeted proteomics. Expert Rev Proteomics 8(2):165-173. doi:10.1586/epr.11.11
-
(2011)
Expert Rev Proteomics
, vol.8
, Issue.2
, pp. 165-173
-
-
Calvo, E.1
Camafeita, E.2
Fernandez-Gutierrez, B.3
Lopez, J.A.4
-
102
-
-
77952408229
-
Recent progress in selected reaction monitoring MS-driven plasma protein biomarker analysis
-
doi:10.4155/bio.09.56
-
Chiu CL, Randall S, Molloy MP (2009) Recent progress in selected reaction monitoring MS-driven plasma protein biomarker analysis. Bioanalysis 1(4):847-855. doi:10.4155/bio.09.56
-
(2009)
Bioanalysis
, vol.1
, Issue.4
, pp. 847-855
-
-
Chiu, C.L.1
Randall, S.2
Molloy, M.P.3
-
103
-
-
78751675280
-
Targeted proteomics by selected reaction monitoring mass spectrometry: Applications to systems biology and biomarker discovery
-
doi:10.1039/c0mb00159g
-
Elschenbroich S, Kislinger T (2011) Targeted proteomics by selected reaction monitoring mass spectrometry: applications to systems biology and biomarker discovery. Mol Biosyst 7(2):292-303. doi:10.1039/c0mb00159g
-
(2011)
Mol Biosyst
, vol.7
, Issue.2
, pp. 292-303
-
-
Elschenbroich, S.1
Kislinger, T.2
-
104
-
-
79951530395
-
On the development of plasma protein biomarkers
-
doi:10.1021/pr1008515
-
Surinova S, Schiess R, Huttenhain R, Cerciello F, Wollscheid B, Aebersold R (2011) On the development of plasma protein biomarkers. J Proteome Res 10(1):5-16. doi:10.1021/pr1008515
-
(2011)
J Proteome Res
, vol.10
, Issue.1
, pp. 5-16
-
-
Surinova, S.1
Schiess, R.2
Huttenhain, R.3
Cerciello, F.4
Wollscheid, B.5
Aebersold, R.6
-
105
-
-
57049144338
-
MRMer, an interactive open source and cross-platform system for data extraction and visualization of multiple reaction monitoring experiments
-
doi:10.1074/mcp.M700504-MCP200
-
Martin DB, Holzman T, May D, Peterson A, Eastham A, Eng J, McIntosh M (2008) MRMer, an interactive open source and cross-platform system for data extraction and visualization of multiple reaction monitoring experiments. Mol Cell Proteomics 7(11):2270-2278. doi:10.1074/mcp.M700504-MCP200
-
(2008)
Mol Cell Proteomics
, vol.7
, Issue.11
, pp. 2270-2278
-
-
Martin, D.B.1
Holzman, T.2
May, D.3
Peterson, A.4
Eastham, A.5
Eng, J.6
McIntosh, M.7
-
106
-
-
66149134917
-
MRMaid, the web-based tool for designing multiple reaction monitoring (MRM) transitions
-
doi:10.1074/mcp.M800192-MCP200
-
Mead JA, Bianco L, Ottone V, Barton C, Kay RG, Lilley KS, Bond NJ, Bessant C (2009) MRMaid, the web-based tool for designing multiple reaction monitoring (MRM) transitions. Mol Cell Proteomics 8(4):696-705. doi:10.1074/mcp.M800192-MCP200
-
(2009)
Mol Cell Proteomics
, vol.8
, Issue.4
, pp. 696-705
-
-
Mead, J.A.1
Bianco, L.2
Ottone, V.3
Barton, C.4
Kay, R.G.5
Lilley, K.S.6
Bond, N.J.7
Bessant, C.8
-
107
-
-
70349972789
-
MaRiMba: A software application for spectral library-based MRM transition list assembly
-
doi:10.1021/pr900010h
-
Sherwood CA, Eastham A, Lee LW, Peterson A, Eng JK, Shteynberg D, Mendoza L, Deutsch EW, Risler J, Tasman N, Aebersold R, Lam H, Martin DB (2009) MaRiMba: a software application for spectral library-based MRM transition list assembly. J Proteome Res 8(10):4396-4405. doi:10.1021/pr900010h
-
(2009)
J Proteome Res
, vol.8
, Issue.10
, pp. 4396-4405
-
-
Sherwood, C.A.1
Eastham, A.2
Lee, L.W.3
Peterson, A.4
Eng, J.K.5
Shteynberg, D.6
Mendoza, L.7
Deutsch, E.W.8
Risler, J.9
Tasman, N.10
Aebersold, R.11
Lam, H.12
Martin, D.B.13
-
108
-
-
77951965920
-
Skyline: An open source document editor for creating and analyzing targeted proteomics experiments
-
doi:10.1093/bioinformatics/btq054
-
MacLean B, Tomazela DM, Shulman N, Chambers M, Finney GL, Frewen B, Kern R, Tabb DL, Liebler DC, MacCoss MJ (2010) Skyline: an open source document editor for creating and analyzing targeted proteomics experiments. Bioinformatics 26(7):966-968. doi:10.1093/bioinformatics/btq054
-
(2010)
Bioinformatics
, vol.26
, Issue.7
, pp. 966-968
-
-
Maclean, B.1
Tomazela, D.M.2
Shulman, N.3
Chambers, M.4
Finney, G.L.5
Frewen, B.6
Kern, R.7
Tabb, D.L.8
Liebler, D.C.9
Maccoss, M.J.10
-
109
-
-
78650355102
-
Effect of collision energy optimization on the measurement of peptides by selected reaction monitoring (SRM) mass spectrometry
-
doi:10.1021/ac102179j
-
MacLean B, Tomazela DM, Abbatiello SE, Zhang SC, Whiteaker JR, Paulovich AG, Carr SA, Mac-Coss MJ (2010) Effect of collision energy optimization on the measurement of peptides by selected reaction monitoring (SRM) mass spectrometry. Anal Chem 82(24):10116-10124. doi:10.1021/ac102179j
-
(2010)
Anal Chem
, vol.82
, Issue.24
, pp. 10116-10124
-
-
Maclean, B.1
Tomazela, D.M.2
Abbatiello, S.E.3
Zhang, S.C.4
Whiteaker, J.R.5
Paulovich, A.G.6
Carr, S.A.7
Mac-Coss, M.J.8
-
110
-
-
67049132416
-
Expediting the development of targeted SRM assays: Using data from shotgun proteomics to automate method development
-
doi:10.1021/pr801028b
-
Prakash A, Tomazela DM, Frewen B, MacLean B, Merrihew G, Peterman S, MacCoss MJ (2009) Expediting the development of targeted SRM assays: using data from shotgun proteomics to automate method development. J Proteome Res 8(6):2733-2739. doi:10.1021/pr801028b
-
(2009)
J Proteome Res
, vol.8
, Issue.6
, pp. 2733-2739
-
-
Prakash, A.1
Tomazela, D.M.2
Frewen, B.3
Maclean, B.4
Merrihew, G.5
Peterman, S.6
Maccoss, M.J.7
-
111
-
-
0027686255
-
Protein ladder sequencing
-
Chait BT, Wang R, Beavis RC, Kent SBH (1993) Protein ladder sequencing. Science 262(5130): 89-92
-
(1993)
Science
, vol.262
, Issue.5130
, pp. 89-92
-
-
Chait, B.T.1
Wang, R.2
Beavis, R.C.3
Kent, S.B.H.4
-
112
-
-
52949099571
-
Comparison of algorithms for pre-processing of SELDI-TOF mass spectrometry data
-
doi:btn398 [pii] 10.1093/bioinformatics/btn398
-
Cruz-Marcelo A, Guerra R, Vannucci M, Li Y, Lau CC, Man TK (2008) Comparison of algorithms for pre-processing of SELDI-TOF mass spectrometry data. Bioinformatics 24(19):2129-2136. doi:btn398 [pii] 10.1093/bioinformatics/btn398
-
(2008)
Bioinformatics
, vol.24
, Issue.19
, pp. 2129-2136
-
-
Cruz-Marcelo, A.1
Guerra, R.2
Vannucci, M.3
Li, Y.4
Lau, C.C.5
Man, T.K.6
-
113
-
-
79953139278
-
Protein mass spectra data analysis for clinical biomarker discovery: A global review
-
doi:bbq019 [pii] 10.1093/bib/bbq019
-
Roy P, Truntzer C, Maucort-Boulch D, Jouve T, Molinari N (2011) Protein mass spectra data analysis for clinical biomarker discovery: a global review. Brief Bioinform 12(2):176-186. doi:bbq019 [pii] 10.1093/bib/bbq019
-
(2011)
Brief Bioinform
, vol.12
, Issue.2
, pp. 176-186
-
-
Roy, P.1
Truntzer, C.2
Maucort-Boulch, D.3
Jouve, T.4
Molinari, N.5
-
114
-
-
77952509680
-
Feature detection techniques for preprocessing proteomic data
-
doi:10.1155/2010/896718
-
Sellers KF, Miecznikowski JC (2010) Feature detection techniques for preprocessing proteomic data. Int J Biomed Imaging 2010:896718. doi:10.1155/2010/896718
-
(2010)
Int J Biomed Imaging
, vol.2010
, pp. 896718
-
-
Sellers, K.F.1
Miecznikowski, J.C.2
-
115
-
-
67449160970
-
Classification-based comparison of pre-processing methods for interpretation of mass spectrometry generated clinical datasets
-
doi:1477-5956-7-19 [pii] 10.1186/1477-5956-7-19
-
Wegdam W, Moerland PD, Buist MR, Loren V, van Themaat E, Bleijlevens B, Hoefsloot HC, de Koster CG, Aerts JM (2009) Classification-based comparison of pre-processing methods for interpretation of mass spectrometry generated clinical datasets. Proteome Sci 7:19. doi:1477-5956-7-19 [pii] 10.1186/1477-5956-7-19
-
(2009)
Proteome Sci
, vol.7
, pp. 19
-
-
Wegdam, W.1
Moerland, P.D.2
Buist, M.R.3
Loren, V.4
Van Themaat, E.5
Bleijlevens, B.6
Hoefsloot, H.C.7
De Koster, C.G.8
Aerts, J.M.9
-
116
-
-
44249092131
-
