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Volumn , Issue , 2013, Pages 201-210

Text mining of protein phosphorylation information using a generalizable rule-based approach

Author keywords

Biocuration; BionLP; Information extraction; Phosphorylation; Text mining

Indexed keywords

BIOCURATION; BIONLP; INFORMATION EXTRACTION SYSTEMS; NATURAL LANGUAGE PROCESSING; POST-TRANSLATIONAL MODIFICATIONS; PROTEIN PHOSPHORYLATION; SCIENTIFIC LITERATURE; TEXT MINING;

EID: 84888149817     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1145/2506583.2506619     Document Type: Conference Paper
Times cited : (8)

References (38)
  • 1
    • 51049121625 scopus 로고    scopus 로고
    • Text mining for biology the way forward: Opinions from leading scientists
    • 2008
    • Altman, R.B. et al. 2008. Text mining for biology-the way forward: opinions from leading scientists. Genome biology. 9 Suppl 2, (2008), S7.
    • (2008) Genome Biology , vol.9 , Issue.SUPPL. 2
    • Altman, R.B.1
  • 3
    • 80053393894 scopus 로고    scopus 로고
    • BioCreative III interactive task: An overview
    • 2011
    • Arighi, C.N. et al. 2011. BioCreative III interactive task: An overview. BMC bioinformatics. 12 Suppl 8, (2011), S4.
    • (2011) BMC Bioinformatics , vol.12 , Issue.SUPPL. 8
    • Arighi, C.N.1
  • 5
    • 84878105593 scopus 로고    scopus 로고
    • The Functional Genomics Network in the evolution of biological text mining over the past decade
    • Mar. 2013
    • Blaschke, C. and Valencia, A. 2013. The Functional Genomics Network in the evolution of biological text mining over the past decade. New biotechnology. 30, 3 (Mar. 2013), 278-285.
    • (2013) New Biotechnology , vol.30 , Issue.3 , pp. 278-285
    • Blaschke, C.1    Valencia, A.2
  • 6
    • 0037021472 scopus 로고    scopus 로고
    • Getting to the (c)ore of knowledge: Mining biomedical literature
    • Dec. 2002
    • De Bruijn, B. and Martin, J. 2002. Getting to the (c)ore of knowledge: mining biomedical literature. International journal of medical informatics. 67, 1-3 (Dec. 2002), 7-18.
    • (2002) International Journal of Medical Informatics. , vol.67 , Issue.1-3 , pp. 7-18
    • De Bruijn, B.1    Martin, J.2
  • 7
    • 38949105955 scopus 로고    scopus 로고
    • Getting started in text mining
    • Jan 2008
    • Cohen, K.B. and Hunter, L. 2008. Getting started in text mining. PLoS computational biology. 4, 1 (Jan. 2008), e20.
    • (2008) PLoS Computational Biology , vol.4 , Issue.1
    • Cohen, K.B.1    Hunter, L.2
  • 8
    • 77957140630 scopus 로고    scopus 로고
    • The structural and content aspects of abstracts versus bodies of full text journal articles are different
    • 2010
    • Cohen, K.B., Johnson, H.L., Verspoor, K., Roeder, C. and Hunter, L.E. 2010. The structural and content aspects of abstracts versus bodies of full text journal articles are different. BMC bioinformatics. 11, (2010), 492.
    • (2010) BMC Bioinformatics , vol.11 , pp. 492
    • Cohen, K.B.1    Johnson, H.L.2    Verspoor, K.3    Roeder, C.4    Hunter, L.E.5
  • 11
    • 3943106585 scopus 로고    scopus 로고
    • Accomplishments and challenges in literature data mining for biology
    • Oxford, England, 12 (Dec. 2002)
    • Hirschman, L., Park, J.C., Tsujii, J., Wong, L. and Wu, C.H. 2002. Accomplishments and challenges in literature data mining for biology. Bioinformatics (Oxford, England). 18, 12 (Dec. 2002), 1553-1561.
