-
1
-
-
79952415252
-
Emerging molecular biomarkers[mdash]blood-based strategies to detect and monitor cancer
-
Hanash, S. M., Baik, C. S., and Kallioniemi, O. (2011) Emerging molecular biomarkers[mdash]blood-based strategies to detect and monitor cancer. Nat. Rev. Clin. Oncol. 8, 142-150
-
(2011)
Nat. Rev. Clin. Oncol.
, vol.8
, pp. 142-150
-
-
Hanash, S.M.1
Baik, C.S.2
Kallioniemi, O.3
-
2
-
-
80855128254
-
Deep proteome and transcriptome mapping of a human cancer cell line
-
Nagaraj, N., Wisniewski, J. R., Geiger, T., Cox, J., Kircher, M., Kelso, J., Paabo, S., and Mann, M. (2011) Deep proteome and transcriptome mapping of a human cancer cell line. Mol. Syst. Biol. 7
-
(2011)
Mol. Syst. Biol.
, vol.7
-
-
Nagaraj, N.1
Wisniewski, J.R.2
Geiger, T.3
Cox, J.4
Kircher, M.5
Kelso, J.6
Paabo, S.7
Mann, M.8
-
3
-
-
80855128111
-
The quantitative proteome of a human cell line
-
Beck, M., Schmidt, A., Malmstroem, J., Claassen, M., Ori, A., Szymborska, A., Herzog, F., Rinner, O., Ellenberg, J., and Aebersold, R. (2011) The quantitative proteome of a human cell line. Mol. Syst. Biol. 7
-
(2011)
Mol. Syst. Biol.
, vol.7
-
-
Beck, M.1
Schmidt, A.2
Malmstroem, J.3
Claassen, M.4
Ori, A.5
Szymborska, A.6
Herzog, F.7
Rinner, O.8
Ellenberg, J.9
Aebersold, R.10
-
4
-
-
84860508745
-
Proteomic portrait of human breast cancer progression identifies novel prognostic markers
-
Geiger, T., Madden, S. F., Gallagher, W. M., Cox, J., and Mann, M. (2012) Proteomic portrait of human breast cancer progression identifies novel prognostic markers. Cancer Res. 72, 2428-2439
-
(2012)
Cancer Res.
, vol.72
, pp. 2428-2439
-
-
Geiger, T.1
Madden, S.F.2
Gallagher, W.M.3
Cox, J.4
Mann, M.5
-
5
-
-
10744220468
-
The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: A bioinformatics assessment
-
DOI 10.1101/gr.1293003
-
Clark, H. F., Gurney, A. L., Abaya, E., Baker, K., Baldwin, D., Brush, J., Chen, J., Chow, B., Chui, C., Crowley, C., Currell, B., Deuel, B., Dowd, P., Eaton, D., Foster, J., Grimaldi, C., Gu, Q. M., Hass, P. E., Heldens, S., Huang, A., Kim, H. S., Klimowski, L., Jin, Y. S., Johnson, S., Lee, J., Lewis, L., Liao, D. Z., Mark, M., Robbie, E., Sanchez, C., Schoenfeld, J., Seshagiri, S., Simmons, L., Singh, J., Smith, V., Stinson, J., Vagts, A., Vandlen, R., Watanabe, C., Wieand, D., Woods, K., Xie, M. H., Yansura, D., Yi, S., Yu, G. Y., Yuan, J., Zhang, M., Zhang, Z. M., Goddard, A., Wood, W. I., and Godowski, P. (2003) The Secreted Protein Discovery Initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: A bioinformatics assessment. Genome Res. 13, 2265-2270 (Pubitemid 37265992)
-
(2003)
Genome Research
, vol.13
, Issue.10
, pp. 2265-2270
-
-
Clark, H.F.1
Gurney, A.L.2
Abaya, E.3
Baker, K.4
Baldwin, D.5
Brush, J.6
Chen, J.7
Chow, B.8
Chui, C.9
Crowley, C.10
Currell, B.11
Deuel, B.12
Dowd, P.13
Eaton, D.14
Foster, J.15
Grimaldi, C.16
Gu, Q.17
Hass, P.E.18
Heldens, S.19
Huang, A.20
Kim, H.S.21
Klimowski, L.22
Jin, Y.23
Johnson, S.24
Lee, J.25
Lewis, L.26
Liao, D.27
Mark, M.28
Robbie, E.29
Sanchez, C.30
Schoenfeld, J.31
Seshagiri, S.32
Simmons, L.33
Singh, J.34
Smith, V.35
Stinson, J.36
Vagts, A.37
Vandlen, R.38
Watanabe, C.39
Wieand, D.40
Woods, K.41
Xie, M.-H.42
Yansura, D.43
Yi, S.44
Yu, G.45
Yuan, J.46
Zhang, M.47
Zhang, Z.48
Goddard, A.49
Wood, W.I.50
Godowski, P.51
more..
-
7
-
-
2542568705
-
The human plasma proteome
-
DOI 10.1074/mcp.M300127-MCP200, Cancer Proteomics
-
Anderson, N. L., Polanski, M., Pieper, R., Gatlin, T., Tirumalai, R. S., Conrads, T. P., Veenstra, T. D., Adkins, J. N., Pounds, J. G., Fagan, R., and Lobley, A. (2004) The human plasma proteome. Mol. Cell. Proteomics 3, 311-326 (Pubitemid 38702086)
-
(2004)
Molecular and Cellular Proteomics
, vol.3
, Issue.4
, pp. 311-326
-
-
Anderson, N.L.1
Polanski, M.2
Pieper, R.3
Gatlin, T.4
Tirumalai, R.S.5
Conrads, T.P.6
Veenstra, T.D.7
Adkins, J.N.8
Pounds, J.G.9
Fagan, R.10
Lobley, A.11
-
8
-
-
79959499115
-
A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas
-
Farrah, T., Deutsch, E. W., Omenn, G. S., Campbell, D. S., Sun, Z., Bletz, J. A., Mallick, P., Katz, J. E., Malmström, J., Ossola, R., Watts, J. D., Lin, B., Zhang, H., Moritz, R. L., and Aebersold, R. (2011) A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas. Mol. Cell. Proteomics 10
-
(2011)
Mol. Cell. Proteomics
, vol.10
-
-
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
Malmström, J.9
Ossola, R.10
Watts, J.D.11
Lin, B.12
Zhang, H.13
Moritz, R.L.14
Aebersold, R.15
-
9
-
-
77950662044
-
Optimizing performance of glycopeptide capture for plasma proteomics
-
Berven, F. S., Ahmad, R., Clauser, K. R., and Carr, S. A. (2010) Optimizing performance of glycopeptide capture for plasma proteomics. J. Proteome Res. 9, 1706-1715
-
(2010)
