-
1
-
-
84861860481
-
Targeted data extraction of the ms/ms spectra generated by data-independent acquisition: A new concept for consistent and accurate proteome analysis
-
doi:10.1074/mcp.O111.016717
-
Gillet, L.C.; Navarro, P.; Tate, S.; Rost, H.; Selevsek, N.; Reiter, L.; Bonner, R.; Aebersold, R. Targeted data extraction of the ms/ms spectra generated by data-independent acquisition: A new concept for consistent and accurate proteome analysis. Mol. Cell Proteomics 2012, 11, doi:10.1074/mcp.O111.016717.
-
(2012)
Mol. Cell Proteomics
, vol.11
-
-
Gillet, L.C.1
Navarro, P.2
Tate, S.3
Rost, H.4
Selevsek, N.5
Reiter, L.6
Bonner, R.7
Aebersold, R.8
-
2
-
-
31644446949
-
Absolute quantification of proteins by lcmse: A virtue of parallel ms acquisition
-
Silva, J.C.; Gorenstein, M.V.; Li, G.Z.; Vissers, J.P.; Geromanos, S.J. Absolute quantification of proteins by lcmse: A virtue of parallel ms acquisition. Mol. Cell Proteomics 2006, 5, 144-156.
-
(2006)
Mol. Cell Proteomics
, vol.5
, pp. 144-156
-
-
Silva, J.C.1
Gorenstein, M.V.2
Li, G.Z.3
Vissers, J.P.4
Geromanos, S.J.5
-
3
-
-
84896400808
-
Computational proteomics: Designing a comprehensive analytical strategy
-
doi:10.1016/j.drudis.2013.07.008
-
Goh, W.W.; Wong, L. Computational proteomics: Designing a comprehensive analytical strategy. Drug Discov. Today 2013, doi:10.1016/j.drudis.2013.07.008.
-
(2013)
Drug Discov. Today
-
-
Goh, W.W.1
Wong, L.2
-
4
-
-
63049138916
-
Database searching and accounting of multiplexed precursor and product ion spectra from the data independent analysis of simple and complex peptide mixtures
-
Li, G.Z.; Vissers, J.P.; Silva, J.C.; Golick, D.; Gorenstein, M.V.; Geromanos, S.J. Database searching and accounting of multiplexed precursor and product ion spectra from the data independent analysis of simple and complex peptide mixtures. Proteomics 2009, 9, 1696-1719.
-
(2009)
Proteomics
, vol.9
, pp. 1696-1719
-
-
Li, G.Z.1
Vissers, J.P.2
Silva, J.C.3
Golick, D.4
Gorenstein, M.V.5
Geromanos, S.J.6
-
5
-
-
41649119247
-
Protein networks in disease
-
Ideker, T.; Sharan, R. Protein networks in disease. Genome Res. 2008, 18, 644-652.
-
(2008)
Genome Res.
, vol.18
, pp. 644-652
-
-
Ideker, T.1
Sharan, R.2
-
6
-
-
27344435774
-
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
-
Subramanian, A.; Tamayo, P.; Mootha, V.K.; Mukherjee, S.; Ebert, B.L.; Gillette, M.A.; Paulovich, A.; Pomeroy, S.L.; Golub, T.R.; Lander, E.S.; Mesirov, J.P. Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl. Acad. Sci. USA 2005, 102, 15545-15550.
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, pp. 15545-15550
-
-
Subramanian, A.1
Tamayo, P.2
Mootha, V.K.3
Mukherjee, S.4
Ebert, B.L.5
Gillette, M.A.6
Paulovich, A.7
Pomeroy, S.L.8
Golub, T.R.9
Lander, E.S.10
Mesirov, J.P.11
-
8
-
-
84857863460
-
Finding consistent disease subnetworks across microarray datasets
-
Soh, D.; Dong, D.; Guo, Y.; Wong, L. Finding consistent disease subnetworks across microarray datasets. BMC Bioinformatics 2011, 12, S15.
