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Volumn 2013, Issue , 2013, Pages

Construction of protein phosphorylation networks by data mining, text mining and ontology integration: Analysis of the spindle checkpoint

Author keywords

[No Author keywords available]

Indexed keywords

BUB1 SPINDLE CHECKPOINT PROTEIN; PHOSPHOPROTEIN; PROTEIN; PROTEIN SERINE THREONINE KINASE; SACCHAROMYCES CEREVISIAE PROTEIN;

EID: 84885901201     PISSN: 17580463     EISSN: None     Source Type: Journal    
DOI: 10.1093/database/bat038     Document Type: Article
Times cited : (15)

References (43)
  • 1
    • 80054758730 scopus 로고    scopus 로고
    • Mutual regulation between the spindle checkpoint and APC/C
    • Kim,S. and Yu,H. (2011) Mutual regulation between the spindle checkpoint and APC/C. Semin. Cell Dev. Biol., 22, 551-558.
    • (2011) Semin. Cell Dev. Biol. , vol.22 , pp. 551-558
    • Kim, S.1    Yu, H.2
  • 2
    • 34247333444 scopus 로고    scopus 로고
    • The spindle-assembly checkpoint in space and time
    • Musacchio,A. and Salmon,E.D. (2007) The spindle-assembly checkpoint in space and time. Nat. Rev. Mol. Cell Biol., 8, 379-393.
    • (2007) Nat. Rev. Mol. Cell Biol. , vol.8 , pp. 379-393
    • Musacchio, A.1    Salmon, E.D.2
  • 3
    • 73649145890 scopus 로고    scopus 로고
    • Getting down to the phosphorylated 'nuts and bolts' of spindle checkpoint signalling
    • Zich,J. and Hardwick,K.G. (2010) Getting down to the phosphorylated 'nuts and bolts' of spindle checkpoint signalling. Trends Biochem. Sci., 35, 18-27.
    • (2010) Trends Biochem. Sci. , vol.35 , pp. 18-27
    • Zich, J.1    Hardwick, K.G.2
  • 4
    • 77951952612 scopus 로고    scopus 로고
    • Aurora B phosphorylates spatially distinct targets to differentially regulate the kinetochore-microtubule interface
    • Welburn,J.P., Vleugel,M., Liu,D. et al. (2010) Aurora B phosphorylates spatially distinct targets to differentially regulate the kinetochore- microtubule interface. Mol. Cell, 38, 383-392.
    • (2010) Mol. Cell , vol.38 , pp. 383-392
    • Welburn, J.P.1    Vleugel, M.2    Liu, D.3
  • 5
    • 84862131533 scopus 로고    scopus 로고
    • The vertebrate mitotic checkpoint protein BUBR1 is an unusual pseudokinase
    • Suijkerbuijk,S.J., van Dam,T.J., Karagoz,G.E. et al. (2012) The vertebrate mitotic checkpoint protein BUBR1 is an unusual pseudokinase. Dev. Cell, 22, 1321-1329.
    • (2012) Dev. Cell , vol.22 , pp. 1321-1329
    • Suijkerbuijk, S.J.1    Van Dam, T.J.2    Karagoz, G.E.3
  • 6
    • 77649183891 scopus 로고    scopus 로고
    • MST1 limits the kinase activity of aurora B to promote stable kinetochore-microtubule attachment
    • Oh,H.J., Kim,M.J., Song,S.J. et al. (2010) MST1 limits the kinase activity of aurora B to promote stable kinetochore-microtubule attachment. Curr. Biol., 20, 416-422.
    • (2010) Curr. Biol. , vol.20 , pp. 416-422
    • Oh, H.J.1    Kim, M.J.2    Song, S.J.3
  • 7
    • 78651286167 scopus 로고    scopus 로고
    • The Protein Ontology: A structured representation of protein forms and complexes
    • Natale,D.A., Arighi,C.N., Barker,W.C. et al. (2011) The Protein Ontology: a structured representation of protein forms and complexes. Nucleic Acids Res., 39, D539-D545.
