-
1
-
-
84984932472
-
Exploring the new world of the genome with DNA microarrays
-
Brown, P. O.; Botstein, D. Exploring the new world of the genome with DNA microarrays. Nat. Genet. 1999, 21(1 Suppl), 33-37.
-
(1999)
Nat. Genet
, vol.21
, Issue.1 SUPPL.
, pp. 33-37
-
-
Brown, P.O.1
Botstein, D.2
-
2
-
-
0037435030
-
Mass spectrometry-based proteomics
-
Aebersold, R.; Mann, M. Mass spectrometry-based proteomics. Nature 2003, 422(6928), 198-207.
-
(2003)
Nature
, vol.422
, Issue.6928
, pp. 198-207
-
-
Aebersold, R.1
Mann, M.2
-
3
-
-
33645813378
-
Mass spectrometry and protein analysis
-
Domon, B.; Aebersold, R. Mass spectrometry and protein analysis. Science 2006, 312(5771), 212-217.
-
(2006)
Science
, vol.312
, Issue.5771
, pp. 212-217
-
-
Domon, B.1
Aebersold, R.2
-
4
-
-
35648989233
-
-
Wilkins, M. R.; Williams, K. L.; Appel, R. D.; Hochstrasser, D. F., Eds. Proteome research : new frontiers in functional genomics. Springer: Berlin ; New York, 1997; p xviii, 243 p.
-
Wilkins, M. R.; Williams, K. L.; Appel, R. D.; Hochstrasser, D. F., Eds. Proteome research : new frontiers in functional genomics. Springer: Berlin ; New York, 1997; p xviii, 243 p.
-
-
-
-
5
-
-
0035289178
-
Validation and development of fluorescence two-dimensional differential gel electrophoresis proteomics technology
-
Tonge, R.; Shaw, J.; Middleton, B.; Rowlinson, R.; Rayner, S.; Young, J.; Pognan, F.; Hawkins, E.; Currie, I.; Davison, M. Validation and development of fluorescence two-dimensional differential gel electrophoresis proteomics technology. Proteomics 2001, 1(3), 377-396.
-
(2001)
Proteomics
, vol.1
, Issue.3
, pp. 377-396
-
-
Tonge, R.1
Shaw, J.2
Middleton, B.3
Rowlinson, R.4
Rayner, S.5
Young, J.6
Pognan, F.7
Hawkins, E.8
Currie, I.9
Davison, M.10
-
6
-
-
0035106351
-
-
Washburn, M. P.; Wolters, D.; Yates, J. R., 3rd. Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat. Biotechnol. 2001, 19(3), 242-247.
-
Washburn, M. P.; Wolters, D.; Yates, J. R., 3rd. Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat. Biotechnol. 2001, 19(3), 242-247.
-
-
-
-
7
-
-
0032875697
-
Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
-
Gygi, S. P.; Rist, B.; Gerber, S. A.; Turecek, F.; Gelb, M. H.; Aebersold, R. Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat. Biotechnol. 1999, 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
-
8
-
-
0036583926
-
Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics
-
Ong, S. E.; Blagoev, B.; Kratchmarova, I.; Kristensen, D. B.; Steen, H.; Pandey, A.; Mann, M. Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol. Cell. Proteomics 2002, 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
-
9
-
-
33847174067
-
Protein labeling by iTRAQ: A new tool for quantitative mass spectrometry in proteome research
-
Wiese, S.; Reidegeld, K. A.; Meyer, H. E.; Warscheid, B. Protein labeling by iTRAQ: a new tool for quantitative mass spectrometry in proteome research. Proteomics 2007, 7(3), 340-350.
-
(2007)
Proteomics
, vol.7
, Issue.3
, pp. 340-350
-
-
Wiese, S.1
Reidegeld, K.A.2
Meyer, H.E.3
Warscheid, B.4
-
10
-
-
0037434977
-
Biomedical informatics for proteomics
-
Boguski, M. S.; McIntosh, M. W. Biomedical informatics for proteomics. Nature 2003, 422(6928), 233-237.