-
(2011)
BMC Bioinformatics
, vol.12
-
-
Soh, D.1
Dong, D.2
Guo, Y.3
Wong, L.4
-
9
-
-
35448933289
-
Molecular networks in microarray analysis
-
Sivachenko, A.Y.; Yuryev, A.; Daraselia, N.; Mazo, I. Molecular networks in microarray analysis. J. Bioinform. Comput. Biol. 2007, 5, 429-456.
-
(2007)
J. Bioinform. Comput. Biol.
, vol.5
, pp. 429-456
-
-
Sivachenko, A.Y.1
Yuryev, A.2
Daraselia, N.3
Mazo, I.4
-
10
-
-
84859242507
-
How advancement in biological network analysis methods empowers proteomics
-
Goh, W.W.; Lee, Y.H.; Chung, M.; Wong, L. How advancement in biological network analysis methods empowers proteomics. Proteomics 2012, 12, 550-563.
-
(2012)
Proteomics
, vol.12
, pp. 550-563
-
-
Goh, W.W.1
Lee, Y.H.2
Chung, M.3
Wong, L.4
-
11
-
-
84877125254
-
Comparative network-based recovery analysis and proteomic profiling of neurological changes in valproic acid-treated mice
-
Goh, W.W.; Sergot, M.J.; Sng, J.C.; Wong, L. Comparative network-based recovery analysis and proteomic profiling of neurological changes in valproic acid-treated mice. J. Proteome Res. 2013, 12, 2116-2127.
-
(2013)
J. Proteome Res.
, vol.12
, pp. 2116-2127
-
-
Goh, W.W.1
Sergot, M.J.2
Sng, J.C.3
Wong, L.4
-
12
-
-
77949676526
-
A guided tour of the trans-proteomic pipeline
-
Deutsch, E.W.; Mendoza, L.; Shteynberg, D.; Farrah, T.; Lam, H.; Tasman, N.; Sun, Z.; Nilsson, E.; Pratt, B.; Prazen, B.; Eng, J.K.; Martin, D.B.; Nesvizhskii, A.I.; Aebersold, R. A guided tour of the trans-proteomic pipeline. Proteomics 2010, 10, 1150-1159.
-
(2010)
Proteomics
, vol.10
, pp. 1150-1159
-
-
Deutsch, E.W.1
Mendoza, L.2
Shteynberg, D.3
Farrah, T.4
Lam, H.5
Tasman, N.6
Sun, Z.7
Nilsson, E.8
Pratt, B.9
Prazen, B.10
Eng, J.K.11
Martin, D.B.12
Nesvizhskii, A.I.13
Aebersold, R.14
-
13
-
-
79954562400
-
Proteomics to go: Proteomatic enables the user-friendly creation of versatile ms/ms data evaluation workflows
-
Specht, M.; Kuhlgert, S.; Fufezan, C.; Hippler, M. Proteomics to go: Proteomatic enables the user-friendly creation of versatile ms/ms data evaluation workflows. Bioinformatics 2011, 27, 1183-1184.
-
(2011)
Bioinformatics
, vol.27
, pp. 1183-1184
-
-
Specht, M.1
Kuhlgert, S.2
Fufezan, C.3
Hippler, M.4
-
14
-
-
42249108173
-
Openms-An open-source software framework for mass spectrometry
-
Sturm, M.; Bertsch, A.; Gropl, C.; Hildebrandt, A.; Hussong, R.; Lange, E.; Pfeifer, N.; Schulz-Trieglaff, O.; Zerck, A.; Reinert, K.; Kohlbacher, O. Openms-An open-source software framework for mass spectrometry. BMC Bioinformatics 2008, 9, 163.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 163
-
-
Sturm, M.1
Bertsch, A.2
Gropl, C.3
Hildebrandt, A.4
Hussong, R.5
Lange, E.6
Pfeifer, N.7
Schulz-Trieglaff, O.8
Zerck, A.9
Reinert, K.10
Kohlbacher, O.11
-
15
-
-
54949129419
-
Proteowizard: Open source software for rapid proteomics tools development
-
Kessner, D.; Chambers, M.; Burke, R.; Agus, D.; Mallick, P. Proteowizard: Open source software for rapid proteomics tools development. Bioinformatics 2008, 24, 2534-2536.