De Novo Peptide de Novo Peptide Sequencing via Manual Interpretation ofMS/MS Spectra
-
Addona T, Clauser K (2002) De Novo Peptide De Novo Peptide Sequencing via Manual Interpretation ofMS/MS Spectra. Curr Protoc Protein Sci 16.11.1-16.11.19
-
(2002)
Curr Protoc Protein Sci
, pp. 16111-161119
-
-
Addona, T.1
Clauser, K.2
-
117
-
-
3142702204
-
TANDEM: Matching proteins with tandem mass spectra
-
doi:10.1093/bioinformatics/bth092
-
Craig R, Beavis RC (2004) TANDEM: matching proteins with tandem mass spectra. Bioinformatics 20(9):1466-1467. doi:10.1093/bioinformatics/bth092
-
(2004)
Bioinformatics
, vol.20
, Issue.9
, pp. 1466-1467
-
-
Craig, R.1
Beavis, R.C.2
-
118
-
-
7044246160
-
Open mass spectrometry search algorithm
-
doi:10.1021/pr0499491
-
Geer LY, Markey SP, Kowalak JA, Wagner L, Xu M, Maynard DM, Yang X, Shi W, Bryant SH (2004) Open mass spectrometry search algorithm. J Proteome Res 3(5):958-964. doi:10.1021/pr0499491
-
(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
-
119
-
-
79953701087
-
Andromeda: A peptide search engine integrated into the MaxQuant environment
-
doi:10.1021/Pr101065j
-
Cox J, Neuhauser N, Michalski A, Scheltema RA, Olsen JV, Mann M (2011) Andromeda: a peptide search engine integrated into the MaxQuant environment. J Proteome Res 10(4):1794-1805. doi:10.1021/Pr101065j
-
(2011)
J Proteome Res
, vol.10
, Issue.4
, pp. 1794-1805
-
-
Cox, J.1
Neuhauser, N.2
Michalski, A.3
Scheltema, R.A.4
Olsen, J.V.5
Mann, M.6
-
120
-
-
33847401893
-
MyriMatch: Highly accurate tandem mass spectral peptide identification by multivariate hypergeometric analysis
-
doi:10.1021/Pr0604054
-
Tabb DL, Fernando CG, Chambers MC (2007) MyriMatch: highly accurate tandem mass spectral peptide identification by multivariate hypergeometric analysis. J Proteome Res 6(2):654-661. doi:10.1021/Pr0604054
-
(2007)
J Proteome Res
, vol.6
, Issue.2
, pp. 654-661
-
-
Tabb, D.L.1
Fernando, C.G.2
Chambers, M.C.3
-
121
-
-
0033565832
-
Role of accurate mass measurement (+/ 10 ppm) in protein identification strategies employing MS or MS MS and database searching
-
Clauser KR, Baker P, Burlingame AL (1999) Role of accurate mass measurement (+/ 10 ppm) in protein identification strategies employing MS or MS MS and database searching. Anal Chem 71(14):2871-2882
-
(1999)
Anal Chem
, vol.71
, Issue.14
, pp. 2871-2882
-
-
Clauser, K.R.1
Baker, P.2
Burlingame, A.L.3
-
122
-
-
0041358793
-
OLAV: Towards highthroughput tandem mass spectrometry data identification
-
doi:10.1002/pmic.200300485
-
Colinge J, Masselot A, Giron M, Dessingy T, Magnin J (2003) OLAV: towards highthroughput tandem mass spectrometry data identification. Proteomics 3(8):1454-1463. doi:10.1002/pmic.200300485
-
(2003)
Proteomics
, vol.3
, Issue.8
, pp. 1454-1463
-
-
Colinge, J.1
Masselot, A.2
Giron, M.3
Dessingy, T.4
Magnin, J.5
-
123
-
-
79953043425
-
Lights and shadows of proteomic technologies for the study of protein species including isoforms, splicing variants and protein post-translational modifications (vol 11, pg 590, 2011)
-
Casado-Vela J (2011) Lights and shadows of proteomic technologies for the study of protein species including isoforms, splicing variants and protein post-translational modifications (vol 11, pg 590, 2011). Proteomics 11(7):1370-1370
-
(2011)
Proteomics
, vol.11
, Issue.7
, pp. 1370-1370
-
-
Casado-Vela, J.1
-
124
-
-
77956304093
-
Mass spectrometry in highthroughput proteomics: Ready for the big time
-
doi:10.1038/nmeth0910-681
-
Nilsson T, Mann M, Aebersold R, Yates JR, Bairoch A, Bergeron JJM (2010) Mass spectrometry in highthroughput proteomics: ready for the big time. Nat Methods 7(9):681-685. doi:10.1038/nmeth0910-681
-
(2010)
Nat Methods
, vol.7
, Issue.9
, pp. 681-685
-
-
Nilsson, T.1
Mann, M.2
Aebersold, R.3
Yates, J.R.4
Bairoch, A.5
Bergeron, J.J.M.6
-
125
-
-
38649114671
-
Improving sensitivity by probabilistically combining results from multiple MS/MS search methodologies
-
doi:10.1021/Pr070540w
-
Searle BC, Turner M, Nesvizhskii AI (2008) Improving sensitivity by probabilistically combining results from multiple MS/MS search methodologies. J Proteome Res 7(1):245-253. doi:10.1021/Pr070540w
-
(2008)
J Proteome Res
, vol.7
, Issue.1
, pp. 245-253
-
-
Searle, B.C.1
Turner, M.2
Nesvizhskii, A.I.3
-
126
-
-
3042737683
-
Improving reproducibility and sensitivity in identifying human proteins by shotgun proteomics
-
Resing KA, Meyer-Arendt K, Mendoza AM, Aveline-Wolf LD, Jonscher KR, Pierce KG, Old WM, Cheung HT, Russell S, Wattawa JL, Goehle GR, Knight RD, Ahn NG (2004) Improving reproducibility and sensitivity in identifying human proteins by shotgun proteomics. Anal Chem 76(13):3556-3568
-
(2004)
Anal Chem
, vol.76
, Issue.13
, pp. 3556-3568
-
-
Resing, K.A.1
Meyer-Arendt, K.2
Mendoza, A.M.3
Aveline-Wolf, L.D.4
Jonscher, K.R.5
Pierce, K.G.6
Old, W.M.7
Cheung, H.T.8
Russell, S.9
Wattawa, J.L.10
Goehle, G.R.11
Knight, R.D.12
Ahn, N.G.13
-
127
-
-
53049093468
-
Enhancing peptide identification confidence by combining search methods
-
doi:10.1021/Pr700798h
-
Alves G, Wu WW, Wang GH, Shen RF, Yu YK (2008) Enhancing peptide identification confidence by combining search methods. J Proteome Res 7(8):3102-3113. doi:10.1021/Pr700798h
-
(2008)
J Proteome Res
, vol.7
, Issue.8
, pp. 3102-3113
-
-
Alves, G.1
Wu, W.W.2
Wang, G.H.3
Shen, R.F.4
Yu, Y.K.5
-
128
-
-
84890704446
-
Improving computer interpretation of linear ion trap proteomics data using Scaffold
-
Searle BC, Turner M (2006) Improving computer interpretation of linear ion trap proteomics data using Scaffold. Mol Cell Proteomics 5(10): S297-S297
-
(2006)
Mol Cell Proteomics
, vol.5
, Issue.10
-
-
Searle, B.C.1
Turner, M.2
-
129
-
-
77949695293
-
Scaffold: A bioinformatic tool for validating MS/MS-based proteomic studies
-
doi:10.1002/pmic. 200900437
-
Searle BC (2010) Scaffold: a bioinformatic tool for validating MS/MS-based proteomic studies. Proteomics 10(6):1265-1269. doi:10.1002/pmic. 200900437
-
(2010)
Proteomics
, vol.10
, Issue.6
, pp. 1265-1269
-
-
Searle, B.C.1
-
130
-
-
79959942025
-
MSblender: A probabilistic approach for integrating peptide identifications from multiple database search engines
-
doi:10.1021/Pr2002116
-
Kwon T, Choi H, Vogel C, Nesvizhskii AI, Marcotte EM (2011) MSblender: a probabilistic approach for integrating peptide identifications from multiple database search engines. J Proteome Res 10(7):2949-2958. doi:10.1021/Pr2002116
-
(2011)
J Proteome Res
, vol.10
, Issue.7
, pp. 2949-2958
-
-
Kwon, T.1
Choi, H.2
Vogel, C.3
Nesvizhskii, A.I.4
Marcotte, E.M.5
-
131
-
-
0032159387
-
Method to compare collision-induced dissociation spectra of peptides: Potential for library searching and subtractive analysis
-
Yates JR, Morgan SF, Gatlin CL, Griffin PR, Eng JK (1998) Method to compare collision-induced dissociation spectra of peptides: potential for library searching and subtractive analysis. Anal Chem 70(17):3557-3565
-
(1998)
Anal Chem
, vol.70
, Issue.17
, pp. 3557-3565
-
-
Yates, J.R.1
Morgan, S.F.2
Gatlin, C.L.3
Griffin, P.R.4
Eng, J.K.5
-
132
-
-
33947366516
-
Development and validation of a spectral library searching method for peptide identification from MS/MS
-
Lam H, Deutsch EW, Eddes JS, Eng JK, King N, Stein SE, Aebersold R (2007) Development and validation of a spectral library searching method for peptide identification from MS/MS. Proteomics 7(5):655-667
-
(2007)
Proteomics
, vol.7
, Issue.5
, pp. 655-667
-
-
Lam, H.1
Deutsch, E.W.2
Eddes, J.S.3
Eng, J.K.4
King, N.5
Stein, S.E.6
Aebersold, R.7
-
133
-
-
53249098366
-
Building consensus spectral libraries for peptide identification in proteomics
-
doi:10.1038/Nmeth.1254
-
