-
1
-
-
2642520417
-
Top-down proteomics
-
Kelleher, N. L. (2004) Top-down proteomics. Anal. Chem. 76, 196A-203A.
-
(2004)
Anal. Chem.
, vol.76
-
-
Kelleher, N.L.1
-
2
-
-
33749615256
-
Mass spectrometry: Bottom-up or top-down?
-
Chait, B. T. (2006) Mass spectrometry: bottom-up or top-down? Science 314, 65-66
-
(2006)
Science
, vol.314
, pp. 65-66
-
-
Chait, B.T.1
-
3
-
-
83055176451
-
Mapping intact protein isoforms in discovery mode using top-down proteomics
-
Tran, J. C., Zamdborg, L., Ahlf, D. R., Lee, J. E., Catherman, A. D., Durbin, K. R., Tipton, J. D., Vellaichamy, A., Kellie, J. F., Li, M., Wu, C., Sweet, S. M. M., Early, B. P., Siuti, N., LeDuc, R. D., Compton, P. D., Thomas, P. M., and Kelleher, N. L. (2011) Mapping intact protein isoforms in discovery mode using top-down proteomics. Nature 480, 254-258
-
(2011)
Nature
, vol.480
, pp. 254-258
-
-
Tran, J.C.1
Zamdborg, L.2
Ahlf, D.R.3
Lee, J.E.4
Catherman, A.D.5
Durbin, K.R.6
Tipton, J.D.7
Vellaichamy, A.8
Kellie, J.F.9
Li, M.10
Wu, C.11
Sweet, S.M.M.12
Early, B.P.13
Siuti, N.14
Leduc, R.D.15
Compton, P.D.16
Thomas, P.M.17
Kelleher, N.L.18
-
4
-
-
84855369410
-
Robust analysis of the yeast proteome under 50 kDa by molecular-mass-based fractionation and top-down mass spectrometry
-
Kellie, J. F., Catherman, A. D., Durbin, K. R., Tran, J. C., Tipton, J. D., Norris, J. L., Witkowski, C. E., Thomas, P. M., and Kelleher, N. L. (2012) Robust analysis of the yeast proteome under 50 kDa by molecular-mass-based fractionation and top-down mass spectrometry. Anal. Chem. 84, 209-215
-
(2012)
Anal. Chem.
, vol.84
, pp. 209-215
-
-
Kellie, J.F.1
Catherman, A.D.2
Durbin, K.R.3
Tran, J.C.4
Tipton, J.D.5
Norris, J.L.6
Witkowski, C.E.7
Thomas, P.M.8
Kelleher, N.L.9
-
5
-
-
84873385391
-
Top down proteomics of human membrane proteins from enriched mitochondrial fractions
-
Catherman, A. D., Li, M., Tran, J. C., Durbin, K. R., Compton, P. D., Early, B. P., Thomas, P. M., and Kelleher, N. L. (2013) Top down proteomics of human membrane proteins from enriched mitochondrial fractions. Anal. Chem. 85, 1880-1888
-
(2013)
Anal. Chem.
, vol.85
, pp. 1880-1888
-
-
Catherman, A.D.1
Li, M.2
Tran, J.C.3
Durbin, K.R.4
Compton, P.D.5
Early, B.P.6
Thomas, P.M.7
Kelleher, N.L.8
-
6
-
-
84864604524
-
Evaluation of the compact high-field Orbitrap for top-down proteomics of human cells
-
Ahlf, D. R., Compton, P. D., Tran, J. C., Early, B. P., Thomas, P. M., and Kelleher, N. L. (2012) Evaluation of the compact high-field Orbitrap for top-down proteomics of human cells. J. Proteome Res. 11, 4308-4314
-
(2012)
J. Proteome Res.
, vol.11
, pp. 4308-4314
-
-
Ahlf, D.R.1
Compton, P.D.2
Tran, J.C.3
Early, B.P.4
Thomas, P.M.5
Kelleher, N.L.6
-
7
-
-
84879287974
-
Top-down proteomics reveals a unique protein S-thiolation switch in almonella typhimurium in response to infection-like conditions
-
Ansong, C., Wu, S., Meng, D., Liu, X., Brewer, H. M., Deatherage Kaiser, B. L., Nakayasu, E. S., Cort, J. R., Pevzner, P., Smith, R. D., Heffron, F., Adkins, J. N., and Paša-Tolić, L. (2013) Top-down proteomics reveals a unique protein S-thiolation switch in almonella typhimurium in response to infection-like conditions. Proc. Natl. Acad. Sci. U.S.A.
