-
1
-
-
77954523086
-
Options and considerations when selecting a quantitative proteomics strategy
-
Domon B, Aebersold R. Options and considerations when selecting a quantitative proteomics strategy. Nat Biotechnology 2010, 28:710-721.
-
(2010)
Nat Biotechnology
, vol.28
, pp. 710-721
-
-
Domon, B.1
Aebersold, R.2
-
2
-
-
66949116701
-
Review, Human Proteome Detection and Quantitation Project: hPDQ
-
10.1074/mcp.R800015-MCP200, 2689772, 19131327
-
Anderson NK, Anderson NG, Pearson TQ, Borchers CH, Paulovich AG, Patterson SD, Gillette M, Aebersold R, Carr SA. Review, Human Proteome Detection and Quantitation Project: hPDQ. Mol Cell Proteomics 2009, 8:883-886. 10.1074/mcp.R800015-MCP200, 2689772, 19131327.
-
(2009)
Mol Cell Proteomics
, vol.8
, pp. 883-886
-
-
Anderson, N.K.1
Anderson, N.G.2
Pearson, T.Q.3
Borchers, C.H.4
Paulovich, A.G.5
Patterson, S.D.6
Gillette, M.7
Aebersold, R.8
Carr, S.A.9
-
3
-
-
33846133955
-
Computational Prediction of Proteotypic Peptides for Quantitative Proteomics
-
10.1038/nbt1275, 17195840
-
Mallick P, Schirle M, Chen SS, Flory MR, Lee H, Martin D, Ranish J, Raught B, Schmitt R, Werner T, Kuster B, Aebersold R. Computational Prediction of Proteotypic Peptides for Quantitative Proteomics. Nat Biotechnol 2007, 25(1):125-31. 10.1038/nbt1275, 17195840.
-
(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
-
4
-
-
59849093889
-
Prediction of High-Responding Peptides for Targeted Protein Assay by Mass Spectrometry
-
Fusaro VA, Mani DR, Mesirov JP, Carr SA. Prediction of High-Responding Peptides for Targeted Protein Assay by Mass Spectrometry. Nature biotechnology 2008, 27:190.
-
(2008)
Nature biotechnology
, vol.27
, pp. 190
-
-
Fusaro, V.A.1
Mani, D.R.2
Mesirov, J.P.3
Carr, S.A.4
-
5
-
-
54049090766
-
Review Selected Reaction Monitoring for Quantitative Proteomics
-
10.1038/msb.2008.61, 2583086, 18854821
-
Lange V, Picotti P, Domon B, Aebersold R. Review Selected Reaction Monitoring for Quantitative Proteomics. Molecular Systems Biology 2008, 4:222. 10.1038/msb.2008.61, 2583086, 18854821.
-
(2008)
Molecular Systems Biology
, vol.4
, pp. 222
-
-
Lange, V.1
Picotti, P.2
Domon, B.3
Aebersold, R.4
-
6
-
-
67650564834
-
Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma
-
10.1038/nbt.1546, 2855883, 19561596
-
Addona TA, Abbatiello SE, Schilling B, Skates SJ, Mani DR, Bunk DM, Spiegelman CH, Zimmerman LJ, Ham A-JL, Keshishian H, Hall SC, Allen S, Blackman RK, Borchers CH, Charles 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. Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma. Nature Biotechnology 2009, 27:633-641. 10.1038/nbt.1546, 2855883, 19561596.
-
(2009)
Nature Biotechnology
, vol.27
, 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.L.9
Keshishian, H.10
Hall, S.C.11
Allen, S.12
Blackman, R.K.13
Borchers, C.H.14
Charles 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..
