-
1
-
-
84911474471
-
A proteome-scale map of the human interactome network
-
Rolland, T. et al. A proteome-scale map of the human interactome network Cell 2014, 159, 1212-1226 10.1016/j.cell.2014.10.050
-
(2014)
Cell
, vol.159
, pp. 1212-1226
-
-
Rolland, T.1
-
2
-
-
84862660561
-
Computational and informatics strategies for identification of specific protein interaction partners in affinity purification mass spectrometry experiments
-
Nesvizhskii, A. I. Computational and informatics strategies for identification of specific protein interaction partners in affinity purification mass spectrometry experiments Proteomics 2012, 12, 1639-1655 10.1002/pmic.201100537
-
(2012)
Proteomics
, vol.12
, pp. 1639-1655
-
-
Nesvizhskii, A.I.1
-
3
-
-
84871865189
-
Popular computational methods to assess multiprotein complexes derived from label-free affinity purification and mass spectrometry (AP-MS) experiments
-
Armean, I. M.; Lilley, K. S.; Trotter, M. W. Popular computational methods to assess multiprotein complexes derived from label-free affinity purification and mass spectrometry (AP-MS) experiments Mol. Cell. Proteomics 2013, 12, 1-13 10.1074/mcp.R112.019554
-
(2013)
Mol. Cell. Proteomics
, vol.12
, pp. 1-13
-
-
Armean, I.M.1
Lilley, K.S.2
Trotter, M.W.3
-
4
-
-
85027578091
-
Protein complex analysis: From raw protein lists to protein interaction networks
-
in press
-
Meysman, P.; Titeca, K. Protein complex analysis: from raw protein lists to protein interaction networks. Mass Spectrom. Rev. 2015, in press
-
(2015)
Mass Spectrom. Rev.
-
-
Meysman, P.1
Titeca, K.2
-
5
-
-
40349092949
-
Probabilistic assembly of human protein interaction networks from label-free quantitative proteomics
-
Sardiu, M. E. et al. Probabilistic assembly of human protein interaction networks from label-free quantitative proteomics Proc. Natl. Acad. Sci. U. S. A. 2008, 105, 1454-1459 10.1073/pnas.0706983105
-
(2008)
Proc. Natl. Acad. Sci. U. S. A.
, vol.105
, pp. 1454-1459
-
-
Sardiu, M.E.1
-
6
-
-
67649634849
-
Defining the human deubiquitinating enzyme interaction landscape
-
Sowa, M. E.; Bennett, E. J.; Gygi, S. P.; Harper, J. W. Defining the human deubiquitinating enzyme interaction landscape Cell 2009, 138, 389-403 10.1016/j.cell.2009.04.042
-
(2009)
Cell
, vol.138
, pp. 389-403
-
-
Sowa, M.E.1
Bennett, E.J.2
Gygi, S.P.3
Harper, J.W.4
-
7
-
-
78650861777
-
SAINT: Probabilistic scoring of affinity purification-mass spectrometry data
-
Choi, H. et al. SAINT: probabilistic scoring of affinity purification-mass spectrometry data Nat. Methods 2011, 8, 70-73 10.1038/nmeth.1541
-
(2011)
Nat. Methods
, vol.8
, pp. 70-73
-
-
Choi, H.1
-
8
-
-
33748319353
-
Statistical analysis of membrane proteome expression changes in Saccharomyces cerevisiae
-
Zybailov, B. et al. Statistical analysis of membrane proteome expression changes in Saccharomyces cerevisiae J. Proteome Res. 2006, 5, 2339-2347 10.1021/pr060161n
-
(2006)
J. Proteome Res.
, vol.5
, pp. 2339-2347
-
-
Zybailov, B.1
-
9
-
-
84937762745
-
Extracting high confidence protein interactions from affinity purification data: At the crossroads
-
Pu, S.; Vlasblom, J.; Turinsky, A.; Marcon, E.; Phanse, S.; Trimble, S. S.; Olsen, J.; Greenblatt, J.; Emili, A.; Wodak, S. J. et al. Extracting high confidence protein interactions from affinity purification data: At the crossroads J. Proteomics 2015, 118, 63 10.1016/j.jprot.2015.03.009
-
(2015)
J. Proteomics
, vol.118
, pp. 63
-
-
Pu, S.1
Vlasblom, J.2
Turinsky, A.3
Marcon, E.4
Phanse, S.5
Trimble, S.S.6
Olsen, J.7
Greenblatt, J.8
Emili, A.9
Wodak, S.J.10
-
10
-
-
79551587720
-
Cytoscape 2.8: New features for data integration and network visualization
-
Smoot, M. E.; Ono, K.; Ruscheinski, J.; Wang, P. L.; Ideker, T. Cytoscape 2.8: new features for data integration and network visualization Bioinformatics 2011, 27, 431-432 10.1093/bioinformatics/btq675
-
(2011)
Bioinformatics
, vol.27
, pp. 431-432
-
-
Smoot, M.E.1
Ono, K.2
Ruscheinski, J.3
Wang, P.L.4
Ideker, T.5
-
11
-
-
84863304598
-
-
R Development Core Team. R Foundation for Statistical Computing: Vienna, Austria
-
R Development Core Team. R: A language and environment for statistical computing. R Foundation for Statistical Computing: Vienna, Austria, 2013. http://www.R-project.org/.
