-
1
-
-
79551549643
-
Comprehensive proteomics
-
Beck, M., Claassen, M., Aebersold, R., Comprehensive proteomics. Curr. Opin. Biotechnol. 2011, 22, 3-8.
-
(2011)
Curr. Opin. Biotechnol.
, vol.22
, pp. 3-8
-
-
Beck, M.1
Claassen, M.2
Aebersold, R.3
-
2
-
-
84855549488
-
System-wide perturbation analysis with nearly complete coverage of the yeast proteome by single-shot ultra HPLC runs on a bench top orbitrap
-
Nagaraj, N., Alexander Kulak, N., Cox, J., Neuhauser, N. et al., System-wide perturbation analysis with nearly complete coverage of the yeast proteome by single-shot ultra HPLC runs on a bench top orbitrap. Mol. Cell. Proteomics 2012, 11, M111.013722.
-
(2012)
Mol. Cell. Proteomics
, vol.11
, pp. M111013722
-
-
Nagaraj, N.1
Alexander Kulak, N.2
Cox, J.3
Neuhauser, N.4
-
3
-
-
84891815508
-
The one hour yeast proteome
-
Hebert, A. S., Richards, A. L., Bailey, D. J., Ulbrich, A. et al., The one hour yeast proteome. Mol. Cell. Proteomics 2014, 13, 339-347.
-
(2014)
Mol. Cell. Proteomics
, vol.13
, pp. 339-347
-
-
Hebert, A.S.1
Richards, A.L.2
Bailey, D.J.3
Ulbrich, A.4
-
4
-
-
84857938446
-
Comparative proteomic analysis of eleven common cell lines reveals ubiquitous but varying expression of most proteins
-
Geiger, T., Wehner, A., Schaab, C., Cox, J., Mann, M., Comparative proteomic analysis of eleven common cell lines reveals ubiquitous but varying expression of most proteins. Mol. Cell. Proteomics 2012, 11, M111.014050.
-
(2012)
Mol. Cell. Proteomics
, vol.11
, pp. M111014050
-
-
Geiger, T.1
Wehner, A.2
Schaab, C.3
Cox, J.4
Mann, M.5
-
5
-
-
84874589189
-
Mapping and analysis of phosphorylation sites: a quick guide for cell biologists
-
Dephoure, N., Gould, K. L., Gygi, S. P., Kellogg, D. R., Mapping and analysis of phosphorylation sites: a quick guide for cell biologists. Mol. Biol. Cell 2013, 24, 535-542.
-
(2013)
Mol. Biol. Cell
, vol.24
, pp. 535-542
-
-
Dephoure, N.1
Gould, K.L.2
Gygi, S.P.3
Kellogg, D.R.4
-
6
-
-
84940897506
-
Quantitative proteomic atlas of ubiquitination and acetylation in the DNA damage response
-
Elia, A. E. H., Boardman, A. P., Wang, D. C., Huttlin, E. L. et al., Quantitative proteomic atlas of ubiquitination and acetylation in the DNA damage response. Mol. Cell 2015, 59, 867-881.
-
(2015)
Mol. Cell
, vol.59
, pp. 867-881
-
-
Elia, A.E.H.1
Boardman, A.P.2
Wang, D.C.3
Huttlin, E.L.4
-
7
-
-
84890644637
-
Status of large-scale analysis of post-translational modifications by mass spectrometry
-
Olsen, J. V., Mann, M., Status of large-scale analysis of post-translational modifications by mass spectrometry. Mol.Cell. Proteomics 2013, 12, 3444-3452.
-
(2013)
Mol.Cell. Proteomics
, vol.12
, pp. 3444-3452
-
-
Olsen, J.V.1
Mann, M.2
-
8
-
-
84899759007
-
Proteome-wide identification of SUMO2 modification sites
-
Tammsalu, T., Matic, I., Jaffray, E. G., Ibrahim, A. F. M. et al., Proteome-wide identification of SUMO2 modification sites. Science Signaling 2014, 7, rs2-rs2.