Lam H, Deutsch EW, Eddes JS, Eng JK, Stein SE, Aebersold R (2008) Building consensus spectral libraries for peptide identification in proteomics. Nat Methods 5(10):873-875. doi:10.1038/Nmeth.1254
-
(2008)
Nat Methods
, vol.5
, Issue.10
, pp. 873-875
-
-
Lam, H.1
Deutsch, E.W.2
Eddes, J.S.3
Eng, J.K.4
Stein, S.E.5
Aebersold, R.6
-
134
-
-
33747626954
-
Analysis of peptide MS/MS spectra from large-scale proteomics experiments using spectrum libraries
-
doi:10.1021/Ac060279n
-
Frewen BE, Merrihew GE, Wu CC, Noble WS, MacCoss MJ (2006) Analysis of peptide MS/MS spectra from large-scale proteomics experiments using spectrum libraries. Anal Chem 78(16):5678-5684. doi:10.1021/Ac060279n
-
(2006)
Anal Chem
, vol.78
, Issue.16
, pp. 5678-5684
-
-
Frewen, B.E.1
Merrihew, G.E.2
Wu, C.C.3
Noble, W.S.4
Maccoss, M.J.5
-
135
-
-
33747170146
-
Using annotated peptide mass spectrum libraries for protein identification
-
doi:10.1021/Pr0602085
-
Craig R, Cortens JC, Fenyo D, Beavis RC (2006) Using annotated peptide mass spectrum libraries for protein identification. J Proteome Res 5(8):1843-1849. doi:10.1021/Pr0602085
-
(2006)
J Proteome Res
, vol.5
, Issue.8
, pp. 1843-1849
-
-
Craig, R.1
Cortens, J.C.2
Fenyo, D.3
Beavis, R.C.4
-
136
-
-
34447637634
-
ProMEX: A mass spectral reference database for proteins and protein phosphorylation sites
-
doi:Artn 216 Doi 10.1186/1471-2105-8-216
-
Hummel J, Niemann M, Wienkoop S, Schulze W, Steinhauser D, Selbig J, Walther D, Weckwerth W (2007) ProMEX: a mass spectral reference database for proteins and protein phosphorylation sites. BMC Bioinformatics 8. doi:Artn 216 Doi 10.1186/1471-2105-8-216
-
(2007)
BMC Bioinformatics
, pp. 8
-
-
Hummel, J.1
Niemann, M.2
Wienkoop, S.3
Schulze, W.4
Steinhauser, D.5
Selbig, J.6
Walther, D.7
Weckwerth, W.8
-
137
-
-
35948937578
-
HMMatch: Peptide identification by spectral matching of tandem mass spectra using hidden Markov models
-
doi:10.1089/cmb.2007.0071
-
Wu X, Tseng CW, Edwards N (2007) HMMatch: peptide identification by spectral matching of tandem mass spectra using hidden Markov models. J Comput Biol 14(8):1025-1043. doi:10.1089/cmb.2007.0071
-
(2007)
J Comput Biol
, vol.14
, Issue.8
, pp. 1025-1043
-
-
Wu, X.1
Tseng, C.W.2
Edwards, N.3
-
138
-
-
57449105428
-
PhosphoPep-A database of protein phosphorylation sites in model organisms
-
doi:10.1038/Nbt1208-1339
-
Bodenmiller B, Campbell D, Gerrits B, Lam H, Jovanovic M, Picotti P, Schlapbach R, Aebersold R (2008) PhosphoPep-a database of protein phosphorylation sites in model organisms. Nat Biotechnol 26(12):1339-1340. doi:10.1038/Nbt1208-1339
-
(2008)
Nat Biotechnol
, vol.26
, Issue.12
, pp. 1339-1340
-
-
Bodenmiller, B.1
Campbell, D.2
Gerrits, B.3
Lam, H.4
Jovanovic, M.5
Picotti, P.6
Schlapbach, R.7
Aebersold, R.8
-
139
-
-
76749169902
-
A ubiquitin and ubiquitin-like protein spectral library
-
doi:10.1002/pmic.200900627
-
Srikumar T, Jeram SM, Lam H, Raught B (2010) A ubiquitin and ubiquitin-like protein spectral library. Proteomics 10(2):337-342. doi:10.1002/pmic.200900627
-
(2010)
Proteomics
, vol.10
, Issue.2
, pp. 337-342
-
-
Srikumar, T.1
Jeram, S.M.2
Lam, H.3
Raught, B.4
-
140
-
-
33644876912
-
The PeptideAtlas project
-
Database issue
-
Desiere F, Deutsch EW, King NL, Nesvizhskii AI, Mallick P, Eng J, Chen S, Eddes J, Loevenich SN, Aebersold R (2006) The PeptideAtlas project. Nucleic Acids Res 34(Database issue):D655-D658
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Desiere, F.1
Deutsch, E.W.2
King, N.L.3
Nesvizhskii, A.I.4
Mallick, P.5
Eng, J.6
Chen, S.7
Eddes, J.8
Loevenich, S.N.9
Aebersold, R.10
-
141
-
-
70349091863
-
A guide to the proteomics identifications database proteomics data repository
-
doi:10.1002/pmic.200900402
-
Vizcaino JA, Cote R, Reisinger F, Foster JM, Mueller M, Rameseder J, Hermjakob H, Martens L (2009) A guide to the proteomics identifications database proteomics data repository. Proteomics 9(18):4276-4283. doi:10.1002/pmic. 200900402
-
(2009)
Proteomics
, vol.9
, Issue.18
, pp. 4276-4283
-
-
Vizcaino, J.A.1
Cote, R.2
Reisinger, F.3
Foster, J.M.4
Mueller, M.5
Rameseder, J.6
Hermjakob, H.7
Martens, L.8
-
142
-
-
33644875983
-
PRIDE: A public repository of protein and peptide identifications for the proteomics community
-
doi:10.1093/Nar/Gkj138
-
Jones P, Cote RG, Martens L, Quinn AF, Taylor CF, Derache W, Hermjakob H, Apweiler R (2006) PRIDE: a public repository of protein and peptide identifications for the proteomics community. Nucleic Acids Res 34:D659-D663. doi:10.1093/Nar/Gkj138
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Jones, P.1
Cote, R.G.2
Martens, L.3
Quinn, A.F.4
Taylor, C.F.5
Derache, W.6
Hermjakob, H.7
Apweiler, R.8
-
143
-
-
77957221582
-
A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics
-
doi:S1874-3919(10)00249-6 [pii] 10.1016/ j.jprot.2010.08.009
-
Nesvizhskii AI (2010) A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics. J Proteomics 73(11):2092-2123. doi:S1874-3919(10)00249-6 [pii] 10.1016/ j.jprot.2010.08.009
-
(2010)
J Proteomics
, vol.73
, Issue.11
, pp. 2092-2123
-
-
Nesvizhskii, A.I.1
-
144
-
-
66749169317
-
Predicting intensity ranks of peptide fragment ions
-
doi:10.1021/Pr800677f
-
Frank AM (2009) Predicting intensity ranks of peptide fragment ions. J Proteome Res 8(5):2226-2240. doi:10.1021/Pr800677f
-
(2009)
J Proteome Res
, vol.8
, Issue.5
, pp. 2226-2240
-
-
Frank, A.M.1
-
145
-
-
67650725988
-
Computational principles of determining and improving mass precision and accuracy for proteome measurements in an orbitrap
-
doi:10.1016/j.jasms.2009.05.007
-
Cox J, Mann M (2009) Computational principles of determining and improving mass precision and accuracy for proteome measurements in an orbitrap. J Am Soc Mass Spectrom 20(8):1477-1485. doi:10.1016/j.jasms.2009.05.007
-
(2009)
J Am Soc Mass Spectrom
, vol.20
, Issue.8
, pp. 1477-1485
-
-
Cox, J.1
Mann, M.2
-
147
-
-
84987398179
-
Computer-aided peptide sequencing by fast-atom-bombardment mass-spectrometry
-
Ishikawa K, Niwa Y (1986) Computer-aided peptide sequencing by fast-atom-bombardment mass-spectrometry. Biomed Environ Mass 13(7): 373-380
-
(1986)
Biomed Environ Mass
, vol.13
, Issue.7
, pp. 373-380
-
-
Ishikawa, K.1
Niwa, Y.2
-
148
-
-
84987395027
-
Paas-3: A computer-program to determine probable sequence of peptides from mass-spectrometric data
-
Sakurai T, Matsuo T, Matsuda H, Katakuse I (1984) Paas-3: a computer-program to determine probable sequence of peptides from mass-spectrometric data. Biomed Mass Spectrom 11(8):396-399
-
(1984)
Biomed Mass Spectrom
, vol.11
, Issue.8
, pp. 396-399
-
-
Sakurai, T.1
Matsuo, T.2
Matsuda, H.3
Katakuse, I.4
-
149
-
-
0003597619
-
A graphics display-oriented strategy for the amino-acid sequencing of peptides by tandem mass-spectrometry
-
Scoble HA, Biller JE, Biemann K (1987) A graphics display-oriented strategy for the amino-acid sequencing of peptides by tandem mass-spectrometry. Fresen Z Anal Chem 327(2):239-245
-
(1987)
Fresen Z Anal Chem
, vol.327
, Issue.2
, pp. 239-245
-
-
Scoble, H.A.1
Biller, J.E.2
Biemann, K.3
-
150
-
-
0024287234
-
An efficient algorithm for sequencing peptides using fast atom bombardment mass-spectral data
-
Siegel MM, Bauman N (1988) An efficient algorithm for sequencing peptides using fast atom bombardment mass-spectral data. Biomed Environ Mass 15(6):333-343
-
(1988)
Biomed Environ Mass
, vol.15
, Issue.6
, pp. 333-343
-
-
Siegel, M.M.1
Bauman, N.2
-
151
-
-
0025038664
-
Fast algorithm for peptide sequencing by mass-spectroscopy
-
Bartels C (1990) Fast algorithm for peptide sequencing by mass-spectroscopy. Biomed Environ Mass 19(6):363-368
-
(1990)
Biomed Environ Mass
, vol.19
, Issue.6