-
(2003)
Nature
, vol.422
, Issue.6928
, pp. 233-237
-
-
Boguski, M.S.1
McIntosh, M.W.2
-
12
-
-
9144233086
-
-
Garwood, K.; McLaughlin, T.; Garwood, C.; Joens, S.; Morrison, N.; Taylor, C. F.; Carroll, K.; Evans, C.; Whetton, A. D.; Hart, S.; Stead, D.; Yin, Z.; Brown, A. J.; Hesketh, A.; Chater, K.; Hansson, L.; Mewissen, M.; Ghazal, P.; Howard, J.; Lilley, K. S.; Gaskell, S. J.; Brass, A.; Hubbard, S. J.; Oliver, S. G.; Paton, N. W. PEDRo: a database for storing, searching and disseminating experimental proteomics data. BMC Genomics 2004, 5(1), 68.
-
Garwood, K.; McLaughlin, T.; Garwood, C.; Joens, S.; Morrison, N.; Taylor, C. F.; Carroll, K.; Evans, C.; Whetton, A. D.; Hart, S.; Stead, D.; Yin, Z.; Brown, A. J.; Hesketh, A.; Chater, K.; Hansson, L.; Mewissen, M.; Ghazal, P.; Howard, J.; Lilley, K. S.; Gaskell, S. J.; Brass, A.; Hubbard, S. J.; Oliver, S. G.; Paton, N. W. PEDRo: a database for storing, searching and disseminating experimental proteomics data. BMC Genomics 2004, 5(1), 68.
-
-
-
-
13
-
-
33947434519
-
Automated reporting from gel-based proteomics experiments using the open source Proteios database application
-
Levander, F.; Krogh, M.; Warell, K.; Garden, P.; James, P.; Hakkinen, J. Automated reporting from gel-based proteomics experiments using the open source Proteios database application. Proteomics 2007, 7(5), 668-674.
-
(2007)
Proteomics
, vol.7
, Issue.5
, pp. 668-674
-
-
Levander, F.1
Krogh, M.2
Warell, K.3
Garden, P.4
James, P.5
Hakkinen, J.6
-
14
-
-
30744438115
-
-
Rauch, A.; Bellew, M.; Eng, J.; Fitzgibbon, M.; Holzman, T.; Hussey, P.; Igra, M.; Maclean, B.; Lin, C. W.; Detter, A.; Fang, R.; Faca, V.; Gafken, P.; Zhang, H.; Whiteaker, J.; States, D.; Hanash, S.; Paulovich, A.; McIntosh, M. W. Computational Proteomics Analysis System (CPAS): an extensible, open-source analytic system for evaluating and publishing proteomic data and high throughput biological experiments. J. Proteome Res. 2006, 5(1), 112-121.
-
Rauch, A.; Bellew, M.; Eng, J.; Fitzgibbon, M.; Holzman, T.; Hussey, P.; Igra, M.; Maclean, B.; Lin, C. W.; Detter, A.; Fang, R.; Faca, V.; Gafken, P.; Zhang, H.; Whiteaker, J.; States, D.; Hanash, S.; Paulovich, A.; McIntosh, M. W. Computational Proteomics Analysis System (CPAS): an extensible, open-source analytic system for evaluating and publishing proteomic data and high throughput biological experiments. J. Proteome Res. 2006, 5(1), 112-121.
-
-
-
-
15
-
-
33644875983
-
-
Jones, P.; Cote, R. G.; Martens, L.; Quinn, A. F.; Taylor, C. F.; Derache, W.; Hermjakob, H.; Apweiler, R. PRIDE: a public repository of protein and peptide identifications for the proteomics community. Nucleic Acids Res. 2006, 34(Database issue), D659-D663.
-
Jones, P.; Cote, R. G.; Martens, L.; Quinn, A. F.; Taylor, C. F.; Derache, W.; Hermjakob, H.; Apweiler, R. PRIDE: a public repository of protein and peptide identifications for the proteomics community. Nucleic Acids Res. 2006, 34(Database issue), D659-D663.
-
-
-
-
16
-
-
7044241344
-
DBParser: Web-based software for shotgun proteomic data analyses
-
Yang, X.; Dondeti, V.; Dezube, R.; Maynard, D. M.; Geer, L. Y.; Epstein, J.; Chen, X.; Markey, S. P.; Kowalak, J. A. DBParser: web-based software for shotgun proteomic data analyses. J. Proteome Res. 2004, 3(5), 1002-1008.