    • (2011) Nucleic Acids Res. , vol.39
    • Natale, D.A.1    Arighi, C.N.2    Barker, W.C.3
  • 8
    • 79551587720 scopus 로고    scopus 로고
    • Cytoscape 2.8: New features for data integration and network visualization
    • Smoot,M.E., Ono,K., Ruscheinski,J. et al. (2011) Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics, 27, 431-432.
    • (2011) Bioinformatics , vol.27 , pp. 431-432
    • Smoot, M.E.1    Ono, K.2    Ruscheinski, J.3
  • 9
    • 78651320816 scopus 로고    scopus 로고
    • Phospho.ELM: A database of phosphorylation sites - Update 2011
    • Dinkel,H., Chica,C., Via,A. et al. (2011) Phospho.ELM: a database of phosphorylation sites - update 2011. Nucleic Acids Res., 39, D261-D267.
    • (2011) Nucleic Acids Res. , vol.39
    • Dinkel, H.1    Chica, C.2    Via, A.3
  • 10
    • 84857047339 scopus 로고    scopus 로고
    • PhosphoSitePlus: A comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse
    • Hornbeck,P.V., Kornhauser,J.M., Tkachev,S. et al. (2012) PhosphoSitePlus: a comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse. Nucleic Acids Res., 40, D261-D270.
    • (2012) Nucleic Acids Res. , vol.40
    • Hornbeck, P.V.1    Kornhauser, J.M.2    Tkachev, S.3
  • 12
    • 84880736827 scopus 로고    scopus 로고
    • PhosphoGRID: A database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae
    • Stark,C., Su,T.C., Breitkreutz,A. et al. (2010) PhosphoGRID: a database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae. Database, 10, 28.
    • (2010) Database , vol.10 , pp. 28
    • Stark, C.1    Su, T.C.2    Breitkreutz, A.3
  • 13
    • 84876472005 scopus 로고    scopus 로고
    • P(3)DB: An integrated database for plant protein phosphorylation
    • Yao,Q., Bollinger,C., Gao,J. et al. (2012) P(3)DB: an integrated database for plant protein phosphorylation. Front. Plant Sci., 3, 206.
    • (2012) Front. Plant Sci. , vol.3 , pp. 206
    • Yao, Q.1    Bollinger, C.2    Gao, J.3
  • 14
    • 75549090366 scopus 로고    scopus 로고
    • PhosPhAt: The Arabidopsis thaliana phosphorylation site database. An update
    • Durek,P., Schmidt,R., Heazlewood,J.L. et al. (2010) PhosPhAt: the Arabidopsis thaliana phosphorylation site database. An update. Nucleic Acids Res., 38, D828-D834.
    • (2010) Nucleic Acids Res. , vol.38
    • Durek, P.1    Schmidt, R.2    Heazlewood, J.L.3
  • 15
    • 84876517560 scopus 로고    scopus 로고
    • PhosPhAt goes kinases - searchable protein kinase target information in the plant phosphorylation site database PhosPhAt
    • Zulawski,M., Braginets,R. and Schulze,W.X. (2013) PhosPhAt goes kinases - searchable protein kinase target information in the plant phosphorylation site database PhosPhAt. Nucleic Acids Res., 41, D1176-D1184.
    • (2013) Nucleic Acids Res. , vol.41
    • Zulawski, M.1    Braginets, R.2    Schulze, W.X.3
  • 16
    • 79960976768 scopus 로고    scopus 로고
    • UniProt Knowledgebase: A hub of integrated protein data
    • doi:10.1093/database/bar009
    • Magrane,M. and Consortium,U. (2011) UniProt Knowledgebase: a hub of integrated protein data. Database, doi:10.1093/database/bar009.
    • (2011) Database
    • Magrane, M.1    Consortium, U.2
  • 17
    • 33745611541 scopus 로고    scopus 로고
    • An online literature mining tool for protein phosphorylation
    • Yuan,X., Hu,Z., Wu,H. et al. (2006) An online literature mining tool for protein phosphorylation. Bioinformatics, 22, 1668-1669.