-
(2013)
Proc. Natl. Acad. Sci. U.S.A.
-
-
Ansong, C.1
Wu, S.2
Meng, D.3
Liu, X.4
Brewer, H.M.5
Deatherage Kaiser, B.L.6
Nakayasu, E.S.7
Cort, J.R.8
Pevzner, P.9
Smith, R.D.10
Heffron, F.11
Adkins, J.N.12
Paša-Tolić, L.13
-
8
-
-
84874625369
-
Proteoform a single term describing protein complexity
-
Smith, L. M., and Kelleher, N. L. (2013) Proteoform: a single term describing protein complexity. Nat. Methods 10, 186-187
-
(2013)
Nat. Methods
, vol.10
, pp. 186-187
-
-
Smith, L.M.1
Kelleher, N.L.2
-
9
-
-
71449104857
-
A common property of amyotrophic lateral sclerosis-associated variants: Destabilization of the copper/zinc superoxide ismutase electrostatic loop
-
Molnar, K. S., Karabacak, N. M., Johnson, J. L., Wang, Q., Tiwari, A., Hayward, L. J., Coales, S. J., Hamuro, Y., and Agar, J. N. (2009) A common property of amyotrophic lateral sclerosis-associated variants: destabilization of the copper/zinc superoxide ismutase electrostatic loop. J. Biol. Chem. 284, 30965-30973
-
(2009)
J. Biol. Chem.
, vol.284
, pp. 30965-30973
-
-
Molnar, K.S.1
Karabacak, N.M.2
Johnson, J.L.3
Wang, Q.4
Tiwari, A.5
Hayward, L.J.6
Coales, S.J.7
Hamuro, Y.8
Agar, J.N.9
-
10
-
-
84890650976
-
Augmented phosphorylation of cardiac troponin 1 in hypertensive heart failure
-
Dong, X., Sumandea, C. A., Chen, Y.-C., Garcia-Cazarin, M. L., Zhang, J., Balke, C. W., Sumandea, M. P., and Ge, Y. (2011) Augmented phosphorylation of cardiac troponin 1 in hypertensive heart failure. J. Biol. Chem.
-
(2011)
J. Biol. Chem.
-
-
Dong, X.1
Sumandea, C.A.2
Chen, Y.-C.3
Garcia-Cazarin, M.L.4
Zhang, J.5
Balke, C.W.6
Sumandea, M.P.7
Ge, Y.8
-
11
-
-
79951506883
-
Osttranslational modification of pili upon cell contact triggers n. Meningitidis dissemination
-
Chamot-Rooke, J., Mikaty, G., Malosse, C., Soyer, M., Dumont, A., Gault, J., Imhaus, A.-F., Martin, P., Trellet, M., Clary, G., Chafey, P., Camoin, L., Nilges, M., Nassif, X., and Dumé nil, G. (2011) osttranslational modification of pili upon cell contact triggers N. meningitidis dissemination. Science 331, 778-782
-
(2011)
Science
, vol.331
, pp. 778-782
-
-
Chamot-Rooke, J.1
Mikaty, G.2
Malosse, C.3
Soyer, M.4
Dumont, A.5
Gault, J.6
Imhaus, A.-F.7
Martin, P.8
Trellet, M.9
Clary, G.10
Chafey, P.11
Camoin, L.12
Nilges, M.13
Nassif, X.14
Dumé Nil, G.15
-
12
-
-
33750804123
-
Definition of the mitochondrial proteome by measurement of molecular masses of membrane proteins
-
Carroll, J., Fearnley, I. M., and Walker, J. E. (2006) Definition of the mitochondrial proteome by measurement of molecular masses of membrane proteins. Proc. Natl. Acad. Sci. U.S.A. 103, 16170-16175
-
(2006)
Proc. Natl. Acad. Sci. U.S.A.