-
(2014)
Science Signaling
, vol.7
, pp. rs2-rs2
-
-
Tammsalu, T.1
Matic, I.2
Jaffray, E.G.3
Ibrahim, A.F.M.4
-
9
-
-
84887202097
-
Quantifying proteomes and their post-translational modifications by stable isotope label-based mass spectrometry
-
Merrill, A. E., Coon, J. J., Quantifying proteomes and their post-translational modifications by stable isotope label-based mass spectrometry. Curr. Opin. Chem. Biol. 2013, 17, 779-786.
-
(2013)
Curr. Opin. Chem. Biol.
, vol.17
, pp. 779-786
-
-
Merrill, A.E.1
Coon, J.J.2
-
10
-
-
84937724664
-
Single-molecule insights into mRNA dynamics in neurons
-
Buxbaum, A. R., Yoon, Y. J., Singer, R. H., Park, H. Y., Single-molecule insights into mRNA dynamics in neurons. Trends Cell Biol. 2015, 25, 468-475.
-
(2015)
Trends Cell Biol.
, vol.25
, pp. 468-475
-
-
Buxbaum, A.R.1
Yoon, Y.J.2
Singer, R.H.3
Park, H.Y.4
-
11
-
-
23044445756
-
A stress-sensitive reporter predicts longevity in isogenic populations of Caenorhabditis elegans
-
Rea, S. L., Wu, D., Cypser, J. R., Vaupel, J. W., Johnson, T. E., A stress-sensitive reporter predicts longevity in isogenic populations of Caenorhabditis elegans. Nat. Genet. 2005, 37, 894-898.
-
(2005)
Nat. Genet.
, vol.37
, pp. 894-898
-
-
Rea, S.L.1
Wu, D.2
Cypser, J.R.3
Vaupel, J.W.4
Johnson, T.E.5
-
12
-
-
84898761557
-
A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells
-
Ly, T., Ahmad, Y., Shlien, A., Soroka, D. et al., A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells. eLife 2014, 3, e0163.
-
(2014)
eLife
, vol.3
, pp. e0163
-
-
Ly, T.1
Ahmad, Y.2
Shlien, A.3
Soroka, D.4
-
13
-
-
10744231500
-
Systematic interactome mapping and genetic perturbation analysis of a C. elegans TGF-β signaling network
-
Tewari, M., Hu, P. J., Ahn, J. S., Ayivi-Guedehoussou, N. et al., Systematic interactome mapping and genetic perturbation analysis of a C. elegans TGF-β signaling network. Mol. Cell 2004, 13, 469-482.
-
(2004)
Mol. Cell
, vol.13
, pp. 469-482
-
-
Tewari, M.1
Hu, P.J.2
Ahn, J.S.3
Ayivi-Guedehoussou, N.4
-
14
-
-
48949116730
-
Proteomics in Caenorhabditis elegans
-
Audhya, A., Desai, A., Proteomics in Caenorhabditis elegans. Brief. Funct. Genomic. Proteomic. 2008, 7, 205-210.
-
(2008)
Brief. Funct. Genomic. Proteomic.
, vol.7
, pp. 205-210
-
-
Audhya, A.1
Desai, A.2
-
15
-
-
53549100731
-
Use of shotgun proteomics for the identification, confirmation, and correction of C. elegans gene annotations
-
Merrihew, G. E., Davis, C., Ewing, B., Williams, G. et al., Use of shotgun proteomics for the identification, confirmation, and correction of C. elegans gene annotations. Genome Res. 2008, 18, 1660-1669.
-
(2008)
Genome Res.
, vol.18
, pp. 1660-1669
-
-
Merrihew, G.E.1
Davis, C.2
Ewing, B.3
Williams, G.4
-
16
-
-
65949096636
-
Comparative functional analysis of the Caenorhabditis elegans and Drosophila melanogaster Proteomes
-
Schrimpf, S. P., Weiss, M., Reiter, L., Ahrens, C. H. et al., Comparative functional analysis of the Caenorhabditis elegans and Drosophila melanogaster Proteomes. PLoS Biol. 2009, 7, e1000048.