-
(2008)
Bioinformatics
, vol.24
, pp. 2534-2536
-
-
Kessner, D.1
Chambers, M.2
Burke, R.3
Agus, D.4
Mallick, P.5
-
16
-
-
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, 5383-5392.
-
(2002)
Anal. Chem.
, vol.74
, pp. 5383-5392
-
-
Keller, A.1
Nesvizhskii, A.I.2
Kolker, E.3
Aebersold, R.4
-
17
-
-
7044246160
-
Open mass spectrometry search algorithm
-
Geer, L.Y.; Markey, S.P.; Kowalak, J.A.; Wagner, L.; Xu, M.; Maynard, D.M.; Yang, X.; Shi, W.; Bryant, S.H. Open mass spectrometry search algorithm. J. Proteome Res. 2004, 3, 958-964.
-
(2004)
J. Proteome Res.
, vol.3
, pp. 958-964
-
-
Geer, L.Y.1
Markey, S.P.2
Kowalak, J.A.3
Wagner, L.4
Xu, M.5
Maynard, D.M.6
Yang, X.7
Shi, W.8
Bryant, S.H.9
-
18
-
-
0141989734
-
Peaks: Powerful software for peptide de novo sequencing by tandem mass spectrometry
-
Ma, B.; Zhang, K.; Hendrie, C.; Liang, C.; Li, M.; Doherty-Kirby, A.; Lajoie, G. Peaks: Powerful software for peptide de novo sequencing by tandem mass spectrometry. Rapid Commun. Mass. Spectrom. 2003, 17, 2337-2342.
-
(2003)
Rapid Commun. Mass. Spectrom.
, vol.17
, pp. 2337-2342
-
-
Ma, B.1
Zhang, K.2
Hendrie, C.3
Liang, C.4
Li, M.5
Doherty-Kirby, A.6
Lajoie, G.7
-
19
-
-
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, 3551-3567.
-
(1999)
Electrophoresis
, vol.20
, pp. 3551-3567
-
-
Perkins, D.N.1
Pappin, D.J.2
Creasy, D.M.3
Cottrell, J.S.4
-
20
-
-
3142702204
-
Tandem: Matching proteins with tandem mass spectra
-
Craig, R.; Beavis, R.C. Tandem: Matching proteins with tandem mass spectra. Bioinformatics 2004, 20, 1466-1467.
-
(2004)
Bioinformatics
, vol.20
, pp. 1466-1467
-
-
Craig, R.1
Beavis, R.C.2
-
21
-
-
84875928072
-
An automated pipeline for high-throughput label-free quantitative proteomics
-
Weisser, H.; Nahnsen, S.; Grossmann, J.; Nilse, L.; Quandt, A.; Brauer, H.; Sturm, M.; Kenar, E.; Kohlbacher, O.; Aebersold, R.; Malmstrom, L. An automated pipeline for high-throughput label-free quantitative proteomics. J. Proteome Res. 2013, 12, 1628-1644.
-
(2013)
J. Proteome Res.
, vol.12
, pp. 1628-1644
-
-
Weisser, H.1
Nahnsen, S.2
Grossmann, J.3
Nilse, L.4
Quandt, A.5
Brauer, H.6
Sturm, M.7
Kenar, E.8
Kohlbacher, O.9
Aebersold, R.10
Malmstrom, L.11
-
22
-
-
34250722602
-
Multiple reaction monitoring for robust quantitative proteomic analysis of cellular signaling networks
-
Wolf-Yadlin, A.; Hautaniemi, S.; Lauffenburger, D.A.; White, F.M. Multiple reaction monitoring for robust quantitative proteomic analysis of cellular signaling networks. Proc. Natl. Acad. Sci. USA 2007, 104, 5860-5865.
-
(2007)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 5860-5865
-
-
Wolf-Yadlin, A.1
Hautaniemi, S.2
Lauffenburger, D.A.3
White, F.M.4
-
23
-
-
33748520872
-
Review: A gentle introduction to imputation of missing values
-
Donders, A.R.; van der Heijden, G.J.; Stijnen, T.; Moons, K.G. Review: A gentle introduction to imputation of missing values. J. Clin. Epidemiol. 2006, 59, 1087-1091.