, pp. 363-368
-
-
Bartels, C.1
-
152
-
-
0035356977
-
Implementation and uses of automated de novo peptide sequencing by tandem mass spectrometry
-
Taylor JA, Johnson RS (2001) Implementation and uses of automated de novo peptide sequencing by tandem mass spectrometry. Anal Chem 73(11):2594-2604
-
(2001)
Anal Chem
, vol.73
, Issue.11
, pp. 2594-2604
-
-
Taylor, J.A.1
Johnson, R.S.2
-
153
-
-
0032750293
-
De novo peptide sequencing via tandem mass spectrometry
-
Dancik V, Addona TA, Clauser KR, Vath JE, Pevzner PA (1999) De novo peptide sequencing via tandem mass spectrometry. J Comput Biol 6(3-4):327-342
-
(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
-
154
-
-
0034814613
-
A dynamic programming approach to de novo peptide sequencing via tandem mass spectrometry
-
Chen T, Kao MY, Tepel M, Rush J, Church GM (2001) A dynamic programming approach to de novo peptide sequencing via tandem mass spectrometry. J Comput Biol 8(3):325-337
-
(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
-
155
-
-
13844319908
-
PepNovo: De novo peptide sequencing via probabilistic network modeling
-
doi:10.1021/Ac048788h
-
Frank A, Pevzner P (2005) PepNovo: De novo peptide sequencing via probabilistic network modeling. Anal Chem 77(4):964-973. doi:10.1021/Ac048788h
-
(2005)
Anal Chem
, vol.77
, Issue.4
, pp. 964-973
-
-
Frank, A.1
Pevzner, P.2
-
156
-
-
27944456862
-
NovoHMM: A hidden Markov model for de novo peptide sequencing
-
doi:10.1021/Ac0508853
-
Fischer B, Roth V, Roos F, Grossmann J, Baginsky S, Widmayer P, Gruissem W, Buhmann JM (2005) NovoHMM: a hidden Markov model for de novo peptide sequencing. Anal Chem 77(22):7265-7273. doi:10.1021/Ac0508853
-
(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
-
157
-
-
55249118638
-
DirecTag: Accurate sequence tags from peptide MS/MS through statistical scoring
-
doi:10.1021/Pr800154p
-
Tabb DL, Ma ZQ, Martin DB, Ham AJL, Chambers MC (2008) DirecTag: accurate sequence tags from peptide MS/MS through statistical scoring. J Proteome Res 7(9):3838-3846. doi:10.1021/Pr800154p
-
(2008)
J Proteome Res
, vol.7
, Issue.9
, pp. 3838-3846
-
-
Tabb, D.L.1
Ma, Z.Q.2
Martin, D.B.3
Ham, A.J.L.4
Chambers, M.C.5
-
158
-
-
0141989734
-
Peaks: Powerful software for peptide de novo sequencing by tandem mass spectrometry
-
Ma B, Zhang K, Hendrie C, Liang C, Li M, Kirby AD, Lajoie G (2003) Peaks: powerful software for peptide de novo sequencing by tandem mass spectrometry. Rapid Commun Mass Spectrom 17: 2337-2342
-
(2003)
Rapid Commun Mass Spectrom
, vol.17
, pp. 2337-2342
-
-
Ma, B.1
Zhang, K.2
Hendrie, C.3
Liang, C.4
Li, M.5
Kirby, A.D.6
Lajoie, G.7
-
159
-
-
77952048255
-
PNovo: De novo peptide sequencing and identification using HCD spectra
-
doi:10.1021/Pr100182k
-
Chi H, Sun RX, Yang B, Song CQ, Wang LH, Liu C, Fu Y, Yuan ZF, Wang HP, He SM, Dong MQ (2010) PNovo: De novo peptide sequencing and identification using HCD spectra. J Proteome Res 9(5):2713-2724. doi:10.1021/Pr100182k
-
(2010)
J Proteome Res
, vol.9
, Issue.5
, pp. 2713-2724
-
-
Chi, H.1
Sun, R.X.2
Yang, B.3
Song, C.Q.4
Wang, L.H.5
Liu, C.6
Fu, Y.7
Yuan, Z.F.8
Wang, H.P.9
He, S.M.10
Dong, M.Q.11
-
160
-
-
0034213620
-
De novo peptide sequencing by two dimensional fragment correlation mass spectrometry
-
Zhang ZQ, McElvain JS (2000) De novo peptide sequencing by two dimensional fragment correlation mass spectrometry. Anal Chem 72(11):2337-2350
-
(2000)
Anal Chem
, vol.72
, Issue.11
, pp. 2337-2350
-
-
Zhang, Z.Q.1
McElvain, J.S.2
-
161
-
-
29144437803
-
Proteomics-grade de novo sequencing approach
-
doi:10.1021/pr050288x
-
Savitski MM, Nielsen ML, Kjeldsen F, Zubarev RA (2005) Proteomics-grade de novo sequencing approach. J Proteome Res 4(6):2348-2354. doi:10.1021/ pr050288x
-
(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
-
162
-
-
34249826390
-
Protein identification by spectral networks analysis
-
doi:10.1073/pnas.0701130104
-
Bandeira N, Tsur D, Frank A, Pevzner PA (2007) Protein identification by spectral networks analysis. Proc Natl Acad Sci U S A 104(15):6140-6145. doi:10.1073/pnas.0701130104
-
(2007)
Proc Natl Acad Sci U S a
, vol.104
, Issue.15
, pp. 6140-6145
-
-
Bandeira, N.1
Tsur, D.2
Frank, A.3
Pevzner, P.A.4
-
163
-
-
70349207551
-
Spectrum fusion: Using multiple mass spectra for de novo peptide sequencing
-
doi:10.1089/cmb.2009.0122
-
Datta R, Bern M (2009) Spectrum fusion: using multiple mass spectra for de novo peptide sequencing. J Comput Biol 16(8):1169-1182. doi:10.1089/cmb.2009. 0122
-
(2009)
J Comput Biol
, vol.16
, Issue.8
, pp. 1169-1182
-
-
Datta, R.1
Bern, M.2
-
164
-
-
0028575316
-
Error tolerant identification of peptides in sequence databases by peptide sequence tags
-
Mann M, Wilm M (1994) Error tolerant identification of peptides in sequence databases by peptide sequence tags. Anal Chem 66(24):4390-4399
-
(1994)
Anal Chem
, vol.66
, Issue.24
, pp. 4390-4399
-
-
Mann, M.1
Wilm, M.2
-
165
-
-
0345600791
-
GutenTag: High-throughput sequence tagging via an empirically derived fragmentation model
-
doi:10.1021/Ac0347462
-
Tabb DL, Saraf A, Yates JR (2003) GutenTag: high-throughput sequence tagging via an empirically derived fragmentation model. Anal Chem 75(23):6415-6421. doi:10.1021/Ac0347462
-
(2003)
Anal Chem
, vol.75
, Issue.23
, pp. 6415-6421
-
-
Tabb, D.L.1
Saraf, A.2
Yates, J.R.3
-
166
-
-
27544511899
-
InsPecT: Identification of posttransiationally modified peptides from tandem mass spectra
-
doi:10.1021/Ac050102d
-
Tanner S, Shu HJ, Frank A, Wang LC, Zandi E, Mumby M, Pevzner PA, Bafna V (2005) InsPecT: identification of posttransiationally modified peptides from tandem mass spectra. Anal Chem 77(14):4626-4639. doi:10.1021/Ac050102d
-
(2005)
Anal Chem
, vol.77
, Issue.14
, pp. 4626-4639
-
-
Tanner, S.1
Shu, H.J.2
Frank, A.3
Wang, L.C.4
Zandi, E.5
Mumby, M.6
Pevzner, P.A.7
Bafna, V.8
-
167
-
-
77950660595
-
TagRecon: High-throughput mutation identification through sequence tagging
-
doi:10.1021/pr900850m
-
Dasari S, Chambers MC, Slebos RJ, Zimmerman LJ, Ham AJL, Tabb DL (2010) TagRecon: high-throughput mutation identification through sequence tagging. J Proteome Res 9(4):1716-1726. doi:10.1021/pr900850m
-
(2010)
J Proteome Res
, vol.9
, Issue.4
, pp. 1716-1726
-
-
Dasari, S.1
Chambers, M.C.2
Slebos, R.J.3
Zimmerman, L.J.4
Ham, A.J.L.5
Tabb, D.L.6
-
168
-
-
34848889259
-
The paragon algorithm, a next generation search engine that uses sequence temperature values and feature probabilities to identify peptides from tandem mass spectra
-
doi:10.1074/mcp.T600050-MCP200
-
Shilov IV, Seymour SL, Patel AA, Loboda A, Tang WH, Keating SP, Hunter CL, Nuwaysir LM, Schaeffer DA (2007) 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 6(9):1638-1655. doi:10.1074/mcp.T600050-MCP200
-
(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
-
169
-
-
27644555055
-
Interpretation of shotgun proteomic data: The protein inference problem
-
Nesvizhskii AI, Aebersold R (2005) Interpretation of shotgun proteomic data: the protein inference problem. Mol Cell Proteomics 4(10):1419-1440
-
(2005)
Mol Cell Proteomics
, vol.4
, Issue.10
, pp. 1419-1440
-
-
Nesvizhskii, A.I.1
Aebersold, R.2
-
170
-
-
1042266254
-
Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS
-
doi:10.1016/S1359-6446(03)02978-7 S1359644603029787 [pii]
-
Nesvizhskii AI, Aebersold R (2004) Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS. Drug Discov Today 9(4):173-181. doi:10.1016/S1359-6446(03)02978-7 S1359644603029787 [pii]
-
(2004)
Drug Discov Today
, vol.9
, Issue.4
, pp. 173-181
-
-
Nesvizhskii, A.I.1
Aebersold, R.2
-
171
-
-
33644864034
-
Challenges in deriving high-confidence protein identifications from data gathered by a HUPO plasma proteome collaborative study