, vol.103
, pp. 16170-16175
-
-
Carroll, J.1
Fearnley, I.M.2
Walker, J.E.3
-
13
-
-
35448937657
-
Identification of membrane proteins by tandem mass spectrometry of protein ions
-
Carroll, J., Altman, M. C., Fearnley, I. M., and Walker, J. E. (2007) Identification of membrane proteins by tandem mass spectrometry of protein ions. Proc. Natl. Acad. Sci. U.S.A. 104, 14330-14335
-
(2007)
Proc. Natl. Acad. Sci. U.S.A.
, vol.104
, pp. 14330-14335
-
-
Carroll, J.1
Altman, M.C.2
Fearnley, I.M.3
Walker, J.E.4
-
14
-
-
77951839609
-
Post-translational modifications of integral membrane proteins resolved by top-down Fourier transform mass spectrometry with collisionally activated dissociation
-
Ryan, C. M., Souda, P., Bassilian, S., Ujwal, R., Zhang, J., Abramson, J., Ping, P. P., Durazo, A., Bowie, J. U., Hasan, S. S., Baniulis, D., Cramer, W. A., Faull, K. F., and Whitelegge, J. P. (2010) Post-translational modifications of integral membrane proteins resolved by top-down Fourier transform mass spectrometry with collisionally activated dissociation. Mol. Cell. Proteomics 9, 791-803
-
(2010)
Mol. Cell. Proteomics
, vol.9
, pp. 791-803
-
-
Ryan, C.M.1
Souda, P.2
Bassilian, S.3
Ujwal, R.4
Zhang, J.5
Abramson, J.6
Ping, P.P.7
Durazo, A.8
Bowie, J.U.9
Hasan, S.S.10
Baniulis, D.11
Cramer, W.A.12
Faull, K.F.13
Whitelegge, J.P.14
-
15
-
-
78649436428
-
Data-directed topdown Fourier-transform mass spectrometry of a large integral membrane protein complex: Photosystem 2 from Galdieria sulphuraria
-
Thangaraj, B., Ryan, C. M., Souda, P., Krause, K., Faull, K. F., Weber, A. P. M., Fromme, P., and Whitelegge, J. P. (2010) Data-directed topdown Fourier-transform mass spectrometry of a large integral membrane protein complex: photosystem 2 from Galdieria sulphuraria. Proteomics 10, 3644-3656
-
(2010)
Proteomics
, vol.10
, pp. 3644-3656
-
-
Thangaraj, B.1
Ryan, C.M.2
Souda, P.3
Krause, K.4
Faull, K.F.5
Weber, A.P.M.6
Fromme, P.7
Whitelegge, J.P.8
-
16
-
-
33845909817
-
Topdown mass spectrometry of integral membrane proteins
-
Whitelegge, J., Halgand, F., Souda, P., and Zabrouskov, V. (2006) Topdown mass spectrometry of integral membrane proteins. Expert Rev. Proteomics 3, 585-596
-
(2006)
Expert Rev. Proteomics
, vol.3
, pp. 585-596
-
-
Whitelegge, J.1
Halgand, F.2
Souda, P.3
Zabrouskov, V.4
-
17
-
-
0036766965
-
An alternative strategy to determine the mitochondrial proteome using sucrose gradient fractionation and 1D PAGE on highly purified human heart mitochondria
-
Taylor, S. W., Warnock, D. E., Glenn, G. M., Zhang, B., Fahy, E., Gaucher, S. P., Capaldi, R. A., Gibson, B. W., and Ghosh, S. S. (2002) An alternative strategy to determine the mitochondrial proteome using sucrose gradient fractionation and 1D PAGE on highly purified human heart mitochondria. J. Proteome Res. 1, 451-458
-
(2002)