-
(2006)
J. Clin. Epidemiol.
, vol.59
, pp. 1087-1091
-
-
Donders, A.R.1
van der Heijden, G.J.2
Stijnen, T.3
Moons, K.G.4
-
24
-
-
84878053091
-
Normalization and missing value imputation for label-free lc-ms analysis
-
Karpievitch, Y.V.; Dabney, A.R.; Smith, R.D. Normalization and missing value imputation for label-free lc-ms analysis. BMC Bioinformatics 2012, 13, S5.
-
(2012)
BMC Bioinformatics
, vol.13
-
-
Karpievitch, Y.V.1
Dabney, A.R.2
Smith, R.D.3
-
25
-
-
77950949307
-
Dealing with missing values in large-scale studies: Microarray data imputation and beyond
-
Aittokallio, T. Dealing with missing values in large-scale studies: Microarray data imputation and beyond. Brief. Bioinform. 2010, 11, 253-264.
-
(2010)
Brief. Bioinform.
, vol.11
, pp. 253-264
-
-
Aittokallio, T.1
-
26
-
-
68549137863
-
A statistical framework for protein quantitation in bottom-up ms-based proteomics
-
Karpievitch, Y.; Stanley, J.; Taverner, T.; Huang, J.; Adkins, J.N.; Ansong, C.; Heffron, F.; Metz, T.O.; Qian, W.J.; Yoon, H.; Smith, R.D.; Dabney, A.R. A statistical framework for protein quantitation in bottom-up ms-based proteomics. Bioinformatics 2009, 25, 2028-2034.
-
(2009)
Bioinformatics
, vol.25
, pp. 2028-2034
-
-
Karpievitch, Y.1
Stanley, J.2
Taverner, T.3
Huang, J.4
Adkins, J.N.5
Ansong, C.6
Heffron, F.7
Metz, T.O.8
Qian, W.J.9
Yoon, H.10
Smith, R.D.11
Dabney, A.R.12
-
27
-
-
84864607976
-
Strategy for srm-based verification of biomarker candidates discovered by itraq method in limited breast cancer tissue samples
-
Muraoka, S.; Kume, H.; Watanabe, S.; Adachi, J.; Kuwano, M.; Sato, M.; Kawasaki, N.; Kodera, Y.; Ishitobi, M.; Inaji, H.; et al. Strategy for srm-based verification of biomarker candidates discovered by itraq method in limited breast cancer tissue samples. J. Proteome Res. 2012, 11, 4201-4210.
-
(2012)
J. Proteome Res.
, vol.11
, pp. 4201-4210
-
-
Muraoka, S.1
Kume, H.2
Watanabe, S.3
Adachi, J.4
Kuwano, M.5
Sato, M.6
Kawasaki, N.7
Kodera, Y.8
Ishitobi, M.9
Inaji, H.10
-
28
-
-
84872184001
-
Enhancing the utility of proteomics signature profiling (psp) with pathway derived subnets (pdss), performance analysis and specialised ontologies
-
Goh, W.W.; Fan, M.; Low, H.S.; Sergot, M.; Wong, L. Enhancing the utility of proteomics signature profiling (psp) with pathway derived subnets (pdss), performance analysis and specialised ontologies. BMC Genomics 2013, 14, 35.
-
(2013)
BMC Genomics
, vol.14
, pp. 35
-
-
Goh, W.W.1
Fan, M.2
Low, H.S.3
Sergot, M.4
Wong, L.5
-
29
-
-
84863260908
-
Proteomics signature profiling (psp): A novel contextualization approach for cancer proteomics
-
Goh, W.W.; Lee, Y.H.; Ramdzan, Z.M.; Sergot, M.J.; Chung, M.; Wong, L. Proteomics signature profiling (psp): A novel contextualization approach for cancer proteomics. J. Proteome Res. 2012, 11, 1571-1581.