-
doi:10.1038/Nbt1183
-
States DJ, Omenn GS, Blackwell TW, Fermin D, Eng J, Speicher DW, Hanash SM (2006) Challenges in deriving high-confidence protein identifications from data gathered by a HUPO plasma proteome collaborative study. Nat Biotechnol 24(3):333-338. doi:10.1038/Nbt1183
-
(2006)
Nat Biotechnol
, vol.24
, Issue.3
, pp. 333-338
-
-
States, D.J.1
Omenn, G.S.2
Blackwell, T.W.3
Fermin, D.4
Eng, J.5
Speicher, D.W.6
Hanash, S.M.7
-
172
-
-
0001677717
-
Controlling the false discovery rate-A practical and powerful approach to multiple testing
-
Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate-a practical and powerful approach to multiple testing. J Roy Stat Soc B Met 57(1):289-300
-
(1995)
J Roy Stat Soc B Met
, vol.57
, Issue.1
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
173
-
-
0037108887
-
Empirical statistical model to estimate the accuracy of peptide identifications made by ms/ms and database search
-
Keller A, Nesvizhskii AI, Kolker E, Aebersold R (2002) Empirical statistical model to estimate the accuracy of peptide identifications made by ms/ms and database search. Anal Chem 74(20):5383-5392
-
(2002)
Anal Chem
, vol.74
, Issue.20
, pp. 5383-5392
-
-
Keller, A.1
Nesvizhskii, A.I.2
Kolker, E.3
Aebersold, R.4
-
174
-
-
65249143361
-
Comparison of novel decoy database designs for optimizing protein identification searches using ABRF sPRG2006 standard MS/MS data sets
-
doi:10.1021/Pr800792z
-
Bianco L, Mead JA, Bessant C (2009) Comparison of novel decoy database designs for optimizing protein identification searches using ABRF sPRG2006 standard MS/MS data sets. J Proteome Res 8(4):1782-1791. doi:10.1021/Pr800792z
-
(2009)
J Proteome Res
, vol.8
, Issue.4
, pp. 1782-1791
-
-
Bianco, L.1
Mead, J.A.2
Bessant, C.3
-
175
-
-
38649083118
-
Assigning significance to peptides identified by tandem mass spectrometry using decoy databases
-
doi:10.1021/pr700600n
-
Kall L, Storey JD, MacCoss MJ, Noble WS (2008) Assigning significance to peptides identified by tandem mass spectrometry using decoy databases. J Proteome Res 7(1):29-34. doi:10.1021/pr700600n
-
(2008)
J Proteome Res
, vol.7
, Issue.1
, pp. 29-34
-
-
Kall, L.1
Storey, J.D.2
Maccoss, M.J.3
Noble, W.S.4
-
176
-
-
0042424602
-
Statistical significance for genomewide studies
-
doi:10.1073/pnas.1530509100 1530509100 [pii]
-
Storey JD, Tibshirani R (2003) Statistical significance for genomewide studies. Proc Natl Acad Sci U S A 100(16):9440-9445. doi:10.1073/pnas.1530509100 1530509100 [pii]
-
(2003)
Proc Natl Acad Sci U S a
, vol.100
, Issue.16
, pp. 9440-9445
-
-
Storey, J.D.1
Tibshirani, R.2
-
177
-
-
14844360847
-
Probability-based evaluation of peptide and protein identifications from tandem mass spectrometry and SEQUEST analysis: The human proteome
-
Qian W-J, Liu T, Monroe ME, Strittmatter EF, Jacobs JM, Kangas LJ, Petritis K, Camp DG, Smith RD (2005) Probability-based evaluation of peptide and protein identifications from tandem mass spectrometry and SEQUEST analysis: the human proteome. J Proteome Res 4(1):53-62
-
(2005)
J Proteome Res
, 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, D.G.8
Smith, R.D.9
-
178
-
-
0036209134
-
Qscore: An algorithm for evaluating SEQUEST database search results
-
Moore RE, Young MK, Lee TD (2002) Qscore: an algorithm for evaluating SEQUEST database search results. J Am Soc Mass Spectrom 13(4):378-386
-
(2002)
J Am Soc Mass Spectrom
, vol.13
, Issue.4
, pp. 378-386
-
-
Moore, R.E.1
Young, M.K.2
Lee, T.D.3
-
179
-
-
0042338362
-
A statistical model for identifying proteins by tandem mass spectrometry
-
Nesvizhskii AI, Keller A, Kolker E, Aebersold R (2003) A statistical model for identifying proteins by tandem mass spectrometry. Anal Chem 75(17):4646-4658
-
(2003)
Anal Chem
, vol.75
, Issue.17
, pp. 4646-4658
-
-
Nesvizhskii, A.I.1
Keller, A.2
Kolker, E.3
Aebersold, R.4
-
180
-
-
68549092907
-
IDPicker 2.0: Improved protein assembly with high discrimination peptide identification filtering
-
doi:10.1021/pr900360j
-
Ma ZQ, Dasari S, Chambers MC, Litton MD, Sobecki SM, Zimmerman LJ, Halvey PJ, Schilling B, Drake PM, Gibson BW, Tabb DL (2009) IDPicker 2.0: improved protein assembly with high discrimination peptide identification filtering. J Proteome Res 8(8):3872-3881. doi:10.1021/pr900360j
-
(2009)
J Proteome Res
, vol.8
, Issue.8
, pp. 3872-3881
-
-
Ma, Z.Q.1
Dasari, S.2
Chambers, M.C.3
Litton, M.D.4
Sobecki, S.M.5
Zimmerman, L.J.6
Halvey, P.J.7
Schilling, B.8
Drake, P.M.9
Gibson, B.W.10
Tabb, D.L.11
-
181
-
-
78650147228
-
The generating function of CID, ETD and CID/ETD pairs of tandem mass spectra: Applications to database search
-
doi:M110.003731 [pii] 10.1074/mcp.M110.003731
-
Kim S, Mischerikow N, Bandeira N, Navarro JD, Wich L, Mohammed S, Heck AJ, Pevzner PA (2010) The generating function of CID, ETD and CID/ETD pairs of tandem mass spectra: applications to database search. Mol Cell Proteomics. doi:M110.003731 [pii] 10.1074/mcp.M110.003731
-
(2010)
Mol Cell Proteomics
-
-
Kim, S.1
Mischerikow, N.2
Bandeira, N.3
Navarro, J.D.4
Wich, L.5
Mohammed, S.6
Heck, A.J.7
Pevzner, P.A.8
-
182
-
-
0037442649
-
A method for assessing the statistical significance of mass spectrometry-based protein identifications using general scoring schemes
-
doi:10.1021/Ac0258709
-
Fenyo D, Beavis RC (2003) A method for assessing the statistical significance of mass spectrometry-based protein identifications using general scoring schemes. Anal Chem 75(4):768-774. doi:10.1021/Ac0258709
-
(2003)
Anal Chem
, vol.75
, Issue.4
, pp. 768-774
-
-
Fenyo, D.1
Beavis, R.C.2
-
183
-
-
33845380405
-
A capital workshop for the HUPO proteomics standards initiative
-
Taylor CF (2006) A capital workshop for the HUPO proteomics standards initiative. J Proteome Res 5(12):3229-3230
-
(2006)
J Proteome Res
, vol.5
, Issue.12
, pp. 3229-3230
-
-
Taylor, C.F.1
-
184
-
-
33750285086
-
The HUPO proteomics standards initiativeovercoming the fragmentation of proteomics data
-
doi:10.1002/pmic.200600537
-
Hermjakob H (2006) The HUPO proteomics standards initiativeovercoming the fragmentation of proteomics data. Proteomics 6(1):34-38. doi:10.1002/pmic. 200600537
-
(2006)
Proteomics
, vol.6
, Issue.1
, pp. 34-38
-
-
Hermjakob, H.1
-
185
-
-
33748087472
-
The work of the human proteome organisation's proteomics standards initiative (HUPO PSI)
-
Taylor CF, Hermjakob H, Julian RK, Garavelli JS, Aebersold R, Apweiler R (2006) The work of the human proteome organisation's proteomics standards initiative (HUPO PSI). Omics 10(2):145-151
-
(2006)
Omics
, vol.10
, Issue.2
, pp. 145-151
-
-
Taylor, C.F.1
Hermjakob, H.2
Julian, R.K.3
Garavelli, J.S.4
Aebersold, R.5
Apweiler, R.6
-
186
-
-
0037293360
-
Meeting review: The HUPO proteomics standards initiative meeting: Towards common standards for exchanging proteomics dataHinxton, Cambridge, UK, 19-20 October 2002
-
doi:10.1002/Cfg.232
-
Orchard S, Kersey P, Hermjakob H, Apweiler R (2003) Meeting review: The HUPO proteomics standards initiative meeting: towards common standards for exchanging proteomics dataHinxton, Cambridge, UK, 19-20 October 2002. Comp Funct Genom 4(1):16-19. doi:10.1002/Cfg.232
-
(2003)
Comp Funct Genom
, vol.4
, Issue.1
, pp. 16-19
-
-
Orchard, S.1
Kersey, P.2
Hermjakob, H.3
Apweiler, R.4
-
187
-
-
0037621728
-
Meeting review: Progress in establishing common standards for exchanging proteomics data: The second meeting of the HUPO proteomics standards initiative
-
doi:10.1002/Cfg.279
-