J. Proteome Res.
, vol.1
, pp. 451-458
-
-
Taylor, S.W.1
Warnock, D.E.2
Glenn, G.M.3
Zhang, B.4
Fahy, E.5
Gaucher, S.P.6
Capaldi, R.A.7
Gibson, B.W.8
Ghosh, S.S.9
-
18
-
-
0345687191
-
The proteome of Saccharomyces cerevisiae mitochondria
-
Sickmann, A., Reinders, J., Wagner, Y., Joppich, C., Zahedi, R., Meyer, H. E., Schonfisch, B., Perschil, I., Chacinska, A., Guiard, B., Rehling, P.,Pfanner, N., and Meisinger, C. (2003) The proteome of Saccharomyces cerevisiae mitochondria. Proc. Natl. Acad. Sci. U.S.A. 100, 13207-13212
-
(2003)
Proc. Natl. Acad. Sci. U.S.A.
, vol.100
, pp. 13207-13212
-
-
Sickmann, A.1
Reinders, J.2
Wagner, Y.3
Joppich, C.4
Zahedi, R.5
Meyer, H.E.6
Schonfisch, B.7
Perschil, I.8
Chacinska, A.9
Guiard, B.10
Rehling, P.11
Pfanner, N.12
Meisinger, C.13
-
19
-
-
10744224439
-
Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria
-
Mootha, V. K., Bunkenborg, J., Olsen, J. V., Hjerrild, M., Wisniewski, J. R., Stahl, E., Bolouri, M. S., Ray, H. N., Sihag, S., Kamal, M., Patterson, N., Lander, E. S., and Mann, M. (2003) Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Cell 115, 629-640
-
(2003)
Cell
, vol.115
, pp. 629-640
-
-
Mootha, V.K.1
Bunkenborg, J.2
Olsen, J.V.3
Hjerrild, M.4
Wisniewski, J.R.5
Stahl, E.6
Bolouri, M.S.7
Ray, H.N.8
Sihag, S.9
Kamal, M.10
Patterson, N.11
Lander, E.S.12
Mann, M.13
-
20
-
-
33645704767
-
Quantitative proteomic comparison of rat mitochondria from muscle, heart, and liver
-
Forner, F., Foster, L. J., Campanaro, S., Valle, G., and Mann, M. (2006) Quantitative proteomic comparison of rat mitochondria from muscle, heart, and liver. Mol. Cell. Proteomics 5, 608-619
-
(2006)
Mol. Cell. Proteomics
, vol.5
, pp. 608-619
-
-
Forner, F.1
Foster, L.J.2
Campanaro, S.3
Valle, G.4
Mann, M.5
-
21
-
-
33645993265
-
Global survey of organ and organelle protein expression in mouse: Combined proteomic and transcriptomic profiling
-
Kislinger, T., Cox, B., Kannan, A., Chung, C., Hu, P., Ignatchenko, A., Scott, M. S., Gramolini, A. O., Morris, Q., Hallett, M. T., Rossant, J., Hughes, T. R., Frey, B., and Emili, A. (2006) Global survey of organ and organelle protein expression in mouse: combined proteomic and transcriptomic profiling. Cell 125, 173-186
-
(2006)
Cell
, vol.125
, pp. 173-186
-
-
Kislinger, T.1
Cox, B.2
Kannan, A.3
Chung, C.4
Hu, P.5
Ignatchenko, A.6
Scott, M.S.7
Gramolini, A.O.8
Morris, Q.9
Hallett, M.T.10
Rossant, J.11
Hughes, T.R.12
Frey, B.13
Emili, A.14
-
22
-
-
74949127989
-
Protocols to detect senescence-associated beta-galactosidase (SA-βgal) activity, a biomarker of senescent cells in culture and in vivo
-
Debacq-Chainiaux, F., Erusalimsky, J. D., Campisi, J., and Toussaint, O. (2009) Protocols to detect senescence-associated beta-galactosidase (SA-βgal) activity, a biomarker of senescent cells in culture and in vivo. Nat. Protoc. 4, 1798-1806
-
(2009)
Nat. Protoc.