J. Proteome Res.
, vol.9
, pp. 1706-1715
-
-
Berven, F.S.1
Ahmad, R.2
Clauser, K.R.3
Carr, S.A.4
-
10
-
-
79951518985
-
Mining the plasma proteome for disease applications across seven logs of protein abundance
-
Zhang, Q., Faca, V., and Hanash, S. (2011) Mining the plasma proteome for disease applications across seven logs of protein abundance. J. Proteome Res. 10, 46-50
-
(2011)
J. Proteome Res.
, vol.10
, pp. 46-50
-
-
Zhang, Q.1
Faca, V.2
Hanash, S.3
-
11
-
-
77952909304
-
Candidate serological biomarkers for cancer identified from the secretomes of 23 cancer cell lines and the human protein atlas
-
Wu, C. C., Hsu, C. W., Chen, C. D., Yu, C. J., Chang, K. P., Tai, D. I., Liu, H. P., Su, W. H., Chang, Y. S., and Yu, J. S. (2010) Candidate serological biomarkers for cancer identified from the secretomes of 23 cancer cell lines and the human protein atlas. Mol. Cell. Proteomics 9, 1100-1117
-
(2010)
Mol. Cell. Proteomics
, vol.9
, pp. 1100-1117
-
-
Wu, C.C.1
Hsu, C.W.2
Chen, C.D.3
Yu, C.J.4
Chang, K.P.5
Tai, D.I.6
Liu, H.P.7
Su, W.H.8
Chang, Y.S.9
Yu, J.S.10
-
12
-
-
79551493048
-
Conditioned media from cell lines: A complementary model to clinical specimens for the discovery of diseasespecific biomarkers
-
Dowling, P., and Clynes, M. (2011) Conditioned media from cell lines: A complementary model to clinical specimens for the discovery of diseasespecific biomarkers. Proteomics 11, 794-804
-
(2011)
Proteomics
, vol.11
, pp. 794-804
-
-
Dowling, P.1
Clynes, M.2
-
13
-
-
78349311747
-
Cancer secretomics reveal pathophysiological pathways in cancer molecular oncology
-
Karagiannis, G. S., Pavlou, M. P., and Diamandis, E. P. (2010) Cancer secretomics reveal pathophysiological pathways in cancer molecular oncology. Mol. Oncol. 4, 496-510
-
(2010)
Mol. Oncol.
, vol.4
, pp. 496-510
-
-
Karagiannis, G.S.1
Pavlou, M.P.2
Diamandis, E.P.3
-
14
-
-
77957755656
-
Secretome proteomics for discovery of cancer biomarkers
-
Makridakis, M., and Vlahou, A. (2010) Secretome proteomics for discovery of cancer biomarkers. J. Proteomics 73, 2291-2305
-
(2010)
J. Proteomics
, vol.73
, pp. 2291-2305
-
-
Makridakis, M.1
Vlahou, A.2
-
15
-
-
77956419405
-
The cancer cell secretome: A good source for discovering biomarkers?
-
Pavlou, M. P., and Diamandis, E. P. (2010) The cancer cell secretome: A good source for discovering biomarkers? J. Proteomics 73, 1896-1906
-
(2010)
J. Proteomics
, vol.73
, pp. 1896-1906
-
-
Pavlou, M.P.1
Diamandis, E.P.2
-
16
-
-
27644473229
-
Epithelial-mesenchymal transition
-
Radisky, D. C. (2005) Epithelial-mesenchymal transition. J. Cell Sci. 118, 4325-4326
-
(2005)
J. Cell Sci.
, vol.118
, pp. 4325-4326
-
-
Radisky, D.C.1
-
18
-
-
0004106191
-
-
Varki, A., Cummings, R. D., Esko, J. D., Freeze, H. H., Stanley, P., Bertozzi, C. R., Hart, G. W., and Etzler, M. E. (2008) Essentials of glycobiology, 2nd edition.
-
(2008)
Essentials of Glycobiology, 2nd Edition
-
-
Varki, A.1
Cummings, R.D.2
Esko, J.D.3
Freeze, H.H.4
Stanley, P.5
Bertozzi, C.R.6
Hart, G.W.7
Etzler, M.E.8
-
19
-
-
0036210522
-
The role of glycosylation in protein antigenic properties
-
Lisowska, E. (2002) The role of glycosylation in protein antigenic properties. Cell. Mol. Life Sci. 59, 445-455
-
(2002)
Cell. Mol. Life Sci.