-
(2009)
PLoS Biol.
, vol.7
, pp. e1000048
-
-
Schrimpf, S.P.1
Weiss, M.2
Reiter, L.3
Ahrens, C.H.4
-
17
-
-
80053363595
-
Stable-isotope labeling with amino acids in nematodes
-
Larance, M., Bailly, A. P., Pourkarimi, E., Hay, R. T. et al., Stable-isotope labeling with amino acids in nematodes. Nat. Meth. 2011, 8, 849-851.
-
(2011)
Nat. Meth.
, vol.8
, pp. 849-851
-
-
Larance, M.1
Bailly, A.P.2
Pourkarimi, E.3
Hay, R.T.4
-
18
-
-
84928963751
-
Widespread proteome remodeling and aggregation in aging C. elegans
-
Walther, D. M., Kasturi, P., Zheng, M., Pinkert, S. et al., Widespread proteome remodeling and aggregation in aging C. elegans. Cell 2015, 161, 919-932.
-
(2015)
Cell
, vol.161
, pp. 919-932
-
-
Walther, D.M.1
Kasturi, P.2
Zheng, M.3
Pinkert, S.4
-
19
-
-
84891818655
-
Quantitative proteomics by amino acid labeling identifies novel NHR-49 regulated proteins in C. elegans
-
Fredens, J., Faergeman, N. J., Quantitative proteomics by amino acid labeling identifies novel NHR-49 regulated proteins in C. elegans. Worm 2012, 1, 66-71.
-
(2012)
Worm
, vol.1
, pp. 66-71
-
-
Fredens, J.1
Faergeman, N.J.2
-
20
-
-
84906220352
-
Altered proteostasis in aging and heat shock response in C. elegans revealed by analysis of the global and de novo synthesized proteome
-
Liang, V., Ullrich, M., Lam, H., Chew, Y. L. et al., Altered proteostasis in aging and heat shock response in C. elegans revealed by analysis of the global and de novo synthesized proteome. Cell. Mol. Life Sci. 2014, 71, 3339-3361.
-
(2014)
Cell. Mol. Life Sci.
, vol.71
, pp. 3339-3361
-
-
Liang, V.1
Ullrich, M.2
Lam, H.3
Chew, Y.L.4
-
21
-
-
0033755967
-
Protruding vulva mutants identify novel loci and wnt signaling factors that function during Caenorhabditis elegans vulva development
-
Eisenmann, D. M., Kim, S. K., Protruding vulva mutants identify novel loci and wnt signaling factors that function during Caenorhabditis elegans vulva development. Genetics 2000, 156, 1097-1116.
-
(2000)
Genetics
, vol.156
, pp. 1097-1116
-
-
Eisenmann, D.M.1
Kim, S.K.2
-
22
-
-
57449099865
-
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
-
Cox, J., Mann, M., MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat. Biotechnol. 2008, 26, 1367-1372.
-
(2008)
Nat. Biotechnol.
, vol.26
, pp. 1367-1372
-
-
Cox, J.1
Mann, M.2
-
23
-
-
79953701087
-
Andromeda: a peptide search engine integrated into the MaxQuant environment
-
Cox, J., Neuhauser, N., Michalski, A., Scheltema, R. A. et al., Andromeda: a peptide search engine integrated into the MaxQuant environment. J.Proteome Res. 2011, 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
-
24
-
-
84964927929
-
R: a language and environment for statistical computing
-
R_Core_Team, R: a language and environment for statistical computing. http://www.R-project.org/ 2015.
-
(2015)
-
-
-
26
-
-
61449172037
-
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
-
Huang, D. W., Sherman, B. T., Lempicki, R. A., Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat. Protocols 2008, 4, 44-57.