, vol.4
, pp. 1798-1806
-
-
Debacq-Chainiaux, F.1
Erusalimsky, J.D.2
Campisi, J.3
Toussaint, O.4
-
23
-
-
45549099717
-
Rapid and effective focusing in a carrier ampholyte solution isoelectric focusing system: A proteome prefractionation tool
-
Tran, J. C., and Doucette, A. A. (2008) Rapid and effective focusing in a carrier ampholyte solution isoelectric focusing system: a proteome prefractionation tool. J. Proteome Res. 7, 1761-1766
-
(2008)
J. Proteome Res.
, vol.7
, pp. 1761-1766
-
-
Tran, J.C.1
Doucette, A.A.2
-
24
-
-
0021355340
-
A method for the quantitative recovery of protein in dilute solution in the presence of detergents and lipids
-
Wessel, D., and Flugge, U. I. (1984) A method for the quantitative recovery of protein in dilute solution in the presence of detergents and lipids. Anal. Biochem. 138, 141-143
-
(1984)
Anal. Biochem.
, vol.138
, pp. 141-143
-
-
Wessel, D.1
Flugge, U.I.2
-
25
-
-
78649410782
-
Intact mass detection interpretation and visualization to automate Top-Down proteomics on a large scale
-
Durbin, K. R., Tran, J. C., Zamdborg, L., Sweet, S. M. M., Catherman, A. D., Lee, J. E., Li, M. X., Kellie, J. F., and Kelleher, N. L. (2010) Intact mass detection, interpretation, and visualization to automate Top-Down proteomics on a large scale. Proteomics 10, 3589-3597
-
(2010)
Proteomics
, vol.10
, pp. 3589-3597
-
-
Durbin, K.R.1
Tran, J.C.2
Zamdborg, L.3
Sweet, S.M.M.4
Catherman, A.D.5
Lee, J.E.6
Li, M.X.7
Kellie, J.F.8
Kelleher, N.L.9
-
26
-
-
1642272372
-
Shotgun annotation of histone modifications: A new approach for streamlined characterization of proteins by top down mass spectrometry
-
Pesavento, J. J., Kim, Y.-B., Taylor, G. K., and Kelleher, N. L. (2004) Shotgun annotation of histone modifications: a new approach for streamlined characterization of proteins by top down mass spectrometry. J. Am. Chem. Soc. 126, 3386-3387
-
(2004)
J. Am. Chem. Soc.
, vol.126
, pp. 3386-3387
-
-
Pesavento, J.J.1
Kim, Y.-B.2
Taylor, G.K.3
Kelleher, N.L.4
-
27
-
-
0031614678
-
A hidden Markov model for predicting transmembrane helices in protein sequences
-
Sonnhammer, E. L., von Heijne, G., and Krogh, A. (1998) A hidden Markov model for predicting transmembrane helices in protein sequences. Proc. Int. Conf. Intell. Syst. Mol. Biol. 6, 175-182
-
(1998)
Proc. Int. Conf. Intell. Syst. Mol. Biol.