-
(2012)
J. Proteome Res.
, vol.11
, pp. 1571-1581
-
-
Goh, W.W.1
Lee, Y.H.2
Ramdzan, Z.M.3
Sergot, M.J.4
Chung, M.5
Wong, L.6
-
30
-
-
79952309062
-
Quality assessments of peptide-spectrum matches in shotgun proteomics
-
Granholm, V.; Kall, L. Quality assessments of peptide-spectrum matches in shotgun proteomics. Proteomics 2011, 11, 1086-1093.
-
(2011)
Proteomics
, vol.11
, pp. 1086-1093
-
-
Granholm, V.1
Kall, L.2
-
31
-
-
82755181910
-
Analysis of the resolution limitations of peptide identification algorithms
-
Colaert, N.; Degroeve, S.; Helsens, K.; Martens, L. Analysis of the resolution limitations of peptide identification algorithms. J. Proteome Res. 2011, 10, 5555-5561.
-
(2011)
J. Proteome Res.
, vol.10
, pp. 5555-5561
-
-
Colaert, N.1
Degroeve, S.2
Helsens, K.3
Martens, L.4
-
32
-
-
84890105363
-
Mspire-simulator: Lc-ms shotgun proteomic simulator for creating realistic gold standard data
-
Noyce, A.B.; Smith, R.; Dalgleish, J.; Taylor, R.M.; Erb, K.C.; Okuda, N.; Prince, J.T. Mspire-simulator: Lc-ms shotgun proteomic simulator for creating realistic gold standard data. J. Proteome Res. 2013.
-
(2013)
J. Proteome Res.
-
-
Noyce, A.B.1
Smith, R.2
Dalgleish, J.3
Taylor, R.M.4
Erb, K.C.5
Okuda, N.6
Prince, J.T.7
-
33
-
-
35748972060
-
Semi-supervised learning for peptide identification from shotgun proteomics datasets
-
Kall, L.; Canterbury, J.D.; Weston, J.; Noble, W.S.; MacCoss, M.J. Semi-supervised learning for peptide identification from shotgun proteomics datasets. Nat. Methods 2007, 4, 923-925.
-
(2007)
Nat. Methods
, vol.4
, pp. 923-925
-
-
Kall, L.1
Canterbury, J.D.2
Weston, J.3
Noble, W.S.4
McCoss, M.J.5
-
34
-
-
84883805454
-
Assessment and improvement of statistical tools for comparative proteomics analysis of sparse data sets with few experimental replicates
-
Schwammle, V.; Leon, I.R.; Jensen, O.N. Assessment and improvement of statistical tools for comparative proteomics analysis of sparse data sets with few experimental replicates. J. Proteome Res. 2013, 12, 3874-3883.
-
(2013)
J. Proteome Res.
, vol.12
, pp. 3874-3883
-
-
Schwammle, V.1
Leon, I.R.2
Jensen, O.N.3
-
35
-
-
79955797347
-
Network-based pipeline for analyzing ms data: An application toward liver cancer
-
Goh, W.W.; Lee, Y.H.; Zubaidah, R.M.; Jin, J.; Dong, D.; Lin, Q.; Chung, M.C.; Wong, L. Network-based pipeline for analyzing ms data: An application toward liver cancer. J. Proteome Res. 2011, 10, 2261-2272.
-
(2011)
J. Proteome Res.
, vol.10
, pp. 2261-2272
-
-
Goh, W.W.1
Lee, Y.H.2
Zubaidah, R.M.3
Jin, J.4
Dong, D.5
Lin, Q.6
Chung, M.C.7
Wong, L.8
-
36
-
-
84887625418
-
Networks in proteomics analysis of cancer
-
Goh, W.W.; Wong, L. Networks in proteomics analysis of cancer. Curr. Opin. Biotechnol. 2013, 24, 1122-1128.
-
(2013)
Curr. Opin. Biotechnol.
, vol.24
, pp. 1122-1128
-
-
Goh, W.W.1
Wong, L.2
-
38
-
-
79960245388
-
Selected reaction monitoring mass spectrometry reveals the dynamics of signaling through the grb2 adaptor
-
Bisson, N.; James, D.A.; Ivosev, G.; Tate, S.A.; Bonner, R.; Taylor, L.; Pawson, T. Selected reaction monitoring mass spectrometry reveals the dynamics of signaling through the grb2 adaptor. Nat. Biotechnol. 2011, 29, 653-658.