-
7
-
-
71049137289
-
Multiple Reaction Monitoring-based, Multiplexed, Absolute Quantitation of 45 Proteins in Human Plasma
-
10.1074/mcp.M800540-MCP200, 2722777, 19411661
-
Kuzyk MA, Smith D, Yang J, Cross TJ, Jackson AM, Hardie DB, Anderson NL, Borchers CH. Multiple Reaction Monitoring-based, Multiplexed, Absolute Quantitation of 45 Proteins in Human Plasma. Mol Cell Proteomics 2009, 8(8):1860-77. 10.1074/mcp.M800540-MCP200, 2722777, 19411661.
-
(2009)
Mol Cell Proteomics
, vol.8
, Issue.8
, pp. 1860-1877
-
-
Kuzyk, M.A.1
Smith, D.2
Yang, J.3
Cross, T.J.4
Jackson, A.M.5
Hardie, D.B.6
Anderson, N.L.7
Borchers, C.H.8
-
8
-
-
43049090085
-
Targeted quantitative analysis of Streptococcus pyogenes virulence factors by multiple reaction monitoring
-
10.1074/mcp.M800032-MCP200, 2494906, 18408245
-
Lange V, Malmstrom JA, Didion J, King NL, Johansson BP, Shafer J, Rameseder J, Wong CH, Deutsch EW, Brusniak MY, Buhlmann P, Bjorck L, Domon B, Aebersold R. Targeted quantitative analysis of Streptococcus pyogenes virulence factors by multiple reaction monitoring. Mol Cell Proteomics 2008, 7:1489-1500. 10.1074/mcp.M800032-MCP200, 2494906, 18408245.
-
(2008)
Mol Cell Proteomics
, vol.7
, pp. 1489-1500
-
-
Lange, V.1
Malmstrom, J.A.2
Didion, J.3
King, N.L.4
Johansson, B.P.5
Shafer, J.6
Rameseder, J.7
Wong, C.H.8
Deutsch, E.W.9
Brusniak, M.Y.10
Buhlmann, P.11
Bjorck, L.12
Domon, B.13
Aebersold, R.14
-
9
-
-
77952075083
-
Optimal de novo Design of MRM Experiments for Rapid Assay Development in Targeted Proteomics
-
Bertsch A, Jung S, Zerck A, Pfeifer N, Nahnsen S, Henneges C, Nordheim A, Kohlbacher O. Optimal de novo Design of MRM Experiments for Rapid Assay Development in Targeted Proteomics. J Proteom Res 2010, 9:2692-2704.
-
(2010)
J Proteom Res
, vol.9
, pp. 2692-2704
-
-
Bertsch, A.1
Jung, S.2
Zerck, A.3
Pfeifer, N.4
Nahnsen, S.5
Henneges, C.6
Nordheim, A.7
Kohlbacher, O.8
-
10
-
-
77951965920
-
Skyline: An Open Source Document Editor for Creating and Analyzing Targeted Proteomics Experiments
-
10.1093/bioinformatics/btq054, 20147306
-
MacLea B, Tomazela DM, Shulman N, Chambers M, Finney GL, Frewen B, Kern R, Tabb DL, Liebler D, MacCoss MJ. Skyline: An Open Source Document Editor for Creating and Analyzing Targeted Proteomics Experiments. Bioinformatics 2010, 26:966-968. 10.1093/bioinformatics/btq054, 20147306.
-
(2010)
Bioinformatics
, vol.26
, pp. 966-968
-
-
MacLea, 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.9
MacCoss, M.J.10
-
11
-
-
67049132416
-
Expediting the Development of Targeted SRM Assays: Using Data from Shotgun Proteomics to Automate Method Development
-
10.1021/pr801028b, 2743471, 19326923
-
Prakash A, Tomazela DM, Frewen B, NacLean B, Merrihew G, Peterman S, MacCoss MJ. Expediting the Development of Targeted SRM Assays: Using Data from Shotgun Proteomics to Automate Method Development. J Proteome Res 2009, 8(6):2733-9. 10.1021/pr801028b, 2743471, 19326923.