Orchard S, Kersey P, Zhu WM, Montecchi-Palazzi L, Hermjakob H, Apweiler R (2003) Meeting review: progress in establishing common standards for exchanging proteomics data: the second meeting of the HUPO proteomics standards initiative. Comp Funct Genom 4(2):203-206. doi:10.1002/Cfg.279
-
(2003)
Comp Funct Genom
, vol.4
, Issue.2
, pp. 203-206
-
-
Orchard, S.1
Kersey, P.2
Zhu, W.M.3
Montecchi-Palazzi, L.4
Hermjakob, H.5
Apweiler, R.6
-
188
-
-
33646907086
-
Reporting protein identification datathe next generation of guidelines
-
Bradshaw RA, Burlingame AL, Carr S, Aebersold R (2006) Reporting protein identification datathe next generation of guidelines. Mol Cell Proteomics 5(5):787-788
-
(2006)
Mol Cell Proteomics
, vol.5
, Issue.5
, pp. 787-788
-
-
Bradshaw, R.A.1
Burlingame, A.L.2
Carr, S.3
Aebersold, R.4
-
189
-
-
58149396182
-
Stable isotopic labeling of proteins for quantitative proteomic applications
-
doi:eln047 [pii] 10.1093/bfgp/eln047
-
Becker GW (2008) Stable isotopic labeling of proteins for quantitative proteomic applications. Brief Funct Genomic Proteomic 7(5):371-382. doi:eln047 [pii] 10.1093/bfgp/eln047
-
(2008)
Brief Funct Genomic Proteomic
, vol.7
, Issue.5
, pp. 371-382
-
-
Becker, G.W.1
-
190
-
-
57649218838
-
Stable isotopic labeling in proteomics
-
doi:10.1002/pmic.200800421
-
Gevaert K, Impens F, Ghesquiere B, Van Damme P, Lambrechts A, Vandekerckhove J (2008) Stable isotopic labeling in proteomics. Proteomics 8(23-24):4873-4885. doi:10.1002/pmic.200800421
-
(2008)
Proteomics
, vol.8
, Issue.23-24
, pp. 4873-4885
-
-
Gevaert, K.1
Impens, F.2
Ghesquiere, B.3
Van Damme, P.4
Lambrechts, A.5
Vandekerckhove, J.6
-
191
-
-
0033535961
-
Accurate quantitation of protein expression and site-specific phosphorylation
-
Oda Y, Huang K, Cross FR, Cowburn D, Chait BT (1999) Accurate quantitation of protein expression and site-specific phosphorylation. Proc Natl Acad Sci U S A 96(12):6591-6596
-
(1999)
Proc Natl Acad Sci U S a
, vol.96
, Issue.12
, pp. 6591-6596
-
-
Oda, Y.1
Huang, K.2
Cross, F.R.3
Cowburn, D.4
Chait, B.T.5
-
192
-
-
0036583926
-
Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics
-
Ong SE, Blagoev B, Kratchmarova I, Kristensen DB, Steen H, Pandey A, Mann M (2002) Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol Cell Proteomics 1(5):376-386
-
(2002)
Mol Cell Proteomics
, vol.1
, Issue.5
, pp. 376-386
-
-
Ong, S.E.1
Blagoev, B.2
Kratchmarova, I.3
Kristensen, D.B.4
Steen, H.5
Pandey, A.6
Mann, M.7
-
193
-
-
0032875697
-
Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
-
Gygi SP, Rist B, Gerber SA, Turecek F, Gelb MH, Aebersold R (1999) Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat Biotechnol 17(10):994-999
-
(1999)
Nat Biotechnol
, vol.17
, Issue.10
, pp. 994-999
-
-
Gygi, S.P.1
Rist, B.2
Gerber, S.A.3
Turecek, F.4
Gelb, M.H.5
Aebersold, R.6
-
194
-
-
42349105213
-
Relative quantification of proteins in human cerebrospinal fluids by MS/MS using 6-plex isobaric tags
-
doi:10.1021/ac702422x
-
Dayon L, Hainard A, Licker V, Turck N, Kuhn K, Hochstrasser DF, Burkhard PR, Sanchez JC (2008) Relative quantification of proteins in human cerebrospinal fluids by MS/MS using 6-plex isobaric tags. Anal Chem 80(8):2921-2931. doi:10.1021/ac702422x
-
(2008)
Anal Chem
, vol.80
, Issue.8
, pp. 2921-2931
-
-
Dayon, L.1
Hainard, A.2
Licker, V.3
Turck, N.4
Kuhn, K.5
Hochstrasser, D.F.6
Burkhard, P.R.7
Sanchez, J.C.8
-
195
-
-
19944432197
-
Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents
-
Ross PL, Huang YN, Marchese JN, Williamson B, Parker K, Hattan S, Khainovski N, Pillai S, Dey S, Daniels S, Purkayastha S, Juhasz P, Martin S, Bartlet-Jones M, He F, Jacobson A, Pappin DJ (2004) Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents. Mol Cell Proteomics 3(12): 1154-1169
-
(2004)
Mol Cell Proteomics
, vol.3
, Issue.12
, pp. 1154-1169
-
-
Ross, P.L.1
Huang, Y.N.2
Marchese, J.N.3
Williamson, B.4
Parker, K.5
Hattan, S.6
Khainovski, N.7
Pillai, S.8
Dey, S.9
Daniels, S.10
Purkayastha, S.11
Juhasz, P.12
Martin, S.13
Bartlet-Jones, M.14
He, F.15
Jacobson, A.16
Pappin, D.J.17
-
196
-
-
45949104657
-
Quantitative protein analysis using proteolytic [18O] water labeling
-
doi:10.1002/0471140864.ps2304s34
-
Reynolds KJ, Fenselau C (2004) Quantitative protein analysis using proteolytic [18O] water labeling. Curr Protoc Protein Sci 23:23-24. doi:10.1002/0471140864.ps2304s34
-
(2004)
Curr Protoc Protein Sci
, vol.23
, pp. 23-24
-
-
Reynolds, K.J.1
Fenselau, C.2
-
197
-
-
41949139372
-
Quantitative shotgun proteomics of enriched heterocysts from Nostoc sp. PCC 7120 using 8-plex isobaric peptide tags
-
doi:10.1021/pr700604v
-
Ow SY, Cardona T, Taton A, Magnuson A, Lindblad P, Stensjo K, Wright PC (2008) Quantitative shotgun proteomics of enriched heterocysts from Nostoc sp. PCC 7120 using 8-plex isobaric peptide tags. J Proteome Res 7(4):1615-1628. doi:10.1021/pr700604v
-
(2008)
J Proteome Res
, vol.7
, Issue.4
, pp. 1615-1628
-
-
Ow, S.Y.1
Cardona, T.2
Taton, A.3
Magnuson, A.4
Lindblad, P.5
Stensjo, K.6
Wright, P.C.7
-
198
-
-
4444346217
-
Metabolic labeling of mammalian organisms with stable isotopes for quantitative proteomic analysis
-
Wu CC, MacCoss MJ, Howell KE, Matthews DE, Yates JR 3rd (2004) Metabolic labeling of mammalian organisms with stable isotopes for quantitative proteomic analysis. Anal Chem 76(17): 4951-4959
-
(2004)
Anal Chem
, vol.76
, Issue.17
, pp. 4951-4959
-
-
Wu, C.C.1
Maccoss, M.J.2
Howell, K.E.3
Matthews, D.E.4
Yates III, J.R.5
-
199
-
-
82555185589
-
Delayed fragmentation and optimized isolation width settings for improvement of protein identification and accuracy of isobaric mass tag quantification on orbitrap-type mass spectrometers
-
doi:10.1021/ac201760x
-
Savitski MM, Sweetman G, Askenazi M, Marto JA, Lang M, Zinn N, Bantscheff M (2011) Delayed fragmentation and optimized isolation width settings for improvement of protein identification and accuracy of isobaric mass tag quantification on orbitrap-type mass spectrometers. Anal Chem 83(23):8959-8967. doi:10.1021/ac201760x
-
(2011)
Anal Chem
, vol.83
, Issue.23
, pp. 8959-8967
-
-
Savitski, M.M.1
Sweetman, G.2
Askenazi, M.3
Marto, J.A.4
Lang, M.5
Zinn, N.6
Bantscheff, M.7
-
200
-
-
79551500036
-
Less label, more free: Approaches in label-free quantitative mass spectrometry
-
doi:10.1002/pmic.201000553
-
Neilson KA, Ali NA, Muralidharan S, Mirzaei M, Mariani M, Assadourian G, Lee A, van Sluyter SC, Haynes PA (2011) Less label, more free: approaches in label-free quantitative mass spectrometry. Proteomics 11(4):535-553. doi:10.1002/pmic.201000553
-
(2011)
Proteomics
, vol.11
, Issue.4
, pp. 535-553
-
-
Neilson, K.A.1
Ali, N.A.2
Muralidharan, S.3
Mirzaei, M.4
Mariani, M.5
Assadourian, G.6
Lee, A.7
Van Sluyter, S.C.8
Haynes, P.A.9
-
201
-
-
40349092949
-
Probabilistic assembly of human protein interaction networks from label-free quantitative proteomics
-
doi:0706983105 [pii] 10.1073/pnas.0706983105
-
Sardiu ME, Cai Y, Jin J, Swanson SK, Conaway RC, Conaway JW, Florens L, Washburn MP (2008) Probabilistic assembly of human protein interaction networks from label-free quantitative proteomics. Proc Natl Acad Sci U S A 105(5):1454-1459. doi:0706983105 [pii] 10.1073/pnas.0706983105
-
(2008)
Proc Natl Acad Sci U S a
, vol.105
, Issue.5
, pp. 1454-1459
-
-
Sardiu, M.E.1
Cai, Y.2
Jin, J.3
Swanson, S.K.4
Conaway, R.C.5
Conaway, J.W.6
Florens, L.7
Washburn, M.P.8
-
202
-
-
26844559000
-
Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein
-
doi:M500061-MCP200 [pii] 10.1074/mcp.M500061-MCP200
-
Ishihama Y, Oda Y, Tabata T, Sato T, Nagasu T, Rappsilber J, Mann M (2005) Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein. Mol Cell Proteomics 4(9):1265-1272. doi:M500061-MCP200 [pii] 10.1074/mcp.M500061-MCP200
-