, vol.6
, pp. 175-182
-
-
Sonnhammer, E.L.1
Von Heijne, G.2
Krogh, A.3
-
28
-
-
2542447058
-
Lysine 43 is trimethylated in subunit c from bovine mitochondrial ATP synthase and in storage bodies associated with Batten disease
-
Chen, R. M., Fearnley, I. M., Palmer, D. N., and Walker, J. E. (2004) Lysine 43 is trimethylated in subunit c from bovine mitochondrial ATP synthase and in storage bodies associated with Batten disease. J. Biol. Chem. 279, 21883-21887
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 21883-21887
-
-
Chen, R.M.1
Fearnley, I.M.2
Palmer, D.N.3
Walker, J.E.4
-
29
-
-
19944427674
-
Formation of macroH2A-containing senescence-associated heterochromatin foci and senescence driven by ASF1a and HIRA
-
Zhang, R., Poustovoitov, M. V., Ye, X., Santos, H. A., Chen, W., Daganzo, S. M., Erzberger, J. P., Serebriiskii, I. G., Canutescu, A. A., Dunbrack, R. L., Pehrson, J. R., Berger, J. M., Kaufman, P. D., and Adams, P. D. (2005) Formation of macroH2A-containing senescence-associated heterochromatin foci and senescence driven by ASF1a and HIRA. Dev. Cell 8, 19-30
-
(2005)
Dev. Cell
, vol.8
, pp. 19-30
-
-
Zhang, R.1
Poustovoitov, M.V.2
Ye, X.3
Santos, H.A.4
Chen, W.5
Daganzo, S.M.6
Erzberger, J.P.7
Serebriiskii, I.G.8
Canutescu, A.A.9
Dunbrack, R.L.10
Pehrson, J.R.11
Berger, J.M.12
Kaufman, P.D.13
Adams, P.D.14
-
30
-
-
0038182537
-
HBXIP functions as a cofactor of survivin in apoptosis suppression
-
Marusawa, H., Matsuzawa, S.-I., Welsh, K., Zou, H., Armstrong, R., Tamm, I., and Reed, J. C. (2003) HBXIP functions as a cofactor of survivin in apoptosis suppression. EMBO J. 22, 2729-2740
-
(2003)
EMBO J.
, vol.22
, pp. 2729-2740
-
-
Marusawa, H.1
Matsuzawa, S.-I.2
Welsh, K.3
Zou, H.4
Armstrong, R.5
Tamm, I.6
Reed, J.C.7
-
31
-
-
27644514673
-
The initial enzyme for glycosylphosphatidylinositol biosynthesis requires PIG-Y, a seventh component
-
Murakami, Y., Siripanyaphinyo, U., Hong, Y., Tashima, Y., Maeda, Y., and Kinoshita, T. (2005) The initial enzyme for glycosylphosphatidylinositol biosynthesis requires PIG-Y, a seventh component. Mol. Biol. Cell 16, 5236-5246
-
(2005)
Mol. Biol. Cell
, vol.16
, pp. 5236-5246
-
-
Murakami, Y.1
Siripanyaphinyo, U.2
Hong, Y.3
Tashima, Y.4
Maeda, Y.5
Kinoshita, T.6
-
32
-
-
0031889946
-
Glycosyl phosphatidylinositol anchor
-
Kooyman, D. L., Byrne, G. W., and Logan, J. S. (1998) Glycosyl phosphatidylinositol anchor. Exp. Nephrol. 6, 148-151
-
(1998)
Exp. Nephrol.
, vol.6
, pp. 148-151
-
-
Kooyman, D.L.1
Byrne, G.W.2
Logan, J.S.3
-
33
-
-
0034794886
-
Informatics and multiplexing of intact protein identification in bacteria and the archaea
-
Meng, F. Y., Cargile, B. J., Miller, L. M., Forbes, A. J., Johnson, J. R., and Kelleher, N. L. (2001) Informatics and multiplexing of intact protein identification in bacteria and the archaea. Nat. Biotechnol. 19, 952-957
-
(2001)
Nat. Biotechnol.
, vol.19
, pp. 952-957
-
-
Meng, F.Y.1
Cargile, B.J.2
Miller, L.M.3
Forbes, A.J.4
Johnson, J.R.5
Kelleher, N.L.6
-
34
-
-
0042424602
-
Statistical significance for genomewide studies
-
Storey, J. D., and Tibshirani, R. (2003) Statistical significance for genomewide studies. Proc. Natl. Acad. Sci. U.S.A. 100, 9440-9445
-
(2003)
Proc. Natl. Acad. Sci. U.S.A.
, vol.100
, pp. 9440-9445
-
-
Storey, J.D.1
Tibshirani, R.2
|