-
(2009)
J Proteome Res
, vol.8
, Issue.6
, pp. 2733-2739
-
-
Prakash, A.1
Tomazela, D.M.2
Frewen, B.3
NacLean, B.4
Merrihew, G.5
Peterman, S.6
MacCoss, M.J.7
-
12
-
-
75749126208
-
Automated Detection of Inaccurate and Imprecise Transitions in Peptide Quantification by Multiple Reaction Monitoring Mass Spectrometry
-
10.1373/clinchem.2009.138420, 2851178, 20022980
-
Abbatiello SE, Mani DR, Keshishian H, Carr SA. Automated Detection of Inaccurate and Imprecise Transitions in Peptide Quantification by Multiple Reaction Monitoring Mass Spectrometry. Clinical Chemistry 2010, 56:291-305. 10.1373/clinchem.2009.138420, 2851178, 20022980.
-
(2010)
Clinical Chemistry
, vol.56
, pp. 291-305
-
-
Abbatiello, S.E.1
Mani, D.R.2
Keshishian, H.3
Carr, S.A.4
-
13
-
-
33646743767
-
The Gaggle: an open-source software system for integration bioinformatics software and data sources
-
10.1186/1471-2105-7-176, 1464137, 16569235
-
Shannon RT, Reiss DJ, Baliga NS. The Gaggle: an open-source software system for integration bioinformatics software and data sources. BMC Bioinformatics 2006, 7:176. 10.1186/1471-2105-7-176, 1464137, 16569235.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 176
-
-
Shannon, R.T.1
Reiss, D.J.2
Baliga, N.S.3
-
14
-
-
78650412802
-
The Protein Information and Property Explorer2: Gaggle-like Exploration of Biological Data Within One Web Page
-
Ramos H, Shannon P, Brusniak M, Kusebauch U, Moritz R, Aebersold R. The Protein Information and Property Explorer2: Gaggle-like Exploration of Biological Data Within One Web Page. Proteomics 2011, 1:154-158.
-
(2011)
Proteomics
, vol.1
, pp. 154-158
-
-
Ramos, H.1
Shannon, P.2
Brusniak, M.3
Kusebauch, U.4
Moritz, R.5
Aebersold, R.6
-
15
-
-
43049127826
-
PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows
-
10.1038/embor.2008.56, 2373374, 18451766
-
Deutsch EW, Lam H, Aebersold R. PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows. EMBO reports 2008, 9(5):429-434. 10.1038/embor.2008.56, 2373374, 18451766.
-
(2008)
EMBO reports
, vol.9
, Issue.5
, pp. 429-434
-
-
Deutsch, E.W.1
Lam, H.2
Aebersold, R.3
-
16
-
-
84888283407
-
TraML - a standard format for exchange of selected reaction monitoring transition lists
-
Deutsch EW, Chambers M, Bertsch A, Levander F, Neumann S, Shofstahl J, Campbell D, Christiansen M, Martens L, Binz P-A, Aebersold R, Brusniak M. TraML - a standard format for exchange of selected reaction monitoring transition lists. , http://www.psidev.info/index.php?q=node/405
-
-
-
Deutsch, E.W.1
Chambers, M.2
Bertsch, A.3
Levander, F.4
Neumann, S.5
Shofstahl, J.6
Campbell, D.7
Christiansen, M.8
Martens, L.9
Binz, P.-A.10
Aebersold, R.11
Brusniak, M.12
-
17
-
-
33947101019
-
Patterns of somatic mutation in human cancer genomes
-
446
-
Greenman C, Stephens P, Smith R, Dalgliesh GL, Hunter C, Bignell G, Davies H, Teague J, Butler A, Stevens C, Edkins S, O'Meara S, Vastrik I, Schmidt EE, Avis T, Barthorpe S, Bhamra G, Buck G, Choudhury B, Clements J, Cole J, Dicks E, Forbes S, Gray K, Halliday K, Harrison R, Hills K, Hinton J, Jenkinson A, Jones D, Menzies A, Mironenko T, Perry J, Raine K, Richardson D, Shepherd R, Small A, Tofts C, Varian J, Webb T, West S, Widaa S, Yates A, Cahill DP, Louis DN, Goldstraw P, Nicholson AG, Brasseur F, Looijenga L, Weber BL, Chiew YE, DeFazio A, Greaves MF, Green AR, Campbell P, Birney E, Easton DF, Chenevix-Trench G, Tan MH, Khoo SK, Teh BT, Yuen ST, Leung SY, Wooster R, Futreal PA, Stratton MR. Patterns of somatic mutation in human cancer genomes. Nature 2007, 8(7132):153-8. 446.