, vol.59
, pp. 445-455
-
-
Lisowska, E.1
-
20
-
-
53049084874
-
N-Glycans in cancer progression
-
Lau, K. S., and Dennis, J. W. (2008) N-Glycans in cancer progression. Glycobiology 18, 750-760
-
(2008)
Glycobiology
, vol.18
, pp. 750-760
-
-
Lau, K.S.1
Dennis, J.W.2
-
21
-
-
33748195979
-
Glycosylation in Cellular Mechanisms of Health and Disease
-
DOI 10.1016/j.cell.2006.08.019, PII S0092867406010865
-
Ohtsubo, K., and Marth, J. D. (2006) Glycosylation in cellular mechanisms of health and disease. Cell 126, 855-867 (Pubitemid 44310784)
-
(2006)
Cell
, vol.126
, Issue.5
, pp. 855-867
-
-
Ohtsubo, K.1
Marth, J.D.2
-
22
-
-
75849140063
-
Sweetening the pot: Adding glycosylation to the biomarker discovery equation
-
Drake, P. M., Cho, W., Li, B. S., Prakobphol, A., Johansen, E., Anderson, N. L., Regnier, F. E., Gibson, B. W., and Fisher, S. J. (2010) Sweetening the pot: Adding glycosylation to the biomarker discovery equation. Clin. Chem. 56, 223-236
-
(2010)
Clin. Chem.
, vol.56
, pp. 223-236
-
-
Drake, P.M.1
Cho, W.2
Li, B.S.3
Prakobphol, A.4
Johansen, E.5
Anderson, N.L.6
Regnier, F.E.7
Gibson, B.W.8
Fisher, S.J.9
-
23
-
-
84860630877
-
Integrative analysis of N-linked human glycoproteomic data sets reveals PTPRF ectodomain as a novel plasma biomarker candidate for prostate cancer
-
Whitmore, T. E., Peterson, A., Holzman, T., Eastham, A., Amon, L., McIntosh, M., Ozinsky, A., Nelson, P. S., and Martin, D. B. (2012) Integrative analysis of N-linked human glycoproteomic data sets reveals PTPRF ectodomain as a novel plasma biomarker candidate for prostate cancer. J. Proteome Res. 11, 2653-2665
-
(2012)
J. Proteome Res.
, vol.11
, pp. 2653-2665
-
-
Whitmore, T.E.1
Peterson, A.2
Holzman, T.3
Eastham, A.4
Amon, L.5
McIntosh, M.6
Ozinsky, A.7
Nelson, P.S.8
Martin, D.B.9
-
24
-
-
0038699625
-
Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry
-
DOI 10.1038/nbt827
-
Zhang, H., Li, X. J., Martin, D. B., and Aebersold, R. (2003) Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry. Nat. Biotechnol. 21, 660-666 (Pubitemid 36638093)
-
(2003)
Nature Biotechnology
, vol.21
, Issue.6
, pp. 660-666
-
-
Zhang, H.1
Li, X.-J.2
Martin, D.B.3
Aebersold, R.4
-
25
-
-
20144383119
-
High throughput quantitative analysis of serum proteins using glycopeptide capture and liquid chromatography mass spectrometry
-
DOI 10.1074/mcp.M400090-MCP200
-
Zhang, H., Yi, E. C., Li, X.-j., Mallick, P., Kelly-Spratt, K. S., Masselon, C. D., Camp, D. G., Smith, R. D., Kemp, C. J., and Aebersold, R. (2005) High throughput quantitative analysis of serum proteins using glycopeptide capture and liquid chromatography mass spectrometry. Mol. Cell. Proteomics 4, 144-155 (Pubitemid 40361177)
-
(2005)
Molecular and Cellular Proteomics
, vol.4
, Issue.2
, pp. 144-155
-
-
Zhang, H.1
Yi, E.C.2
Li, X.-J.3
Mallick, P.4
Kelly-Spratt, K.S.5
Masselon, C.D.6
Camp II, D.G.7
Smith, R.D.8
Kemp, C.J.9
Aebersold, R.10
-
26
-
-
33846548168
-
Mass spectrometric detection of tissue proteins in plasma
-
DOI 10.1074/mcp.M600160-MCP200
-
Zhang, H., Liu, A. Y., Loriaux, P., Wollscheid, B., Zhou, Y., Watts, J. D., and Aebersold, R. (2007) Mass spectrometric detection of tissue proteins in plasma. Mol. Cell. Proteomics 6, 64-71 (Pubitemid 46152692)
-
(2007)
Molecular and Cellular Proteomics
, vol.6
, Issue.1
, pp. 64-71
-
-
Zhang, H.1
Liu, A.Y.2
Loriaux, P.3
Wollscheid, B.4
Zhou, Y.5
Watts, J.D.6
Aebersold, R.7
-
27
-
-
0037023864
-
Separation technologies for glycomics
-
DOI 10.1016/S1570-0232(02)00057-0, PII S1570023202000570
-
Hirabayashi, J., and Kasai, K.-i. (2002) Separation technologies for glycomics. J. Chromatography B Analyt. Technol. Biomed. Life Sci., 771, 67-87 (Pubitemid 34457722)
-
(2002)
Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences
, vol.771
, Issue.1-2
, pp. 67-87
-
-
Hirabayashi, J.1
Kasai, K.-I.2
-
28
-
-
1242339573
-
Screening for N-glycosylated proteins by liquid chromatography mass spectrometry
-
DOI 10.1002/pmic.200300556
-
Bunkenborg, J., Pilch, B. J., Podtelejnikov, A. V., and Wisniewski, J. R. (2004) Screening for N-glycosylated proteins by liquid chromatography mass spectrometry. Proteomics 4, 454-465 (Pubitemid 38235265)
-
(2004)
Proteomics
, vol.4
, Issue.2
, pp. 454-465
-
-
Bunkenborg, J.1
Pilch, B.J.2
Podtelejnikov, A.V.3
Wisniewski, J.R.4
-
29
-
-
77953240454
-
Precision mapping of an in vivo N-glycoproteome reveals rigid topological and sequence constraints
-
Zielinska, D. F., Gnad, F., Wiśniewski, J. R., and Mann, M. (2010) Precision mapping of an in vivo N-glycoproteome reveals rigid topological and sequence constraints. Cell 141, 897-907
-
(2010)
Cell
, vol.141
, pp. 897-907
-
-
Zielinska, D.F.1
Gnad, F.2
Wiśniewski, J.R.3
Mann, M.4
-
30
-
-
84861427459
-
Mapping N-glycosylation sites across seven evolutionarily distant species reveals a divergent substrate proteome despite a common core machinery
-