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 653-658
-
-
Bisson, N.1
James, D.A.2
Ivosev, G.3
Tate, S.A.4
Bonner, R.5
Taylor, L.6
Pawson, T.7
-
39
-
-
84888858053
-
Quantifying protein interaction dynamics by swath mass spectrometry: Application to the 14-3-3 system
-
Collins, B.C.; Gillet, L.C.; Rosenberger, G.; Rost, H.L.; Vichalkovski, A.; Gstaiger, M.; Aebersold, R. Quantifying protein interaction dynamics by swath mass spectrometry: Application to the 14-3-3 system. Nat. Methods 2013, 10, 1246-1253.
-
(2013)
Nat. Methods
, vol.10
, pp. 1246-1253
-
-
Collins, B.C.1
Gillet, L.C.2
Rosenberger, G.3
Rost, H.L.4
Vichalkovski, A.5
Gstaiger, M.6
Aebersold, R.7
-
40
-
-
84875609301
-
Spinal: Scalable protein interaction network alignment
-
Aladag, A.E.; Erten, C. Spinal: Scalable protein interaction network alignment. Bioinformatics 2013, 29, 917-924.
-
(2013)
Bioinformatics
, vol.29
, pp. 917-924
-
-
Aladag, A.E.1
Erten, C.2
-
41
-
-
84860471091
-
Pinalog: A novel approach to align protein interaction networks-Implications for complex detection and function prediction
-
Phan, H.T.; Sternberg, M.J. Pinalog: A novel approach to align protein interaction networks-Implications for complex detection and function prediction. Bioinformatics 2012, 28, 1239-1245.
-
(2012)
Bioinformatics
, vol.28
, pp. 1239-1245
-
-
Phan, H.T.1
Sternberg, M.J.2
-
42
-
-
33645830948
-
Cfinder: Locating cliques and overlapping modules in biological networks
-
Adamcsek, B.; Palla, G.; Farkas, I.J.; Derenyi, I.; Vicsek, T. Cfinder: Locating cliques and overlapping modules in biological networks. Bioinformatics 2006, 22, 1021-1023.
-
(2006)
Bioinformatics
, vol.22
, pp. 1021-1023
-
-
Adamcsek, B.1
Palla, G.2
Farkas, I.J.3
Derenyi, I.4
Vicsek, T.5
-
43
-
-
84860361165
-
Detecting overlapping protein complexes in protein-protein interaction networks
-
Nepusz, T.; Yu, H.; Paccanaro, A. Detecting overlapping protein complexes in protein-protein interaction networks. Nat. Methods 2012, 9, 471-472.
-
(2012)
Nat. Methods
, vol.9
, pp. 471-472
-
-
Nepusz, T.1
Yu, H.2
Paccanaro, A.3
-
44
-
-
84878651307
-
Supervised maximum-likelihood weighting of composite protein networks for complex prediction
-
Yong, C.H.; Liu, G.; Chua, H.N.; Wong, L. Supervised maximum-likelihood weighting of composite protein networks for complex prediction. BMC Syst. Biol. 2012, 6, S13.
-
(2012)
BMC Syst. Biol.
, vol.6
-
-
Yong, C.H.1
Liu, G.2
Chua, H.N.3
Wong, L.4
-
45
-
-
77956584005
-
Protein complex prediction based on k-connected subgraphs in protein interaction network
-
Habibi, M.; Eslahchi, C.; Wong, L. Protein complex prediction based on k-connected subgraphs in protein interaction network. BMC Syst. Biol. 2010, 4, 129.
-
(2010)
BMC Syst. Biol.
, vol.4
, pp. 129
-
-
Habibi, M.1
Eslahchi, C.2
Wong, L.3
-
46
-
-
80054045210
-
Decomposing ppi networks for complex discovery
-
Liu, G.; Yong, C.H.; Chua, H.N.; Wong, L. Decomposing ppi networks for complex discovery. Proteome Sci. 2011, 9, S15.