-
(2007)
Nature
, vol.8
, Issue.7132
, pp. 153-158
-
-
Greenman, C.1
Stephens, P.2
Smith, R.3
Dalgliesh, G.L.4
Hunter, C.5
Bignell, G.6
Davies, H.7
Teague, J.8
Butler, A.9
Stevens, C.10
Edkins, S.11
O'Meara, S.12
Vastrik, I.13
Schmidt, E.E.14
Avis, T.15
Barthorpe, S.16
Bhamra, G.17
Buck, G.18
Choudhury, B.19
Clements, J.20
Cole, J.21
Dicks, E.22
Forbes, S.23
Gray, K.24
Halliday, K.25
Harrison, R.26
Hills, K.27
Hinton, J.28
Jenkinson, A.29
Jones, D.30
Menzies, A.31
Mironenko, T.32
Perry, J.33
Raine, K.34
Richardson, D.35
Shepherd, R.36
Small, A.37
Tofts, C.38
Varian, J.39
Webb, T.40
West, S.41
Widaa, S.42
Yates, A.43
Cahill, D.P.44
Louis, D.N.45
Goldstraw, P.46
Nicholson, A.G.47
Brasseur, F.48
Looijenga, L.49
Weber, B.L.50
Chiew, Y.E.51
DeFazio, A.52
Greaves, M.F.53
Green, A.R.54
Campbell, P.55
Birney, E.56
Easton, D.F.57
Chenevix-Trench, G.58
Tan, M.H.59
Khoo, S.K.60
Teh, B.T.61
Yuen, S.T.62
Leung, S.Y.63
Wooster, R.64
Futreal, P.A.65
Stratton, M.R.66
more..
-
18
-
-
54049095667
-
A database of mass spectrometric assays for the yeast proteome
-
10.1038/nmeth1108-913, 2770732, 18974732
-
Picotti P, Lam H, Campbell D, Deutsch E, Mirzae H, Ranish J, Bomon B, Aebersold R. A database of mass spectrometric assays for the yeast proteome. Nature Methods 2008, 5:913-914. 10.1038/nmeth1108-913, 2770732, 18974732.
-
(2008)
Nature Methods
, vol.5
, pp. 913-914
-
-
Picotti, P.1
Lam, H.2
Campbell, D.3
Deutsch, E.4
Mirzae, H.5
Ranish, J.6
Bomon, B.7
Aebersold, R.8
-
19
-
-
79955595074
-
MProphet: automated data processing and statistical validation for large scale SRM experiments
-
Reiter L, Rinner O, Picotti P, Huttenhain R, Beck M, Brusniak M-Y, Hengartner M, Aebersold R. mProphet: automated data processing and statistical validation for large scale SRM experiments. Nature Methods 2011,
-
(2011)
Nature Methods
-
-
Reiter, L.1
Rinner, O.2
Picotti, P.3
Huttenhain, R.4
Beck, M.5
Brusniak, M.-Y.6
Hengartner, M.7
Aebersold, R.8
-
20
-
-
84888285138
-
JPT Peptide Technologies GmbH Volmerstrasse 5 (UTZ)12489 Berlin, Germany
-
JPT Peptide Technologies GmbH Volmerstrasse 5 (UTZ)12489 Berlin, Germany.
-
-
-
|