Zielinska, D. F., Gnad, F., Schropp, K., Wiśniewski, J. R., and Mann, M. (2012) Mapping N-glycosylation sites across seven evolutionarily distant species reveals a divergent substrate proteome despite a common core machinery. Mol. Cell 46, 542-548
-
(2012)
Mol. Cell
, vol.46
, pp. 542-548
-
-
Zielinska, D.F.1
Gnad, F.2
Schropp, K.3
Wiśniewski, J.R.4
Mann, M.5
-
31
-
-
77952226764
-
Super-SILAC mix for quantitative proteomics of human tumor tissue
-
Geiger, T., Cox, J., Ostasiewicz, P., Wisniewski, J. R., and Mann, M. (2010) Super-SILAC mix for quantitative proteomics of human tumor tissue. Nat. Methods 7, 383-385
-
(2010)
Nat. Methods
, vol.7
, pp. 383-385
-
-
Geiger, T.1
Cox, J.2
Ostasiewicz, P.3
Wisniewski, J.R.4
Mann, M.5
-
32
-
-
34548183872
-
Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips
-
DOI 10.1038/nprot.2007.261, PII NPROT.2007.261
-
Rappsilber, J., Mann, M., and Ishihama, Y. (2007) Protocol for micropurification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips. Nat. Protocols 2, 1896-1906 (Pubitemid 47308128)
-
(2007)
Nature Protocols
, vol.2
, Issue.8
, pp. 1896-1906
-
-
Rappsilber, J.1
Mann, M.2
Ishihama, Y.3
-
33
-
-
84863393526
-
Ultra high resolution linear ion trap Orbitrap mass spectrometer (Orbitrap Elite) facilitates top down LC MS/MS and versatile peptide fragmentation modes
-
mcp.O111.013698
-
Michalski, A., Damoc, E., Lange, O., Denisov, E., Nolting, D., Mueller, M., Viner, R., Schwartz, J., Remes, P., Belford, M., Dunyach, J.-J., Cox, J., Horning, S., Mann, M., and Makarov, A. (2011) Ultra high resolution linear ion trap Orbitrap mass spectrometer (Orbitrap Elite) facilitates top down LC MS/MS and versatile peptide fragmentation modes. Mol. Cell. Proteomics 11, mcp.O111.013698
-
(2011)
Mol. Cell. Proteomics
, vol.11
-
-
Michalski, A.1
Damoc, E.2
Lange, O.3
Denisov, E.4
Nolting, D.5
Mueller, M.6
Viner, R.7
Schwartz, J.8
Remes, P.9
Belford, M.10
Dunyach, J.-J.11
Cox, J.12
Horning, S.13
Mann, M.14
Makarov, A.15
-
34
-
-
80052769923
-
Mass spectrom-etry- Based proteomics using Q Exactive, a high-performance benchtop quadrupole Orbitrap mass spectrometer
-
mcp.M111.011015
-
Michalski, A., Damoc, E., Hauschild, J.-P., Lange, O., Wieghaus, A., Makarov, A., Nagaraj, N., Cox, J., Mann, M., and Horning, S. (2011) Mass spectrom-etry- based proteomics using Q Exactive, a high-performance benchtop quadrupole Orbitrap mass spectrometer. Mol. Cell. Proteomics 10, mcp.M111.011015
-
(2011)
Mol. Cell. Proteomics
, vol.10
-
-
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
-
35
-
-
57449099865
-
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
-
Cox, J., and Mann, M. (2008) MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat. Biotechnol. 26, 1367-1372
-
(2008)
Nat. Biotechnol.
, vol.26
, pp. 1367-1372
-
-
Cox, J.1
Mann, M.2
-
36
-
-
79953701087
-
Andromeda: A peptide search engine integrated into the MaxQuant environment
-
Cox, J., Neuhauser, N., Michalski, A., Scheltema, R. A., Olsen, J. V., and Mann, M. (2011) Andromeda: A peptide search engine integrated into the MaxQuant environment. J. Proteome Res. 10, 1794-1805
-
(2011)
J. Proteome Res.
, vol.10
, pp. 1794-1805
-
-
Cox, J.1
Neuhauser, N.2
Michalski, A.3
Scheltema, R.A.4
Olsen, J.V.5
Mann, M.6
-
37
-
-
84857873715
-
Chemical deamidation: A common pitfall in large-scale N-linked glycoproteomic mass spectrometry-based analyses
-
Palmisano, G., Melo-Braga, M. N., Engholm-Keller, K., Parker, B. L., and Larsen, M. R. (2012) Chemical deamidation: A common pitfall in large-scale N-linked glycoproteomic mass spectrometry-based analyses. J. Proteome Res. 11, 1949-1957
-
(2012)
J. Proteome Res.
, vol.11
, pp. 1949-1957
-
-
Palmisano, G.1
Melo-Braga, M.N.2
Engholm-Keller, K.3
Parker, B.L.4
Larsen, M.R.5
-
38
-
-
79551663189
-
Use of stable isotope labeling by amino acids in cell culture as a spike-in standard in quantitative proteomics
-
Geiger, T., Wisniewski, J. R., Cox, J., Zanivan, S., Kruger, M., Ishihama, Y., and Mann, M. (2011) Use of stable isotope labeling by amino acids in cell culture as a spike-in standard in quantitative proteomics. Nat. Protocols 6, 147-157
-
(2011)
Nat. Protocols
, vol.6
, pp. 147-157
-
-
Geiger, T.1
Wisniewski, J.R.2
Cox, J.3
Zanivan, S.4
Kruger, M.5
Ishihama, Y.6
Mann, M.7
-
39
-
-
0026698693
-
A method for determination of N-glycosylation sites in glycoproteins by collision-induced dissociation analysis in fast atom bombardment mass spectrometry: Identification of the positions of carbohydrate- linked asparagine in recombinant α-amylase by treatment with peptide-N-glycosidase F in 18O-labeled water
-
Gonzalez, J., Takao, T., Hori, H., Besada, V., Rodriguez, R., Padron, G., and Shimonishi, Y. (1992) A method for determination of N-glycosylation sites in glycoproteins by collision-induced dissociation analysis in fast atom bombardment mass spectrometry: Identification of the positions of carbohydrate- linked asparagine in recombinant α-amylase by treatment with peptide-N-glycosidase F in 18O-labeled water. Anal. Biochem. 205, 151-158
-
(1992)
Anal. Biochem.