-
(2004)
J. Proteome Res
, vol.3
, Issue.5
, pp. 1002-1008
-
-
Yang, X.1
Dondeti, V.2
Dezube, R.3
Maynard, D.M.4
Geer, L.Y.5
Epstein, J.6
Chen, X.7
Markey, S.P.8
Kowalak, J.A.9
-
17
-
-
0029983427
-
Federated two-dimensional electrophoresis database: A simple means of publishing two-dimensional electrophoresis data
-
Appel, R. D.; Bairoch, A.; Sanchez, J. C.; Vargas, J. R.; Golaz, O.; Pasquali, C.; Hochstrasser, D. F. Federated two-dimensional electrophoresis database: a simple means of publishing two-dimensional electrophoresis data. Electrophoresis 1996, 17(3), 540-546.
-
(1996)
Electrophoresis
, vol.17
, Issue.3
, pp. 540-546
-
-
Appel, R.D.1
Bairoch, A.2
Sanchez, J.C.3
Vargas, J.R.4
Golaz, O.5
Pasquali, C.6
Hochstrasser, D.F.7
-
18
-
-
18344396568
-
Minimum information about a microarray experiment (MIAME)-toward standards for microarray data
-
Brazma, A.; Hingamp, P.; Quackenbush, J.; Sherlock, G.; Spellman, P.; Stoeckert, C.; Aach, J.; Ansorge, W.; Ball, C. A.; Causton, H. C.; Gaasterland, T.; Glenisson, P.; Holstege, F. C.; Kim, I. F.; Markowitz, V.; Matese, J. C.; Parkinson, H.; Robinson, A.; Sarkans, U.; Schulze-Kremer, S.; Stewart, J.; Taylor, R.; Vilo, J.; Vingron, M. Minimum information about a microarray experiment (MIAME)-toward standards for microarray data. Nat. Genet. 2001, 29(4), 365-371.
-
(2001)
Nat. Genet
, vol.29
, Issue.4
, pp. 365-371
-
-
Brazma, A.1
Hingamp, P.2
Quackenbush, J.3
Sherlock, G.4
Spellman, P.5
Stoeckert, C.6
Aach, J.7
Ansorge, W.8
Ball, C.A.9
Causton, H.C.10
Gaasterland, T.11
Glenisson, P.12
Holstege, F.C.13
Kim, I.F.14
Markowitz, V.15
Matese, J.C.16
Parkinson, H.17
Robinson, A.18
Sarkans, U.19
Schulze-Kremer, S.20
Stewart, J.21
Taylor, R.22
Vilo, J.23
Vingron, M.24
more..
-
19
-
-
33750345305
-
Minimum Reporting Requirements for Proteomics: A MIAPE Primer
-
Taylor, C. F. Minimum Reporting Requirements for Proteomics: A MIAPE Primer. Proteomics 2006, 6 Suppl 2, 39-44.
-
(2006)
Proteomics
, vol.6
, Issue.SUPPL. 2
, pp. 39-44
-
-
Taylor, C.F.1
-
20
-
-
35649007561
-
-
NCBI Taxonomy web page. http://www.ncbi.nlm.nih.gov/Taxonomy/ taxonomyhome.html.
-
NCBI Taxonomy web page
-
-
-
22
-
-
0000857494
-
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
-
Eng, J. K.; McCormack, A. L.; Yates, J. R., III. An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J. Am. Soc. Mass Spectrom. 1994, 5(11), 976-989.
-
(1994)
J. Am. Soc. Mass Spectrom
, vol.5
, Issue.11
, pp. 976-989
-
-
Eng, J.K.1
McCormack, A.L.2
Yates III, J.R.3
-
23
-
-
0033434080
-
Probability-based protein identification by searching sequence databases using mass spectrometry data
-
Perkins, D. N.; Pappin, D. J.; Creasy, D. M.; Cottrell, J. S. Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 1999, 20(18), 3551-3567.
-
(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
-
24
-
-
3142702204
-
TANDEM: Matching proteins with tandem mass spectra
-
Craig, R.; Beavis, R. C. TANDEM: matching proteins with tandem mass spectra. Bioinformatics 2004, 20(9), 1466-1467.