    • (2002) Bioinformatics , vol.18 , pp. 1553-1561
    • Hirschman, L.1    Park, J.C.2    Tsujii, J.3    Wong, L.4    Wu, C.H.5
  • 12
    • 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
    • Jan. 2012
    • Hornbeck, P.V., Kornhauser, J.M., Tkachev, S., Zhang, B., Skrzypek, E., Murray, B., Latham, V. and Sullivan, M. 2012. PhosphoSitePlus: A comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse. Nucleic acids research. 40 (Jan. 2012), D261-D270.
    • (2012) Nucleic Acids Research , vol.40
    • Hornbeck, P.V.1    Kornhauser, J.M.2    Tkachev, S.3    Zhang, B.4    Skrzypek, E.5    Murray, B.6    Latham, V.7    Sullivan, M.8
  • 13
    • 20744446607 scopus 로고    scopus 로고
    • Literature mining and database annotation of protein phosphorylation using a rulebased system
    • Oxford, England. 21, 11 (Jun. 2005)
    • Hu, Z.Z., Narayanaswamy, M., Ravikumar, K.E., Vijay- Shanker, K. and Wu, C.H. 2005. Literature mining and database annotation of protein phosphorylation using a rulebased system. Bioinformatics (Oxford, England). 21, 11 (Jun. 2005), 2759-2765.
    • (2005) Bioinformatics , pp. 2759-2765
    • Hu, Z.Z.1    Narayanaswamy, M.2    Ravikumar, K.E.3    Vijay- Shanker, K.4    Wu, C.H.5
  • 14
    • 41349107398 scopus 로고    scopus 로고
    • OpenDMAP: An open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and celltype- specific gene expression
    • 2008
    • Hunter, L., Lu, Z., Firby, J., Baumgartner, W.A. Jr, Johnson, H.L., Ogren, P.V. and Cohen, K.B. 2008. OpenDMAP: An open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and celltype- specific gene expression. BMC Bioinformatics. 9, (2008), 78.
    • (2008) BMC Bioinformatics , vol.9 , pp. 78
    • Hunter, L.1    Lu, Z.2    Firby, J.3    Baumgartner Jr., W.A.4    Johnson, H.L.5    Ogren, P.V.6    Cohen, K.B.7
  • 15
    • 84865096530 scopus 로고    scopus 로고
    • Why nature chose phosphate to modify proteins
    • Series B, Biological sciences., (2012)
    • Hunter, T. 2012. Why nature chose phosphate to modify proteins. Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 367, 1602 (2012).
    • (2012) Philosophical Transactions of the Royal Society of London , vol.367 , pp. 1602
    • Hunter, T.1
  • 16
    • 84874280242 scopus 로고    scopus 로고
    • The genia event and protein coreference tasks OF the bionlp shared task 2011
    • 2012
    • Kim, J.-D., Nguyen, N., Wang, Y., Tsujii, J., Takagi, T. and Yonezawa, A. 2012. The Genia Event and Protein Coreference tasks of the BioNLP Shared Task 2011. BMC bioinformatics. 13 Suppl 11, (2012), S1.
    • (2012) BMC Bioinformatics , vol.13 , Issue.SUPPL. 11
    • Kim, J.-D.1    Nguyen, N.2    Wang, Y.3    Tsujii, J.4    Takagi, T.5    Yonezawa, A.6
  • 19
    • 51049110331 scopus 로고    scopus 로고
    • Linking genes to literature: Text mining, information extraction, and retrieval applications for biology
    • 2008
    • Krallinger, M., Valencia, A. and Hirschman, L. 2008. Linking genes to literature: Text mining, information extraction, and retrieval applications for biology. Genome biology. 9 Suppl 2, (2008), S8.
    • (2008) Genome Biology , vol.9 , Issue.SUPPL. 2
    • Krallinger, M.1    Valencia, A.2    Hirschman, L.3
  • 23
    • 84860538817 scopus 로고    scopus 로고
    • Beyond the clause: Extraction of phosphorylation information from medline abstracts
    • Oxford, England, Jun. 2005