, vol.205
, pp. 151-158
-
-
Gonzalez, J.1
Takao, T.2
Hori, H.3
Besada, V.4
Rodriguez, R.5
Padron, G.6
Shimonishi, Y.7
-
40
-
-
0033106490
-
18O-labeling of N-glycosylation sites to improve the identification of gel-separated glycoproteins using peptide mass mapping and database searching
-
DOI 10.1021/ac981012u
-
Küster, B., and Mann, M. (1999) O-18-labeling of N-glycosylation sites to improve the identification of gel-separated glycoproteins using peptide mass mapping and database searching. Anal. Chem. 71, 1431-1440 (Pubitemid 29177305)
-
(1999)
Analytical Chemistry
, vol.71
, Issue.7
, pp. 1431-1440
-
-
Kuster, B.1
Mann, M.2
-
41
-
-
84856661228
-
Glycoprotein profiles of human breast cells demonstrate a clear clustering of normal/benign versus malignant cell lines and basal versus luminal cell lines
-
Yen, T. Y., Macher, B. A., McDonald, C. A., Alleyne-Chin, C., and Timpe, L. C. (2011) Glycoprotein profiles of human breast cells demonstrate a clear clustering of normal/benign versus malignant cell lines and basal versus luminal cell lines. J. Proteome Res. 11, 656-667
-
(2011)
J. Proteome Res.
, vol.11
, pp. 656-667
-
-
Yen, T.Y.1
Macher, B.A.2
McDonald, C.A.3
Alleyne-Chin, C.4
Timpe, L.C.5
-
42
-
-
84859562227
-
Lectin chromatography/mass spectrometry discovery workflow identifies putative biomarkers of aggressive breast cancers
-
Drake, P. M., Schilling, B., Niles, R. K., Prakobphol, A., Li, B., Jung, K., Cho, W., Braten, M., Inerowicz, H. D., Williams, K., Albertolle, M., Held, J. M., Iacovides, D., Sorensen, D. J., Griffith, O. L., Johansen, E., Zawadzka, A. M., Cusack, M. P., Allen, S., Gormley, M., Hall, S. C., Witkowska, H. E., Gray, J. W., Regnier, F., Gibson, B. W., and Fisher, S. J. (2012) Lectin chromatography/mass spectrometry discovery workflow identifies putative biomarkers of aggressive breast cancers. J. Proteome Res.
-
(2012)
J. Proteome Res.
-
-
Drake, P.M.1
Schilling, B.2
Niles, R.K.3
Prakobphol, A.4
Li, B.5
Jung, K.6
Cho, W.7
Braten, M.8
Inerowicz, H.D.9
Williams, K.10
Albertolle, M.11
Held, J.M.12
Iacovides, D.13
Sorensen, D.J.14
Griffith, O.L.15
Johansen, E.16
Zawadzka, A.M.17
Cusack, M.P.18
Allen, S.19
Gormley, M.20
Hall, S.C.21
Witkowska, H.E.22
Gray, J.W.23
Regnier, F.24
Gibson, B.W.25
Fisher, S.J.26
more..
-
43
-
-
0034069495
-
Gene ontology: Tool for the unification of biology
-
DOI 10.1038/75556
-
Ashburner, M., Ball, C. A., Blake, J. A., Botstein, D., Butler, H., Cherry, J. M., Davis, A. P., Dolinski, K., Dwight, S. S., Eppig, J. T., Harris, M. A., Hill, D. P., Issel-Tarver, L., Kasarskis, A., Lewis, S., Matese, J. C., Richardson, J. E., Ringwald, M., Rubin, G. M., and Sherlock, G. (2000) Gene ontology: tool for the unification of biology. Nat. Genet. 25, 25-29 (Pubitemid 30257031)
-
(2000)
Nature Genetics
, vol.25
, Issue.1
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
Harris, M.A.11
Hill, D.P.12
Issel-Tarver, L.13
Kasarskis, A.14
Lewis, S.15
Matese, J.C.16
Richardson, J.E.17
Ringwald, M.18
Rubin, G.M.19
Sherlock, G.20
more..
-
44
-
-
80053345905
-
SignalP 4.0: Discriminating signal peptides from transmembrane regions
-
Petersen, T. N., Brunak, S., von Heijne, G., and Nielsen, H. (2011) SignalP 4.0: discriminating signal peptides from transmembrane regions. Nat. Meth. 8, 785-786
-
(2011)
Nat. Meth.
, vol.8
, pp. 785-786
-
-
Petersen, T.N.1
Brunak, S.2
Von Heijne, G.3
Nielsen, H.4
-
45
-
-
27644500162
-
Nonclassical protein secretion in bacteria
-
Bendtsen, J. D., Kiemer, L., Fausboll, A., and Brunak, S. (2005) Nonclassical protein secretion in bacteria. BMC Microbiology 5, 58
-
(2005)
BMC Microbiology
, vol.5
, pp. 58
-
-
Bendtsen, J.D.1
Kiemer, L.2
Fausboll, A.3
Brunak, S.4
-
46
-
-
77950278598
-
FGFR1 Amplification drives endocrine therapy resistance and is a therapeutic target in breast cancer
-
Turner, N., Pearson, A., Sharpe, R., Lambros, M., Geyer, F., Lopez-Garcia, M. A., Natrajan, R., Marchio, C., Iorns, E., Mackay, A., Gillett, C., Grigoriadis, A., Tutt, A., Reis-Filho, J. S., and Ashworth, A. (2010) FGFR1 Amplification drives endocrine therapy resistance and is a therapeutic target in breast cancer. Cancer Res. 70, 2085-2094
-
(2010)
Cancer Res.