    • (2006) Bioinformatics , vol.22 , pp. 1668-1669
    • Yuan, X.1    Hu, Z.2    Wu, H.3
  • 18
    • 78651275182 scopus 로고    scopus 로고
    • Reactome: A database of reactions, pathways and biological processes
    • Croft,D., O'Kelly,G., Wu,G. et al. (2011) Reactome: a database of reactions, pathways and biological processes. Nucleic Acids Res., 39, D691-S697.
    • (2011) Nucleic Acids Res. , vol.39
    • Croft, D.1    O'Kelly, G.2    Wu, G.3
  • 19
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: Tool for the unification of biology. The gene ontology consortium
    • Ashburner,M., Ball,C.A., Blake,J.A. et al. (2000) Gene ontology: tool for the unification of biology. The gene ontology consortium. Nat. Genet., 25, 25-29.
    • (2000) Nat. Genet. , vol.25 , pp. 25-29
    • Ashburner, M.1    Ball, C.A.2    Blake, J.A.3
  • 20
    • 58149193234 scopus 로고    scopus 로고
    • STRING 8 - A global view on proteins and their functional interactions in 630 organisms
    • Jensen,L.J., Kuhn,M., Stark,M. et al. (2009) STRING 8 - a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res., 37, D412-S416.
    • (2009) Nucleic Acids Res. , vol.37
    • Jensen, L.J.1    Kuhn, M.2    Stark, M.3
  • 21
    • 20744446607 scopus 로고    scopus 로고
    • Literature mining and database annotation of protein phosphorylation using a rule-based system
    • Hu,Z.Z., Narayanaswamy,M., Ravikumar,K.E. et al. (2005) Literature mining and database annotation of protein phosphorylation using a rule-based system. Bioinformatics, 21, 2759-2765.
    • (2005) Bioinformatics , vol.21 , pp. 2759-2765
    • Hu, Z.Z.1    Narayanaswamy, M.2    Ravikumar, K.E.3
  • 22
    • 79952117912 scopus 로고    scopus 로고
    • A tutorial on protein ontology resources for proteomic studies
    • Arighi,C.N. (2011) A tutorial on protein ontology resources for proteomic studies. Methods Mol. Biol., 694, 77-90.
    • (2011) Methods Mol. Biol. , vol.694 , pp. 77-90
    • Arighi, C.N.1
  • 24
    • 84859204939 scopus 로고    scopus 로고
    • The IntAct molecular interaction database in 2012
    • Kerrien,S., Aranda,B., Breuza,L. et al. (2012) The IntAct molecular interaction database in 2012. Nucleic Acids Res., 40, D841-D846.
    • (2012) Nucleic Acids Res. , vol.40
    • Kerrien, S.1    Aranda, B.2    Breuza, L.3
  • 26
    • 78649506588 scopus 로고    scopus 로고
    • A unified framework for biomedical terminologies and ontologies
    • Ceusters,W. and Smith,B. (2010) A unified framework for biomedical terminologies and ontologies. Stud. Health Technol. Inform., 160, 1050-1054.
    • (2010) Stud. Health Technol. Inform. , vol.160 , pp. 1050-1054
    • Ceusters, W.1    Smith, B.2
  • 27
    • 84874625369 scopus 로고    scopus 로고
    • Proteoform: A single term describing protein complexity
    • Smith,L.M. and Kelleher,N.L. (2013) Proteoform: a single term describing protein complexity. Nat. Methods, 10, 186-187.
    • (2013) Nat. Methods , vol.10 , pp. 186-187
    • Smith, L.M.1    Kelleher, N.L.2
  • 28
    • 80052844300 scopus 로고    scopus 로고
    • The Representation of Protein Complexes in the Protein Ontology (PRO)
    • Bult,C., Drabkin,H., Evsikov,A. et al. (2011) The Representation of Protein Complexes in the Protein Ontology (PRO). BMC Bioinformatics, 12, 371.