    • Narayanaswamy, M., Ravikumar, K.E. and Vijay-Shanker, K. 2005. Beyond the clause: extraction of phosphorylation information from medline abstracts. Bioinformatics (Oxford, England). 21 Suppl 1, (Jun. 2005), i319-i327.
    • (2005) Bioinformatics , vol.21 , Issue.SUPPL. 1
    • Narayanaswamy, M.1    Ravikumar, K.E.2    Vijay-Shanker, K.3
  • 24
    • 78651286167 scopus 로고    scopus 로고
    • The Protein Ontology: A structured representation of protein forms and complexes
    • Jan. 2011
    • Natale, D.A. et al. 2011. The Protein Ontology: A structured representation of protein forms and complexes. Nucleic acids research. 39 (Jan. 2011), D539-D545.
    • (2011) Nucleic Acids Research , vol.39
    • Natale, D.A.1
  • 27
    • 84875589774 scopus 로고    scopus 로고
    • Literature mining of protein-residue associations with graph rules learned through distant supervision
    • Oct. 2012
    • Ravikumar, K., Liu, H., Cohn, J.D., Wall, M.E. and Verspoor, K. 2012. Literature mining of protein-residue associations with graph rules learned through distant supervision. Journal of biomedical semantics. 3 Suppl 3, (Oct. 2012), S2.
    • (2012) Journal of Biomedical Semantics , vol.3 , Issue.SUPPL. 3
    • Ravikumar, K.1    Liu, H.2    Cohn, J.D.3    Wall, M.E.4    Verspoor, K.5
  • 28
    • 74549117176 scopus 로고    scopus 로고
    • Biomedical text mining and its applications
    • 2009
    • Rodriguez-Esteban, R. 2009. Biomedical text mining and its applications. PLoS computational biology. 5, 12 (2009).
    • (2009) PLoS Computational Biology , vol.5 , pp. 12
    • Rodriguez-Esteban, R.1
  • 29
    • 46149102929 scopus 로고    scopus 로고
    • Seeking a new biology through text mining
    • Jul. 2008
    • Rzhetsky, A., Seringhaus, M. and Gerstein, M. 2008. Seeking a new biology through text mining. Cell. 134, 1 (Jul. 2008), 9-13.
    • (2008) Cell , vol.134 , Issue.1 , pp. 9-13
    • Rzhetsky, A.1    Seringhaus, M.2    Gerstein, M.3
  • 32
    • 84875865035 scopus 로고    scopus 로고
    • Biomedical text mining: A survey of recent progress
    • Data. Springer US
    • Simpson, M.S. and Demner-Fushman, D. 2012. Biomedical Text Mining: A Survey of Recent Progress. Mining Text Data. Springer US. 465-517.
    • (2012) Mining Text , pp. 465-517
    • Simpson, M.S.1    Demner-Fushman, D.2
  • 35
    • 84876494115 scopus 로고    scopus 로고
    • The eFIP system for text mining of protein interaction networks of phosphorylated proteins
    • 2012, (2012)
    • Tudor, C.O., Arighi, C.N., Wang, Q., Wu, C.H. and Vijay- Shanker, K. 2012. The eFIP system for text mining of protein interaction networks of phosphorylated proteins. Database. 2012, (2012).
    • (2012) Database
    • Tudor, C.O.1    Arighi, C.N.2    Wang, Q.3    Wu, C.H.4    Vijay- Shanker, K.5
  • 36
    • 84875129833 scopus 로고    scopus 로고
    • Application of text-mining for updating protein post-translational modification annotation in UniProtKB
    • Mar. 2013
    • Veuthey, A.-L., Bridge, A., Gobeill, J., Ruch, P., McEntyre, J.R., Bougueleret, L. and Xenarios, I. 2013. Application of text-mining for updating protein post-translational modification annotation in UniProtKB. BMC bioinformatics. 14, 1 (Mar. 2013).
    • (2013) BMC Bioinformatics , vol.14 , Issue.1
    • Veuthey, A.-L.1    Bridge, A.2    Gobeill, J.3    Ruch, P.4    McEntyre, J.R.5    Bougueleret, L.6    Xenarios, I.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.