, vol.70
, pp. 2085-2094
-
-
Turner, N.1
Pearson, A.2
Sharpe, R.3
Lambros, M.4
Geyer, F.5
Lopez-Garcia, M.A.6
Natrajan, R.7
Marchio, C.8
Iorns, E.9
Mackay, A.10
Gillett, C.11
Grigoriadis, A.12
Tutt, A.13
Reis-Filho, J.S.14
Ashworth, A.15
-
47
-
-
34248141386
-
Crosstalk between EGFR and TrkB enhances ovarian cancer cell migration and proliferation
-
Qiu, L., Zhou, C., Sun, Y., Di, W., Scheffler, E., Healey, S., Kouttab, N., Chu, W., and Wan, Y. (2006) Crosstalk between EGFR and TrkB enhances ovarian cancer cell migration and proliferation. Int. J. Oncol. 29, 1003-1011
-
(2006)
Int. J. Oncol.
, vol.29
, pp. 1003-1011
-
-
Qiu, L.1
Zhou, C.2
Sun, Y.3
Di, W.4
Scheffler, E.5
Healey, S.6
Kouttab, N.7
Chu, W.8
Wan, Y.9
-
48
-
-
84863251015
-
ROR1 is expressed in human breast cancer and associated with enhanced tumorcell growth
-
Zhang, S., Chen, L., Cui, B., Chuang, H. Y., Yu, J., Wang-Rodriguez, J., Tang, L., Chen, G., Basak, G. W., and Kipps, T. J. (2012) ROR1 is expressed in human breast cancer and associated with enhanced tumorcell growth. PLoS ONE 7, e31127
-
(2012)
PLoS ONE
, vol.7
-
-
Zhang, S.1
Chen, L.2
Cui, B.3
Chuang, H.Y.4
Yu, J.5
Wang-Rodriguez, J.6
Tang, L.7
Chen, G.8
Basak, G.W.9
Kipps, T.J.10
-
49
-
-
33846072965
-
Matriptase and its putative role in cancer
-
Uhland, K. (2006) Matriptase and its putative role in cancer. Cell. Mol. Life Sci. 63, 2968-2978
-
(2006)
Cell. Mol. Life Sci.
, vol.63
, pp. 2968-2978
-
-
Uhland, K.1
-
50
-
-
81155137295
-
LIV-1 promotes prostate cancer epithelial-tomesenchymal transition and metastasis through HB-EGF shedding and EGFR-mediated ERK signaling
-
Lue, H. W., Yang, X., Wang, R., Qian, W., Xu, R. Z. H., Lyles, R., Osunkoya, A. O., Zhou, B. P., Vessella, R. L., Zayzafoon, M., Liu, Z. R., Zhau, H. E., and Chung, L. W. (2011) LIV-1 promotes prostate cancer epithelial-tomesenchymal transition and metastasis through HB-EGF shedding and EGFR-mediated ERK signaling. PLoS ONE 6, e27720
-
(2011)
PLoS ONE
, vol.6
-
-
Lue, H.W.1
Yang, X.2
Wang, R.3
Qian, W.4
Xu, R.Z.H.5
Lyles, R.6
Osunkoya, A.O.7
Zhou, B.P.8
Vessella, R.L.9
Zayzafoon, M.10
Liu, Z.R.11
Zhau, H.E.12
Chung, L.W.13
-
51
-
-
70450198396
-
Epithelialmesenchymal transitions in development and disease
-
Thiery, J. P., Acloque, H., Huang, R. Y., and Nieto, M. A. (2009) Epithelialmesenchymal transitions in development and disease. Cell 139, 871-890
-
(2009)
Cell
, vol.139
, pp. 871-890
-
-
Thiery, J.P.1
Acloque, H.2
Huang, R.Y.3
Nieto, M.A.4
-
52
-
-
0035865279
-
Latency, activation, and binding proteins of TGF-β
-
DOI 10.1002/1097-0029(20010215)52:4<354::AID-JEMT1020>3.0.CO;2-G
-
Koli, K., Saharinen, J., Hyytiäinen, M., Penttinen, C., and Keski-Oja, J. (2001) Latency, activation, and binding proteins of TGF-β. Microscopy Res. Tech. 52, 354-362 (Pubitemid 32167823)
-
(2001)
Microscopy Research and Technique
, vol.52
, Issue.4
, pp. 354-362
-
-
Koli, K.1
Saharinen, J.2
Hyytiainen, M.3
Penttinen, C.4
Keski-Oja, J.5
-
53
-
-
0028987267
-
1,25-Dihydroxyvitamin D3 enhances the expression of transforming growth factor β1 and its latent form binding protein in cultured breast carcinoma cells
-
Koli, K., and Keski-Oja, J. (1995) 1,25-Dihydroxyvitamin D3 enhances the expression of transforming growth factor β1 and its latent form binding protein in cultured breast carcinoma cells. Cancer Res. 55, 1540-1546
-
(1995)
Cancer Res.