-
(2008)
Nat. Protocols
, vol.4
, pp. 44-57
-
-
Huang, D.W.1
Sherman, B.T.2
Lempicki, R.A.3
-
27
-
-
58549112996
-
Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
-
Huang, D. W., Sherman, B. T., Lempicki, R. A., Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res. 2009, 37, 1-13.
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 1-13
-
-
Huang, D.W.1
Sherman, B.T.2
Lempicki, R.A.3
-
28
-
-
79960610118
-
REVIGO summarizes and visualizes long lists of gene ontology terms
-
Supek, F., Bošnjak, M., Škunca, N., Šmuc, T., REVIGO summarizes and visualizes long lists of gene ontology terms. PLoS ONE 2011, 6, e21800.
-
(2011)
PLoS ONE
, vol.6
, pp. e21800
-
-
Supek, F.1
Bošnjak, M.2
Škunca, N.3
Šmuc, T.4
-
29
-
-
84936792340
-
Global proteomics analysis of the response to starvation in C. elegans
-
Larance, M., Pourkarimi, E., Wang, B., Murillo, A. B. et al., Global proteomics analysis of the response to starvation in C. elegans. Mol. Cell. Proteomics 2015, 14, 1989-2001.
-
(2015)
Mol. Cell. Proteomics
, vol.14
, pp. 1989-2001
-
-
Larance, M.1
Pourkarimi, E.2
Wang, B.3
Murillo, A.B.4
-
30
-
-
79956322553
-
Global quantification of mammalian gene expression control
-
Schwanhausser, B., Busse, D., Li, N., Dittmar, G. et al., Global quantification of mammalian gene expression control. Nature 2011, 473, 337-342.
-
(2011)
Nature
, vol.473
, pp. 337-342
-
-
Schwanhausser, B.1
Busse, D.2
Li, N.3
Dittmar, G.4
-
31
-
-
75549084124
-
WormBase: a comprehensive resource for nematode research
-
Harris, T. W., Antoshechkin, I., Bieri, T., Blasiar, D. et al., WormBase: a comprehensive resource for nematode research. Nucleic Acids Research 2010, 38, D463-D467.
-
(2010)
Nucleic Acids Research
, vol.38
, pp. D463-D467
-
-
Harris, T.W.1
Antoshechkin, I.2
Bieri, T.3
Blasiar, D.4
-
32
-
-
84861207340
-
WormBase 2012: more genomes, more data, new website
-
Yook, K., Harris, T. W., Bieri, T., Cabunoc, A. et al., WormBase 2012: more genomes, more data, new website. Nucleic Acids Res. 2012, 40, D735-D741.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. D735-D741
-
-
Yook, K.1
Harris, T.W.2
Bieri, T.3
Cabunoc, A.4
-
33
-
-
0035165576
-
WormBase: network access to the genome and biology of Caenorhabditis elegans
-
Stein, L., Sternberg, P., Durbin, R., Thierry-Mieg, J., Spieth, J., WormBase: network access to the genome and biology of Caenorhabditis elegans. Nucleic Acids Res. 2001, 29, 82-86.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 82-86
-
-
Stein, L.1
Sternberg, P.2
Durbin, R.3
Thierry-Mieg, J.4
Spieth, J.5
-
34
-
-
0028796703
-
gld-1, a tumor suppressor gene required for oocyte development in Caenorhabditis elegans
-
Francis, R., Barton, M. K., Kimble, J., Schedl, T., gld-1, a tumor suppressor gene required for oocyte development in Caenorhabditis elegans. Genetics 1995, 139, 579-606.
-
(1995)
Genetics
, vol.139
, pp. 579-606
-
-
Francis, R.1
Barton, M.K.2
Kimble, J.3
Schedl, T.4
-
35
-
-
71349088766
-
The heat shock response modulates transthyretin deposition in the peripheral and autonomic nervous systems
-
Santos, S. D., Fernandes, R., Saraiva, M. J., The heat shock response modulates transthyretin deposition in the peripheral and autonomic nervous systems. Neurobiol. Aging 2010, 31, 280-289.