    • (2011) BMC Bioinformatics , vol.12 , pp. 371
    • Bult, C.1    Drabkin, H.2    Evsikov, A.3
  • 29
    • 84865790047 scopus 로고    scopus 로고
    • An integrated encyclopedia of DNA elements in the human genome
    • Dunham,I., Kundaje,A., Aldred,S.F. et al. (2012) An integrated encyclopedia of DNA elements in the human genome. Nature, 489, 57-74.
    • (2012) Nature , vol.489 , pp. 57-74
    • Dunham, I.1    Kundaje, A.2    Aldred, S.F.3
  • 30
    • 0036097852 scopus 로고    scopus 로고
    • How many protein-coding genes are there in the Saccharomyces cerevisiae genome?
    • Mackiewicz,P., Kowalczuk,M., Mackiewicz,D. et al. (2002) How many protein-coding genes are there in the Saccharomyces cerevisiae genome? Yeast, 19, 619-629.
    • (2002) Yeast , vol.19 , pp. 619-629
    • Mackiewicz, P.1    Kowalczuk, M.2    Mackiewicz, D.3
  • 31
    • 84874978868 scopus 로고    scopus 로고
    • Top-down structural analysis of posttranslationally modified proteins by Fourier transform ion cyclotron resonance-MS with hydrogen/deuterium exchange and electron capture dissociation
    • Pan,J. and Borchers,C.H. (2013) Top-down structural analysis of posttranslationally modified proteins by Fourier transform ion cyclotron resonance-MS with hydrogen/deuterium exchange and electron capture dissociation. Proteomics, 13, 974-981.
    • (2013) Proteomics , vol.13 , pp. 974-981
    • Pan, J.1    Borchers, C.H.2
  • 32
    • 84871297843 scopus 로고    scopus 로고
    • Next-generation proteomics: Towards an integrative view of proteome dynamics
    • Altelaar,A.F., Munoz,J. and Heck,A.J. (2013) Next-generation proteomics: towards an integrative view of proteome dynamics. Nat. Rev. Genet., 14, 35-48.
    • (2013) Nat. Rev. Genet. , vol.14 , pp. 35-48
    • Altelaar, A.F.1    Munoz, J.2    Heck, A.J.3
  • 33
    • 84860538817 scopus 로고    scopus 로고
    • Beyond the clause: Extraction of phosphorylation information from medline abstracts
    • Narayanaswamy,M., Ravikumar,K.E. and Vijay-Shanker,K. (2005) Beyond the clause: extraction of phosphorylation information from medline abstracts. Bioinformatics, 21, i319-i327.
    • (2005) Bioinformatics , vol.21
    • Narayanaswamy, M.1    Ravikumar, K.E.2    Vijay-Shanker, K.3
  • 34
    • 83055176451 scopus 로고    scopus 로고
    • Mapping intact protein isoforms in discovery mode using top-down proteomics
    • Tran,J.C., Zamdborg,L., Ahlf,D.R. et al. (2011) Mapping intact protein isoforms in discovery mode using top-down proteomics. Nature, 480, 254-258.
    • (2011) Nature , vol.480 , pp. 254-258
    • Tran, J.C.1    Zamdborg, L.2    Ahlf, D.R.3
  • 35
    • 79954517116 scopus 로고    scopus 로고
    • Comparative analysis of Erk phosphorylation suggests a mixed strategy for measuring phospho-form distributions
    • Prabakaran,S., Everley,R.A., Landrieu,I. et al. (2011) Comparative analysis of Erk phosphorylation suggests a mixed strategy for measuring phospho-form distributions. Mol. Syst. Biol., 7, 15.
    • (2011) Mol. Syst. Biol. , vol.7 , pp. 15
    • Prabakaran, S.1    Everley, R.A.2    Landrieu, I.3
  • 36
    • 0032514260 scopus 로고    scopus 로고
    • The human homologue of Bub3 is required for kinetochore localization of Bub1 and a Mad3/Bub1-related protein kinase
    • Taylor,S.S., Ha,E. and McKeon,F. (1998) The human homologue of Bub3 is required for kinetochore localization of Bub1 and a Mad3/Bub1-related protein kinase. J. Cell Biol., 142, 1-11.