(2005)
Mol Cell Proteomics
, vol.4
, Issue.9
, pp. 1265-1272
-
-
Ishihama, Y.1
Oda, Y.2
Tabata, T.3
Sato, T.4
Nagasu, T.5
Rappsilber, J.6
Mann, M.7
-
203
-
-
0036674269
-
Large-scale proteomic analysis of the human spliceosome
-
doi:10.1101/gr.473902
-
Rappsilber J, Ryder U, Lamond AI, Mann M (2002) Large-scale proteomic analysis of the human spliceosome. Genome Res 12(8):1231-1245. doi:10.1101/gr.473902
-
(2002)
Genome Res
, vol.12
, Issue.8
, pp. 1231-1245
-
-
Rappsilber, J.1
Ryder, U.2
Lamond, A.I.3
Mann, M.4
-
204
-
-
33846133955
-
Computational prediction of proteotypic peptides for quantitative proteomics
-
doi:nbt1275 [pii] 10.1038/nbt1275
-
Mallick P, Schirle M, Chen SS, Flory MR, Lee H, Martin D, Ranish J, Raught B, Schmitt R, Werner T, Kuster B, Aebersold R (2007) Computational prediction of proteotypic peptides for quantitative proteomics. Nat Biotechnol 25(1):125-131. doi:nbt1275 [pii] 10.1038/nbt1275
-
(2007)
Nat Biotechnol
, vol.25
, Issue.1
, pp. 125-131
-
-
Mallick, P.1
Schirle, M.2
Chen, S.S.3
Flory, M.R.4
Lee, H.5
Martin, D.6
Ranish, J.7
Raught, B.8
Schmitt, R.9
Werner, T.10
Kuster, B.11
Aebersold, R.12
-
205
-
-
60649101258
-
The APEX quantitative proteomics tool: Generating protein quantitation estimates from LC-MS/MS proteomics results
-
doi:1471-2105-9-529 [pii] 10.1186/1471-2105-9-529
-
Braisted JC, Kuntumalla S, Vogel C, Marcotte EM, Rodrigues AR, Wang R, Huang ST, Ferlanti ES, Saeed AI, Fleischmann RD, Peterson SN, Pieper R (2008) The APEX quantitative proteomics tool: generating protein quantitation estimates from LC-MS/MS proteomics results. BMC Bioinformatics 9:529. doi:1471-2105-9-529 [pii] 10.1186/1471-2105-9-529
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 529
-
-
Braisted, J.C.1
Kuntumalla, S.2
Vogel, C.3
Marcotte, E.M.4
Rodrigues, A.R.5
Wang, R.6
Huang, S.T.7
Ferlanti, E.S.8
Saeed, A.I.9
Fleischmann, R.D.10
Peterson, S.N.11
Pieper, R.12
-
206
-
-
77951650200
-
Role of spectral counting in quantitative proteomics
-
doi:10.1586/epr.09.69
-
Lundgren DH, Hwang SI, Wu L, Han DK (2010) Role of spectral counting in quantitative proteomics. Expert Rev Proteomics 7(1):39-53. doi:10.1586/epr.09.69
-
(2010)
Expert Rev Proteomics
, vol.7
, Issue.1
, pp. 39-53
-
-
Lundgren, D.H.1
Hwang, S.I.2
Wu, L.3
Han, D.K.4
-
207
-
-
34247642450
-
Quantitative proteomic analysis of distinct mammalian Mediator complexes using normalized spectral abundance factors
-
doi:0606379103 [pii] 10.1073/pnas.0606379103
-
Paoletti AC, Parmely TJ, Tomomori-Sato C, Sato S, Zhu D, Conaway RC, Conaway JW, Florens L, Washburn MP (2006) Quantitative proteomic analysis of distinct mammalian Mediator complexes using normalized spectral abundance factors. Proc Natl Acad Sci U S A 103(50):18928-18933. doi:0606379103 [pii] 10.1073/pnas.0606379103
-
(2006)
Proc Natl Acad Sci U S a
, vol.103
, Issue.50
, pp. 18928-18933
-
-
Paoletti, A.C.1
Parmely, T.J.2
Tomomori-Sato, C.3
Sato, S.4
Zhu, D.5
Conaway, R.C.6
Conaway, J.W.7
Florens, L.8
Washburn, M.P.9
-
208
-
-
38149103492
-
The chicken egg yolk plasma and granule proteomes
-
doi:10.1002/pmic.200700790
-
Mann K, Mann M (2008) The chicken egg yolk plasma and granule proteomes. Proteomics 8(1):178-191. doi:10.1002/pmic.200700790
-
(2008)
Proteomics
, vol.8
, Issue.1
, pp. 178-191
-
-
Mann, K.1
Mann, M.2
-
209
-
-
78049278939
-
Deletion of the Cel48S cellulase from Clostridium thermocellum
-
doi:1003584107 [pii] 10.1073/pnas.1003584107
-
Olson DG, Tripathi SA, Giannone RJ, Lo J, Caiazza NC, Hogsett DA, Hettich RL, Guss AM, Dubrovsky G, Lynd LR (2010) Deletion of the Cel48S cellulase from Clostridium thermocellum. Proc Natl Acad Sci U S A 107(41):17727-17732. doi:1003584107 [pii] 10.1073/pnas.1003584107
-
(2010)
Proc Natl Acad Sci U S a
, vol.107
, Issue.41
, pp. 17727-17732
-
-
Olson, D.G.1
Tripathi, S.A.2
Giannone, R.J.3
Lo, J.4
Caiazza, N.C.5
Hogsett, D.A.6
Hettich, R.L.7
Guss, A.M.8
Dubrovsky, G.9
Lynd, L.R.10
-
210
-
-
41549117597
-
A quantitative analysis software tool for mass spectrometry-based proteomics
-
doi:nmeth.1195 [pii] 10.1038/nmeth.1195
-
Park SK, Venable JD, Xu T, Yates JR 3rd (2008) A quantitative analysis software tool for mass spectrometry-based proteomics. Nat Methods 5(4):319-322. doi:nmeth.1195 [pii] 10.1038/nmeth.1195
-
(2008)
Nat Methods
, vol.5
, Issue.4
, pp. 319-322
-
-
Park, S.K.1
Venable, J.D.2
Xu, T.3
Yates III, J.R.4
-
211
-
-
77954205753
-
PepC: Proteomics software for identifying differentially expressed proteins based on spectral counting
-
doi:btq171 [pii] 10.1093/bioinformatics/btq171
-
Heinecke NL, Pratt BS, Vaisar T, Becker L (2010) PepC: proteomics software for identifying differentially expressed proteins based on spectral counting. Bioinformatics 26(12):1574-1575. doi:btq171 [pii] 10.1093/ bioinformatics/btq171
-
(2010)
Bioinformatics
, vol.26
, Issue.12
, pp. 1574-1575
-
-
Heinecke, N.L.1
Pratt, B.S.2
Vaisar, T.3
Becker, L.4
-
212
-
-
74049132731
-
Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis
-
doi:nbt.1592 [pii] 10.1038/nbt.1592
-
Griffin NM, Yu J, Long F, Oh P, Shore S, Li Y, Koziol JA, Schnitzer JE (2010) Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis. Nat Biotechnol 28(1):83-89. doi:nbt.1592 [pii] 10.1038/nbt.1592
-
(2010)
Nat Biotechnol
, vol.28
, Issue.1
, pp. 83-89
-
-
Griffin, N.M.1
Yu, J.2
Long, F.3
Oh, P.4
Shore, S.5
Li, Y.6
Koziol, J.A.7
Schnitzer, J.E.8
-
213
-
-
76649139789
-
IDEAL-Q, an automated tool for label-free quantitation analysis using an efficient peptide alignment approach and spectral data validation
-
doi:M900177-MCP200 [pii] 10.1074/mcp.M900177-MCP200
-
Tsou CC, Tsai CF, Tsui YH, Sudhir PR, Wang YT, Chen YJ, Chen JY, Sung TY, Hsu WL (2010) IDEAL-Q, an automated tool for label-free quantitation analysis using an efficient peptide alignment approach and spectral data validation. Mol Cell Proteomics 9(1):131-144. doi:M900177-MCP200 [pii] 10.1074/mcp.M900177- MCP200
-
(2010)
Mol Cell Proteomics
, vol.9
, Issue.1
, pp. 131-144
-
-
Tsou, C.C.1
Tsai, C.F.2
Tsui, Y.H.3
Sudhir, P.R.4
Wang, Y.T.5
Chen, Y.J.6
Chen, J.Y.7
Sung, T.Y.8
Hsu, W.L.9
-
214
-
-
57449099865
-
MaxQuant enables high peptide identification rates, individualized P.P.B.-Range mass accuracies and proteome-wide protein quantification
-
doi:nbt.1511 [pii] 10.1038/nbt.1511
-
Cox J, Mann M (2008) MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol 26(12):1367-1372. doi:nbt.1511 [pii] 10.1038/nbt.1511
-
(2008)
Nat Biotechnol
, vol.26
, Issue.12
, pp. 1367-1372
-
-
Cox, J.1
Mann, M.2
-
215
-
-
33747180294
-
A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS
-
doi:btl276 [pii] 10.1093/bioinformatics/ btl276
-
Bellew M, Coram M, Fitzgibbon M, Igra M, Randolph T, Wang P, May D, Eng J, Fang R, Lin C, Chen J, Goodlett D, Whiteaker J, Paulovich A, McIntosh M (2006) A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS. Bioinformatics 22(15):1902-1909. doi:btl276 [pii] 10.1093/bioinformatics/ btl276
-
(2006)
Bioinformatics
, vol.22
, Issue.15
, pp. 1902-1909
-
-
Bellew, M.1
Coram, M.2
Fitzgibbon, M.3
Igra, M.4
Randolph, T.5
Wang, P.6
May, D.7
Eng, J.8
Fang, R.9
Lin, C.10
Chen, J.11
Goodlett, D.12
Whiteaker, J.13
Paulovich, A.14
McIntosh, M.15
-
216
-
-
77954772536
-
MZmine 2: Modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data
-
doi:1471-2105-11-395 [pii] 10.1186/1471-2105-11-395
-
Pluskal T, Castillo S, Villar-Briones A, Oresic M (2010) MZmine 2: modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data. BMC Bioinformatics 11:395. doi:1471-2105-11-395 [pii] 10.1186/1471-2105-11-395
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 395
-
-
Pluskal, T.1
Castillo, S.2
Villar-Briones, A.3