, vol.55
, pp. 1540-1546
-
-
Koli, K.1
Keski-Oja, J.2
-
54
-
-
84867693718
-
-
Zent, R., and Pozzi, A., eds., Springer New York
-
Zijlstra, A. (2010) Tetraspanins in Cancer Cell-Extracellular Matrix Interactions in Cancer. In: Zent, R., and Pozzi, A., eds., pp. 217-243, Springer New York
-
(2010)
Tetraspanins in Cancer Cell-Extracellular Matrix Interactions in Cancer
, pp. 217-243
-
-
Zijlstra, A.1
-
55
-
-
47949102937
-
The semaphorins: Versatile regulators of tumour progression and tumour angiogenesis
-
Neufeld, G., and Kessler, O. (2008) The semaphorins: versatile regulators of tumour progression and tumour angiogenesis. Nat. Rev. Cancer 8, 632-645
-
(2008)
Nat. Rev. Cancer
, vol.8
, pp. 632-645
-
-
Neufeld, G.1
Kessler, O.2
-
56
-
-
2442639176
-
Neuropilin-1 in human colon cancer: Expression, regulation, and role in induction of angiogenesis
-
Parikh, A. A., Fan, F., Liu, W. B., Ahmad, S. A., Stoeltzing, O., Reinmuth, N., Bielenberg, D., Bucana, C. D., Klagsbrun, M., and Ellis, L. M. (2004) Neuropilin-1 in human colon cancer: expression, regulation, and role in induction of angiogenesis. Am. J. Pathol. 164, 2139-2151 (Pubitemid 38669361)
-
(2004)
American Journal of Pathology
, vol.164
, Issue.6
, pp. 2139-2151
-
-
Parikh, A.A.1
Fan, F.2
Liu, W.B.3
Ahmad, S.A.4
Stoeltzing, O.5
Reinmuth, N.6
Bielenberg, D.7
Bucana, C.D.8
Klagsbrun, M.9
Ellis, L.M.10
-
57
-
-
38349167245
-
ErbB-2 and Met reciprocally regulate cellular signaling via plexin-B1
-
Swiercz, J. M., Worzfeld, T., and Offermanns, S. (2008) ErbB-2 and Met reciprocally regulate cellular signaling via plexin-B1. J. Biol. Chem. 283, 1893-1901
-
(2008)
J. Biol. Chem.
, vol.283
, pp. 1893-1901
-
-
Swiercz, J.M.1
Worzfeld, T.2
Offermanns, S.3
-
58
-
-
0019836284
-
Fluoxymesterone stimulates plasma concentrations of gross cystic disease fluid protein in patients with metastatic breast carcinoma
-
Haagensen, D. E., Silva, J. S., Leight, G. S., Dilley, W. G., and Wells, S. A. (1981) fluoxymesterone stimulates plasma-concentrations of gross cystic- disease fluid protein in patients with metastatic breast-carcinoma. Surg. Forum 32, 413-414 (Pubitemid 12159580)
-
(1981)
Surgical Forum
, vol.32
, pp. 413-414
-
-
Haagensen Jr., D.E.1
Silva, J.S.2
Leight Jr., G.S.3
-
59
-
-
0028918218
-
Mitogenic effect of the 15-kda gross cystic-disease fluid protein (gcdfp-15) on breast-cancer cell-lines and on immortal mammary cells
-
Cassoni, P., Sapino, A., Haagensen, D. E., Naldoni, C., and Bussolati, G. (1995) mitogenic effect of the 15-kda gross cystic-disease fluid protein (gcdfp-15) on breast-cancer cell-lines and on immortal mammary cells. Int. J. Cancer 60, 216-220
-
(1995)
Int. J. Cancer
, vol.60
, pp. 216-220
-
-
Cassoni, P.1
Sapino, A.2
Haagensen, D.E.3
Naldoni, C.4
Bussolati, G.5
-
60
-
-
21044444707
-
Markers of adenocarcinoma characteristic of the site of origin: Development of a diagnostic algorithm
-
DOI 10.1158/1078-0432.CCR-04-2236
-
Dennis, J. L., Hvidsten, T. R., Wit, E. C., Komorowski, J., Bell, A. K., Downie, I., Mooney, J., Verbeke, C., Bellamy, C., Keith, W. N., and Oien, K. A. (2005) Markers of adenocarcinoma characteristic of the site of origin: development of a diagnostic algorithm. Clin. Cancer Res. 11, 3766-3772 (Pubitemid 40685594)
-
(2005)
Clinical Cancer Research
, vol.11
, Issue.10
, pp. 3766-3772
-
-
Dennis, J.L.1
Hvidsten, T.R.2
Wit, E.C.3
Komorowski, J.4
Bell, A.K.5
Downie, I.6
Mooney, J.7
Verbeke, C.8
Bellamy, C.9
Keith, W.N.10
Oien, K.A.11
-
61
-
-
0035171020
-
Expression of apocrine differentiation markers in neuroendocrine breast carcinomas of aged women
-
DOI 10.1038/modpathol.3880387
-
Sapino, A., Righi, L., Cassoni, P., Papotti, M., Gugliotta, P., and Bussolati, G. (2001) Expression of apocrine differentiation markers in neuroendocrine breast carcinomas of aged women. Mod. Pathol. 14, 768-776 (Pubitemid 33069835)
-
(2001)
Modern Pathology
, vol.14
, Issue.8
, pp. 768-776
-
-
Sapino, A.1
Righi, L.2
Cassoni, P.3
Papotti, M.4
Gugliotta, P.5
Bussolati, G.6
-
62
-
-
0029749678
-
Expression of the PIP/GCDFP-15 gene and survival in breast cancer
-
Hahnel, R., and Hahnel, E. (1996) Expression of the PIP/GCDFP-15 gene and survival in breast cancer. Virchows Arch. Int. J. Pathol. 429, 365-369 (Pubitemid 26421397)
-
(1996)
Virchows Archiv
, vol.429
, Issue.6
, pp. 365-369
-
-
Hahnel, R.1
Hahnel, E.2
-
63
-
-
84954358191
-
Crystal structure of the novel complex formed between zinc α2-glycoprotein (ZAG) and prolactin-inducible protein (PIP) from human seminal plasma
-
Hassan, M. I., Bilgrami, S., Kumar, V., Singh, N., Yadav, S., Kaur, P., and Singh, T. P. (2008) Crystal structure of the novel complex formed between zinc α2-glycoprotein (ZAG) and prolactin-inducible protein (PIP) from human seminal plasma. J. Mol. Biol. 384, 663-672
-
(2008)