-
(2004)
Bioinformatics
, vol.20
, Issue.9
, pp. 1466-1467
-
-
Craig, R.1
Beavis, R.C.2
-
25
-
-
33750979860
-
General framework for developing and evaluating database scoring algorithms using the TANDEM search engine
-
MacLean, B.; Eng, J. K.; Beavis, R. C.; McIntosh, M. General framework for developing and evaluating database scoring algorithms using the TANDEM search engine. Bioinformatics 2006, 22(22), 2830-2832.
-
(2006)
Bioinformatics
, vol.22
, Issue.22
, pp. 2830-2832
-
-
MacLean, B.1
Eng, J.K.2
Beavis, R.C.3
McIntosh, M.4
-
26
-
-
33746930864
-
-
Keller, A.; Eng, J.; Zhang, N.; Li, X. J.; Aebersold, R. A uniform proteomics MS/MS analysis platform utilizing open XML file formats. Mol. Syst Biol 2005, 1, 2005 0017.
-
Keller, A.; Eng, J.; Zhang, N.; Li, X. J.; Aebersold, R. A uniform proteomics MS/MS analysis platform utilizing open XML file formats. Mol. Syst Biol 2005, 1, 2005 0017.
-
-
-
-
27
-
-
0037108887
-
Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search
-
Keller, A.; Nesvizhskii, A. I.; Kolker, E.; Aebersold, R. Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search. Anal. Chem. 2002, 74(20), 5383-5392.
-
(2002)
Anal. Chem
, vol.74
, Issue.20
, pp. 5383-5392
-
-
Keller, A.1
Nesvizhskii, A.I.2
Kolker, E.3
Aebersold, R.4
-
28
-
-
0042338362
-
A statistical model for identifying proteins by tandem mass spectrometry
-
Nesvizhskii, A. I.; Keller, A.; Kolker, E.; Aebersold, R. A statistical model for identifying proteins by tandem mass spectrometry. Anal. Chem. 2003, 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
-
29
-
-
0034789979
-
Quantitative profiling of differentiation-induced microsomal proteins using isotopecoded affinity tags and mass spectrometry
-
Han, D. K.; Eng, J.; Zhou, H.; Aebersold, R. Quantitative profiling of differentiation-induced microsomal proteins using isotopecoded affinity tags and mass spectrometry. Nat. Biotechnol. 2001, 19(10), 946-951.
-
(2001)
Nat. Biotechnol
, vol.19
, Issue.10
, pp. 946-951
-
-
Han, D.K.1
Eng, J.2
Zhou, H.3
Aebersold, R.4
-
30
-
-
0344737959
-
Automated statistical analysis of protein abundance ratios from data generated by stable-isotope dilution and tandem mass spectrometry
-
Li, X. J.; Zhang, H.; Ranish, J. A.; Aebersold, R. Automated statistical analysis of protein abundance ratios from data generated by stable-isotope dilution and tandem mass spectrometry. Anal. Chem. 2003, 75(23), 6648-6657.
-
(2003)
Anal. Chem
, vol.75
, Issue.23
, pp. 6648-6657
-
-
Li, X.J.1
Zhang, H.2
Ranish, J.A.3
Aebersold, R.4
-
33
-
-
33745686436
-
Probabilistic enrichment of phosphopeptides by their mass defect
-
Bruce, C.; Shifman, M. A.; Miller, P.; Gulcicek, E. E. Probabilistic enrichment of phosphopeptides by their mass defect. Anal. Chem. 2006, 78(13), 4374-4382.
-
(2006)
Anal. Chem
, vol.78
, Issue.13
, pp. 4374-4382
-
-
Bruce, C.1
Shifman, M.A.2
Miller, P.3
Gulcicek, E.E.4
-
34
-
-
35648944991
-
-
Libra web page. http://tools.proteomecenter.org/Libra.php.
-
Libra web page
-
-
-
35
-
-
35649028142
-
X!!Tandem, an improved method for running X!Tandem in parallel on collections of commodity computers
-
in press
-
Bjornson, R. D.; Carriero, N. J.; Colangelo, C.; Shifman, M.; Cheung, K.-H.; Miller, P. L.; Williams, K. X!!Tandem, an improved method for running X!Tandem in parallel on collections of commodity computers. J. Proteome Res. 2007, in press.
-
(2007)
J. Proteome Res
-
-
Bjornson, R.D.1
Carriero, N.J.2
Colangelo, C.3
Shifman, M.4
Cheung, K.-H.5
Miller, P.L.6
Williams, K.7
|