Oresic, M.4
-
217
-
-
33750615386
-
PEPPeR, a platform for experimental proteomic pattern recognition
-
doi:M600222-MCP200 [pii] 10.1074/mcp.M600222-MCP200
-
Jaffe JD, Mani DR, Leptos KC, Church GM, Gillette MA, Carr SA (2006) PEPPeR, a platform for experimental proteomic pattern recognition. Mol Cell Proteomics 5(10):1927-1941. doi:M600222-MCP200 [pii] 10.1074/mcp.M600222-MCP200
-
(2006)
Mol Cell Proteomics
, vol.5
, Issue.10
, pp. 1927-1941
-
-
Jaffe, J.D.1
Mani, D.R.2
Leptos, K.C.3
Church, G.M.4
Gillette, M.A.5
Carr, S.A.6
-
218
-
-
35348965139
-
SuperHirna novel tool for high resolution LC-MS-based peptide/protein profiling
-
doi:10.1002/pmic.200700057
-
Mueller LN, Rinner O, Schmidt A, Letarte S, Bodenmiller B, Brusniak MY, Vitek O, Aebersold R, Muller M (2007) SuperHirna novel tool for high resolution LC-MS-based peptide/protein profiling. Proteomics 7(19):3470-3480. doi:10.1002/pmic.200700057
-
(2007)
Proteomics
, vol.7
, Issue.19
, pp. 3470-3480
-
-
Mueller, L.N.1
Rinner, O.2
Schmidt, A.3
Letarte, S.4
Bodenmiller, B.5
Brusniak, M.Y.6
Vitek, O.7
Aebersold, R.8
Muller, M.9
-
219
-
-
0037106398
-
Identification and relative quantitation of protein mixtures by enzymatic digestion followed by capillary reversed-phase liquid chromatography-tandem mass spectrometry
-
Bondarenko PV, Chelius D, Shaler TA (2002) Identification and relative quantitation of protein mixtures by enzymatic digestion followed by capillary reversed-phase liquid chromatography-tandem mass spectrometry. Anal Chem 74(18):4741-4749
-
(2002)
Anal Chem
, vol.74
, Issue.18
, pp. 4741-4749
-
-
Bondarenko, P.V.1
Chelius, D.2
Shaler, T.A.3
-
220
-
-
0036665581
-
Quantitative profiling of proteins in complex mixtures using liquid chromatography and mass spectrometry
-
Chelius D, Bondarenko PV (2002) Quantitative profiling of proteins in complex mixtures using liquid chromatography and mass spectrometry. J Proteome Res 1(4):317-323
-
(2002)
J Proteome Res
, vol.1
, Issue.4
, pp. 317-323
-
-
Chelius, D.1
Bondarenko, P.V.2
-
221
-
-
79251595677
-
Data processing pipelines for comprehensive profiling of proteomics samples by labelfree LC-MS for biomarker discovery
-
doi:S0039-9140(10)00825-8 [pii] 10.1016/j.talanta.2010.10.029
-
Christin C, Bischoff R, Horvatovich P (2011) Data processing pipelines for comprehensive profiling of proteomics samples by labelfree LC-MS for biomarker discovery. Talanta 83(4):1209-1224. doi:S0039-9140(10)00825-8 [pii] 10.1016/j.talanta.2010.10.029
-
(2011)
Talanta
, vol.83
, Issue.4
, pp. 1209-1224
-
-
Christin, C.1
Bischoff, R.2
Horvatovich, P.3
-
222
-
-
77957367167
-
Ultra-high performance liquid chromatographymass spectrometry for the fast profiling of histone post-translational modifications
-
doi:10.1021/pr100497a
-
Contrepois K, Ezan E, Mann C, Fenaille F (2010) Ultra-high performance liquid chromatographymass spectrometry for the fast profiling of histone post-translational modifications. J Proteome Res 9(10):5501-5509. doi:10.1021/pr100497a
-
(2010)
J Proteome Res
, vol.9
, Issue.10
, pp. 5501-5509
-
-
Contrepois, K.1
Ezan, E.2
Mann, C.3
Fenaille, F.4
-
223
-
-
32344442813
-
Normalization approaches for removing systematic biases associated with mass spectrometry and label-free proteomics
-
doi:10.1021/pr050300l
-
Callister SJ, Barry RC, Adkins JN, Johnson ET, Qian WJ, Webb-Robertson BJ, Smith RD, Lipton MS (2006) Normalization approaches for removing systematic biases associated with mass spectrometry and label-free proteomics. J Proteome Res 5(2):277-286. doi:10.1021/pr050300l
-
(2006)
J Proteome Res
, vol.5
, Issue.2
, pp. 277-286
-
-
Callister, S.J.1
Barry, R.C.2
Adkins, J.N.3
Johnson, E.T.4
Qian, W.J.5
Webb-Robertson, B.J.6
Smith, R.D.7
Lipton, M.S.8
-
224
-
-
71049194213
-
Development and eval uation of normalization methods for label-free relative quantification of endogenous peptides
-
doi:M800514-MCP200 [pii] 10.1074/mcp. M800514-MCP200
-
Kultima K, Nilsson A, Scholz B, Rossbach UL, Falth M, Andren PE (2009) Development and eval uation of normalization methods for label-free relative quantification of endogenous peptides. Mol Cell Proteomics 8(10):2285-2295. doi:M800514-MCP200 [pii] 10.1074/mcp. M800514-MCP200
-
(2009)
Mol Cell Proteomics
, vol.8
, Issue.10
, pp. 2285-2295
-
-
Kultima, K.1
Nilsson, A.2
Scholz, B.3
Rossbach, U.L.4
Falth, M.5
Andren, P.E.6
-
225
-
-
63849247205
-
Proteomics strategies for target identification and biomarker discovery in cancer
-
doi:3452 [pii]
-
Rajcevic U, Niclou SP, Jimenez CR (2009) Proteomics strategies for target identification and biomarker discovery in cancer. Front Biosci 14:3292-3303. doi:3452 [pii]
-
(2009)
Front Biosci
, vol.14
, pp. 3292-3303
-
-
Rajcevic, U.1
Niclou, S.P.2
Jimenez, C.R.3
-
226
-
-
74049115774
-
Mass spectrometry-based label-free quantitative proteomics
-
doi:10.1155/2010/840518
-
Zhu W, Smith JW, Huang CM (2010) Mass spectrometry-based label-free quantitative proteomics. J Biomed Biotechnol 2010:840518. doi:10.1155/2010/ 840518
-
(2010)
J Biomed Biotechnol
, vol.2010
, pp. 840518
-
-
Zhu, W.1
Smith, J.W.2
Huang, C.M.3
-
227
-
-
64549128284
-
Robustness and accuracy of high speed LC-MS separations for global peptide quantitation and biomarker discovery
-
doi:S1570-0232(09)00138-X [pii] 10.1016/j.jchromb.2009.02.052
-
Lengqvist J, Andrade J, Yang Y, Alvelius G, Lewensohn R, Lehtio J (2009) Robustness and accuracy of high speed LC-MS separations for global peptide quantitation and biomarker discovery. J Chromatogr B Analyt Technol Biomed Life Sci 877(13):1306-1316. doi:S1570-0232(09)00138-X [pii] 10.1016/j.jchromb.2009. 02.052
-
(2009)
J Chromatogr B Analyt Technol Biomed Life Sci
, vol.877
, Issue.13
, pp. 1306-1316
-
-
Lengqvist, J.1
Andrade, J.2
Yang, Y.3
Alvelius, G.4
Lewensohn, R.5
Lehtio, J.6
-
228
-
-
84880037648
-
LC/MSbased quantitative proteomic analysis of paraffinembedded archival melanomas reveals potential proteomic biomarkers associated with metastasis
-
doi:10.1371/journal.pone. 0004430
-
Huang SK, Darfler MM, Nicholl MB, You J, Bemis KG, Tegeler TJ, Wang M, Wery JP, Chong KK, Nguyen L, Scolyer RA, Hoon DS (2009) LC/MSbased quantitative proteomic analysis of paraffinembedded archival melanomas reveals potential proteomic biomarkers associated with metastasis. PLoS One 4(2)):e4430. doi:10.1371/journal.pone. 0004430
-
(2009)
PLoS One
, vol.4
, Issue.2
-
-
Huang, S.K.1
Darfler, M.M.2
Nicholl, M.B.3
You, J.4
Bemis, K.G.5
Tegeler, T.J.6
Wang, M.7
Wery, J.P.8
Chong, K.K.9
Nguyen, L.10
Scolyer, R.A.11
Hoon, D.S.12
-
229
-
-
33847252481
-
CSF biomarker discovery using label-free nano-LC-MS based proteomic profiling: Technical aspects
-
Huang JT, McKenna T, Hughes C, Leweke FM, Schwarz E, Bahn S (2007) CSF biomarker discovery using label-free nano-LC-MS based proteomic profiling: technical aspects. J Sep Sci 30(2): 214-225
-
(2007)
J Sep Sci
, vol.30
, Issue.2
, pp. 214-225
-
-
Huang, J.T.1
McKenna, T.2
Hughes, C.3
Leweke, F.M.4
Schwarz, E.5
Bahn, S.6
-
230
-
-
42649131100
-
Statistical similarities between transcriptomics and quantitative shotgun proteomics data
-
doi:M700240-MCP200 [pii] 10.1074/mcp.M700240-MCP200
-
Pavelka N, Fournier ML, Swanson SK, Pelizzola M, Ricciardi-Castagnoli P, Florens L, Washburn MP (2008) Statistical similarities between transcriptomics and quantitative shotgun proteomics data. Mol Cell Proteomics 7(4):631-644. doi:M700240-MCP200 [pii] 10.1074/mcp.M700240-MCP200
-
(2008)
Mol Cell Proteomics
, vol.7
, Issue.4
, pp. 631-644
-
-
Pavelka, N.1
Fournier, M.L.2
Swanson, S.K.3
Pelizzola, M.4
Ricciardi-Castagnoli, P.5
Florens, L.6
Washburn, M.P.7
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