J. Mol. Biol.
, vol.384
, pp. 663-672
-
-
Hassan, M.I.1
Bilgrami, S.2
Kumar, V.3
Singh, N.4
Yadav, S.5
Kaur, P.6
Singh, T.P.7
-
64
-
-
0027176082
-
Zn-α2-glycoprotein levels in breast cancer cytosols and correlation with clinical, histological and biochemical parameters
-
Díez-Itza, I., Sánchez, L. M., Teresa Allende, M., Vizoso, F., Ruibal, A., and López-Otín, C. (1993) Zn-α2-glycoprotein levels in breast cancer cytosols and correlation with clinical, histological and biochemical parameters. Eur. J. Cancer 29, 1256-1260
-
(1993)
Eur. J. Cancer
, vol.29
, pp. 1256-1260
-
-
Díez-Itza, I.1
Sánchez, L.M.2
Teresa Allende, M.3
Vizoso, F.4
Ruibal, A.5
López-Otín, C.6
-
65
-
-
0033060001
-
Leukocyte common antigen-related tyrosine phosphatase receptor: Increased expression and neuronal-type splicing in breast cancer cells and tissue
-
DOI 10.1002/(SICI)1098-2744(199906)25:2<139::AID-MC9>3.0.CO;2-T
-
Yang, T., Zhang, J. S., Massa, S. M., Han, X., and Longo, F. M. (1999) Leukocyte common antigen-related tyrosine phosphatase receptor: Increased expression and neuronal-type splicing in breast cancer cells and tissue. Mol. Carcinogenesis 25, 139-149 (Pubitemid 29275027)
-
(1999)
Molecular Carcinogenesis
, vol.25
, Issue.2
, pp. 139-149
-
-
Yang, T.1
Zhang, J.S.2
Massa, S.M.3
Han, X.4
Longo, F.M.5
-
66
-
-
79960117895
-
Breast cancer cells produce tenascin C as a metastatic niche component to colonize the lungs
-
Oskarsson, T., Acharyya, S., Zhang, X. H., Vanharanta, S., Tavazoie, S. F., Morris, P. G., Downey, R. J., Manova-Todorova, K., Brogi, E., and Massague, J. (2011) Breast cancer cells produce tenascin C as a metastatic niche component to colonize the lungs. Nat. Med. 17, 867-874
-
(2011)
Nat. Med.
, vol.17
, pp. 867-874
-
-
Oskarsson, T.1
Acharyya, S.2
Zhang, X.H.3
Vanharanta, S.4
Tavazoie, S.F.5
Morris, P.G.6
Downey, R.J.7
Manova-Todorova, K.8
Brogi, E.9
Massague, J.10
-
67
-
-
78650034777
-
Towards a knowledge-based Human Protein Atlas
-
Uhlen, M., Oksvold, P., Fagerberg, L., Lundberg, E., Jonasson, K., Forsberg, M., Zwahlen, M., Kampf, C., Wester, K., Hober, S., Wernerus, H., Bjorling, L., and Ponten, F. (2010) Towards a knowledge-based Human Protein Atlas. Nat. Biotech. 28, 1248-1250
-
(2010)
Nat. Biotech.
, vol.28
, pp. 1248-1250
-
-
Uhlen, M.1
Oksvold, P.2
Fagerberg, L.3
Lundberg, E.4
Jonasson, K.5
Forsberg, M.6
Zwahlen, M.7
Kampf, C.8
Wester, K.9
Hober, S.10
Wernerus, H.11
Bjorling, L.12
Ponten, F.13
-
68
-
-
80052552293
-
A systematic analysis of eluted fraction of plasma post immunoaffinity depletion: Implications in biomarker discovery
-
Yadav, A. K., Bhardwaj, G., Basak, T., Kumar, D., Ahmad, S., Priyadarshini, R., Singh, A. K., Dash, D., and Sengupta, S. (2011) A systematic analysis of eluted fraction of plasma post immunoaffinity depletion: implications in biomarker discovery. PLoS ONE 6, e24442
-
(2011)
PLoS ONE
, vol.6
-
-
Yadav, A.K.1
Bhardwaj, G.2
Basak, T.3
Kumar, D.4
Ahmad, S.5
Priyadarshini, R.6
Singh, A.K.7
Dash, D.8
Sengupta, S.9
-
69
-
-
79961014854
-
Large-scale phosphosite quantification in tissues by a spike-in SILAC method
-
Monetti, M., Nagaraj, N., Sharma, K., and Mann, M. (2011) Large-scale phosphosite quantification in tissues by a spike-in SILAC method. Nat. Meth. 8, 655-658
-
(2011)
Nat. Meth.
, vol.8
, pp. 655-658
-
-
Monetti, M.1
Nagaraj, N.2
Sharma, K.3
Mann, M.4
-
70
-
-
84861990380
-
Selected reaction monitoring-based proteomics: Workflows, potential, pitfalls and future directions
-
Picotti, P., and Aebersold, R. (2012) Selected reaction monitoring-based proteomics: workflows, potential, pitfalls and future directions. Nat. Meth. 9, 555-566
-
(2012)
Nat. Meth.
, vol.9
, pp. 555-566
-
-
Picotti, P.1
Aebersold, R.2
-
71
-
-
79952540456
-
Selected reaction monitoring applied to proteomics
-
Gallien, S., Duriez, E., and Domon, B. (2011) Selected reaction monitoring applied to proteomics. J. Mass Spectrom. 46, 298-312
-
(2011)
J. Mass Spectrom.
, vol.46
, pp. 298-312
-
-
Gallien, S.1
Duriez, E.2
Domon, B.3
|