    • (1998) J. Cell Biol. , vol.142 , pp. 1-11
    • Taylor, S.S.1    Ha, E.2    McKeon, F.3
  • 37
    • 79960316552 scopus 로고    scopus 로고
    • Bub1 and BubR1: At the Interface between chromosome attachment and the spindle checkpoint
    • Elowe,S. (2011) Bub1 and BubR1: at the Interface between chromosome attachment and the spindle checkpoint. Mol. Cell. Biol., 31, 3085-3093.
    • (2011) Mol. Cell. Biol. , vol.31 , pp. 3085-3093
    • Elowe, S.1
  • 38
    • 0029791321 scopus 로고    scopus 로고
    • Activation of the budding yeast spindle assembly checkpoint without mitotic spindle disruption
    • Hardwick,K.G., Weiss,E., Luca,F.C. et al. (1996) Activation of the budding yeast spindle assembly checkpoint without mitotic spindle disruption. Science, 273, 953-956.
    • (1996) Science , vol.273 , pp. 953-956
    • Hardwick, K.G.1    Weiss, E.2    Luca, F.C.3
  • 39
    • 84863226706 scopus 로고    scopus 로고
    • MPS1/Mph1 phosphorylates the kinetochore protein KNL1/Spc7 to recruit SAC components
    • Yamagishi,Y., Yang,C.H., Tanno,Y. et al. (2012) MPS1/Mph1 phosphorylates the kinetochore protein KNL1/Spc7 to recruit SAC components. Nat. Cell. Biol., 14, 746-752.
    • (2012) Nat. Cell. Biol. , vol.14 , pp. 746-752
    • Yamagishi, Y.1    Yang, C.H.2    Tanno, Y.3
  • 40
    • 84861532305 scopus 로고    scopus 로고
    • Phosphoregulation of Spc105 by Mps1 and PP1 regulates Bub1 localization to kinetochores
    • London,N., Ceto,S., Ranish,J.A. et al. (2012) Phosphoregulation of Spc105 by Mps1 and PP1 regulates Bub1 localization to kinetochores. Curr. Biol., 22, 900-906.
    • (2012) Curr. Biol. , vol.22 , pp. 900-906
    • London, N.1    Ceto, S.2    Ranish, J.A.3
  • 41
    • 84876494115 scopus 로고    scopus 로고
    • The eFIP system for text mining of protein interaction networks of phosphorylated proteins
    • Tudor,C.O., Arighi,C.N., Wang,Q. et al. (2012) The eFIP system for text mining of protein interaction networks of phosphorylated proteins. Database, 5, bas044.
    • (2012) Database , vol.5
    • Tudor, C.O.1    Arighi, C.N.2    Wang, Q.3
  • 42
    • 84864980660 scopus 로고    scopus 로고
    • CENP-E-dependent BubR1 autophosphorylation enhances chromosome alignment and the mitotic checkpoint
    • Guo,Y., Kim,C., Ahmad,S. et al. (2012) CENP-E-dependent BubR1 autophosphorylation enhances chromosome alignment and the mitotic checkpoint. J. Cell Biol., 198, 205-217.
    • (2012) J. Cell Biol. , vol.198 , pp. 205-217
    • Guo, Y.1    Kim, C.2    Ahmad, S.3
  • 43
    • 81055126451 scopus 로고    scopus 로고
    • Systematic phosphorylation analysis of human mitotic protein complexes
    • Hegemann,B., Hutchins,J.R., Hudecz,O. et al. (2011) Systematic phosphorylation analysis of human mitotic protein complexes. Sci. Signal., 4, 2001993.
    • (2011) Sci. Signal. , vol.4 , pp. 2001993
    • Hegemann, B.1    Hutchins, J.R.2    Hudecz, O.3


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