-
(2013)
R: A Language and Environment for Statistical Computing
-
-
-
14
-
-
79955382972
-
Modeling contaminants in AP-MS/MS experiments
-
Lavallee-Adam, M.; Cloutier, P.; Coulombe, B.; Blanchette, M. Modeling contaminants in AP-MS/MS experiments J. Proteome Res. 2011, 10, 886-895 10.1021/pr100795z
-
(2011)
J. Proteome Res.
, vol.10
, pp. 886-895
-
-
Lavallee-Adam, M.1
Cloutier, P.2
Coulombe, B.3
Blanchette, M.4
-
15
-
-
84859620713
-
SAINT-MS1: Protein-protein interaction scoring using label-free intensity data in affinity purification-mass spectrometry experiments
-
Choi, H.; Glatter, T.; Gstaiger, M.; Nesvizhskii, A. I. SAINT-MS1: protein-protein interaction scoring using label-free intensity data in affinity purification-mass spectrometry experiments J. Proteome Res. 2012, 11, 2619-2624 10.1021/pr201185r
-
(2012)
J. Proteome Res.
, vol.11
, pp. 2619-2624
-
-
Choi, H.1
Glatter, T.2
Gstaiger, M.3
Nesvizhskii, A.I.4
-
16
-
-
84897085529
-
SAINTexpress: Improvements and additional features in Significance Analysis of INTeractome software
-
Teo, G. et al. SAINTexpress: improvements and additional features in Significance Analysis of INTeractome software J. Proteomics 2014, 100, 37-43 10.1016/j.jprot.2013.10.023
-
(2014)
J. Proteomics
, vol.100
, pp. 37-43
-
-
Teo, G.1
-
17
-
-
0036529479
-
An efficient algorithm for large-scale detection of protein families
-
Enright, A. J.; Van Dongen, S.; Ouzounis, C. A. An efficient algorithm for large-scale detection of protein families Nucleic Acids Res. 2002, 30, 1575-1584 10.1093/nar/30.7.1575
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 1575-1584
-
-
Enright, A.J.1
Van Dongen, S.2
Ouzounis, C.A.3
-
18
-
-
33644555054
-
Proteome survey reveals modularity of the yeast cell machinery
-
Gavin, A. C. et al. Proteome survey reveals modularity of the yeast cell machinery Nature 2006, 440, 631-636 10.1038/nature04532
-
(2006)
Nature
, vol.440
, pp. 631-636
-
-
Gavin, A.C.1
-
19
-
-
34147121646
-
Toward a comprehensive atlas of the physical interactome of Saccharomyces cerevisiae
-
Collins, S. R. et al. Toward a comprehensive atlas of the physical interactome of Saccharomyces cerevisiae Mol. Cell. Proteomics 2007, 6, 439-450 10.1074/mcp.M600381-MCP200
-
(2007)
Mol. Cell. Proteomics
, vol.6
, pp. 439-450
-
-
Collins, S.R.1
-
20
-
-
80155171417
-
A protein complex network of Drosophila melanogaster
-
Guruharsha, K. G. et al. A protein complex network of Drosophila melanogaster Cell 2011, 147, 690-703 10.1016/j.cell.2011.08.047
-
(2011)
Cell
, vol.147
, pp. 690-703
-
-
Guruharsha, K.G.1
-
21
-
-
68449101067
-
Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt
-
Durinck, S.; Spellman, P. T.; Birney, E.; Huber, W. Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt Nat. Protoc. 2009, 4, 1184-1191 10.1038/nprot.2009.97
-
(2009)
Nat. Protoc.
, vol.4
, pp. 1184-1191
-
-
Durinck, S.1
Spellman, P.T.2
Birney, E.3
Huber, W.4
-
22
-
-
44349113144
-
Estimating the size of the human interactome
-
Stumpf, M. P. et al. Estimating the size of the human interactome Proc. Natl. Acad. Sci. U. S. A. 2008, 105, 6959-6964 10.1073/pnas.0708078105
-
(2008)
Proc. Natl. Acad. Sci. U. S. A.
, vol.105
, pp. 6959-6964
-
-
Stumpf, M.P.1
|