-
(2010)
Neurobiol. Aging
, vol.31
, pp. 280-289
-
-
Santos, S.D.1
Fernandes, R.2
Saraiva, M.J.3
-
36
-
-
0027945612
-
Thermotolerance of a long-lived mutant of Caenorhabditis elegans
-
Lithgow, G. J., White, T. M., Hinerfeld, D. A., Johnson, T. E., Thermotolerance of a long-lived mutant of Caenorhabditis elegans. J. Gerontol. 1994, 49, B270-B276.
-
(1994)
J. Gerontol.
, vol.49
, pp. B270-B276
-
-
Lithgow, G.J.1
White, T.M.2
Hinerfeld, D.A.3
Johnson, T.E.4
-
37
-
-
0023087430
-
Effect of heat shock on protein degradation in mammalian cells: involvement of the ubiquitin system
-
Parag, H. A., Raboy, B., Kulka, R. G., Effect of heat shock on protein degradation in mammalian cells: involvement of the ubiquitin system. EMBO J. 1987, 6, 55-61.
-
(1987)
EMBO J.
, vol.6
, pp. 55-61
-
-
Parag, H.A.1
Raboy, B.2
Kulka, R.G.3
-
38
-
-
0024323502
-
Proteolysis in heat-stressed HeLa cells. Stabilization of ubiquitin correlates with the loss of proline endopeptidase
-
Pratt, G., Hough, R., Rechsteiner, M., Proteolysis in heat-stressed HeLa cells. Stabilization of ubiquitin correlates with the loss of proline endopeptidase. J. Biol. Chem. 1989, 264, 12526-12532.
-
(1989)
J. Biol. Chem.
, vol.264
, pp. 12526-12532
-
-
Pratt, G.1
Hough, R.2
Rechsteiner, M.3
-
39
-
-
84874642970
-
Global subcellular characterization of protein degradation using quantitative proteomics
-
Larance, M., Ahmad, Y., Kirkwood, K. J., Ly, T., Lamond, A. I., Global subcellular characterization of protein degradation using quantitative proteomics. Mol. Cell. Proteomics 2013, 12, 638-650.
-
(2013)
Mol. Cell. Proteomics
, vol.12
, pp. 638-650
-
-
Larance, M.1
Ahmad, Y.2
Kirkwood, K.J.3
Ly, T.4
Lamond, A.I.5
-
40
-
-
84891796097
-
ProteomeXchange provides globally coordinated proteomics data submission and dissemination
-
Vizcaino, J. A., Deutsch, E. W., Wang, R., Csordas, A. et al., ProteomeXchange provides globally coordinated proteomics data submission and dissemination. Nat. Biotechnol. 2014, 32, 223-226.
-
(2014)
Nat. Biotechnol.
, vol.32
, pp. 223-226
-
-
Vizcaino, J.A.1
Deutsch, E.W.2
Wang, R.3
Csordas, A.4
-
41
-
-
84910061461
-
Ultrasensitive proteome analysis using paramagnetic bead technology
-
Hughes, C. S., Foehr, S., Garfield, D. A., Furlong, E. E. et al., Ultrasensitive proteome analysis using paramagnetic bead technology. Mol. Syst. Biol. 2014, 10, 1-10.
-
(2014)
Mol. Syst. Biol.
, vol.10
, pp. 1-10
-
-
Hughes, C.S.1
Foehr, S.2
Garfield, D.A.3
Furlong, E.E.4
-
42
-
-
84895538371
-
Minimal, encapsulated proteomic-sample processing applied to copy-number estimation in eukaryotic cells
-
Kulak, N. A., Pichler, G., Paron, I., Nagaraj, N., Mann, M., Minimal, encapsulated proteomic-sample processing applied to copy-number estimation in eukaryotic cells. Nat. Methods 2014, 11, 319-324.
-
(2014)
Nat. Methods
, vol.11
, pp. 319-324
-
-
Kulak, N.A.1
Pichler, G.2
Paron, I.3
Nagaraj, N.4
Mann, M.5
|