-
(2011)
Proteome Sci.
, vol.9
-
-
Liu, G.1
Yong, C.H.2
Chua, H.N.3
Wong, L.4
-
47
-
-
77949503577
-
Protein complex prediction based on simultaneous protein interaction network
-
Jung, S.H.; Hyun, B.; Jang, W.H.; Hur, H.Y.; Han, D.S. Protein complex prediction based on simultaneous protein interaction network. Bioinformatics 2010, 26, 385-391.
-
(2010)
Bioinformatics
, vol.26
, pp. 385-391
-
-
Jung, S.H.1
Hyun, B.2
Jang, W.H.3
Hur, H.Y.4
Han, D.S.5
-
48
-
-
75549091794
-
Corum: The comprehensive resource of mammalian protein complexes-2009
-
Ruepp, A.; Waegele, B.; Lechner, M.; Brauner, B.; Dunger-Kaltenbach, I.; Fobo, G.; Frishman, G.; Montrone, C.; Mewes, H.W. Corum: The comprehensive resource of mammalian protein complexes-2009. Nucleic Acids Res. 2010, 38, D497-D501.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Ruepp, A.1
Waegele, B.2
Lechner, M.3
Brauner, B.4
Dunger-Kaltenbach, I.5
Fobo, G.6
Frishman, G.7
Montrone, C.8
Mewes, H.W.9
-
49
-
-
20144387067
-
The mips mammalian protein-protein interaction database
-
Pagel, P.; Kovac, S.; Oesterheld, M.; Brauner, B.; Dunger-Kaltenbach, I.; Frishman, G.; Montrone, C.; Mark, P.; Stumpflen, V.; Mewes, H.W.; Ruepp, A.; Frishman, D. The mips mammalian protein-protein interaction database. Bioinformatics 2005, 21, 832-834.
-
(2005)
Bioinformatics
, vol.21
, pp. 832-834
-
-
Pagel, P.1
Kovac, S.2
Oesterheld, M.3
Brauner, B.4
Dunger-Kaltenbach, I.5
Frishman, G.6
Montrone, C.7
Mark, P.8
Stumpflen, V.9
Mewes, H.W.10
Ruepp, A.11
Frishman, D.12
-
50
-
-
0034069495
-
Gene ontology: Tool for the unification of biology. The gene ontology consortium
-
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.; et al. Gene ontology: Tool for the unification of biology. The gene ontology consortium. Nat. Genet. 2000, 25, 25-29.
-
(2000)
Nat. Genet.
, vol.25
, 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
-
51
-
-
75549085083
-
Human protein reference database and human proteinpedia as discovery tools for systems biology
-
Prasad, T.S.; Kandasamy, K.; Pandey, A. Human protein reference database and human proteinpedia as discovery tools for systems biology. Methods Mol. Biol. 2009, 577, 67-79.
-
(2009)
Methods Mol. Biol.
, vol.577
, pp. 67-79
-
-
Prasad, T.S.1
Kandasamy, K.2
Pandey, A.3
-
52
-
-
3142687604
-
Pindb: A database of nuclear protein complexes from human and yeast
-
Luc, P.V.; Tempst, P. Pindb: A database of nuclear protein complexes from human and yeast. Bioinformatics 2004, 20, 1413-1415.
-
(2004)
Bioinformatics
, vol.20
, pp. 1413-1415
-
-
Luc, P.V.1
Tempst, P.2
-
53
-
-
84873533301
-
Benchmarking human protein complexes to investigate drug-related systems and evaluate predicted protein complexes
-
Wu, M.; Yu, Q.; Li, X.; Zheng, J.; Huang, J.F.; Kwoh, C.K. Benchmarking human protein complexes to investigate drug-related systems and evaluate predicted protein complexes. PLoS One 2013, 8, e53197.
-
(2013)
PLoS One
, vol.8
-
-
Wu, M.1
Yu, Q.2
Li, X.3
Zheng, J.4
Huang, J.F.5
Kwoh, C.K.6
|