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Volumn 28, Issue 2, 2004, Pages 97-107

Identification of related gene/protein names based on an HMM of name variations

Author keywords

Automatic term recognition; Gene name variation; Hidden Markov model; Information extraction

Indexed keywords

ALGORITHMS; DYNAMIC PROGRAMMING; GENES; INFORMATION ANALYSIS; MOLECULAR BIOLOGY; NATURAL LANGUAGE PROCESSING SYSTEMS; PROTEINS; SEMANTICS;

EID: 2342488035     PISSN: 14769271     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.compbiolchem.2003.12.003     Document Type: Article
Times cited : (19)

References (43)
  • 2
    • 0037805574 scopus 로고    scopus 로고
    • On ontologies for biologists: The Gene Ontology - Untangling the web
    • discussion 80-63, 84-90, 244-252
    • Ashburner M., Lewis S. On ontologies for biologists: the Gene Ontology - untangling the web. Novartis Found Symp. 247:2002;66-80. discussion 80-63, 84-90, 244-252.
    • (2002) Novartis Found Symp. , vol.247 , pp. 66-80
    • Ashburner, M.1    Lewis, S.2
  • 7
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: Tool for the unification of biology
    • Consortium T.G.O. Gene ontology: tool for the unification of biology. Nature Genet. 25:2000;25-29.
    • (2000) Nature Genet. , vol.25 , pp. 25-29
    • Consortium, T.G.O.1
  • 8
    • 0028911698 scopus 로고
    • Gauging similarity with n-grams: Language-independent categorization of text
    • Damashek M. Gauging similarity with n-grams: Language-independent categorization of text. Science. 267:1995;843-848.
    • (1995) Science , vol.267 , pp. 843-848
    • Damashek, M.1
  • 9
    • 0037021472 scopus 로고    scopus 로고
    • Getting to the (c)ore of knowledge: Mining biomedical literature
    • de Bruijn B., Martin J. Getting to the (c)ore of knowledge: mining biomedical literature. Int. J. Med. Inf. 67(1-3):2002;7-18.
    • (2002) Int. J. Med. Inf. , vol.67 , Issue.1-3 , pp. 7-18
    • De Bruijn, B.1    Martin, J.2
  • 10
    • 0034646982 scopus 로고    scopus 로고
    • Supporting the classification of pathology reports: Comparing two information retrieval methods
    • de Bruijn L.M., Hasman A., Arends J.W. Supporting the classification of pathology reports: comparing two information retrieval methods. Comput. Meth. Progr. Biomed. 62:2000;109-113.
    • (2000) Comput. Meth. Progr. Biomed. , vol.62 , pp. 109-113
    • De Bruijn, L.M.1    Hasman, A.2    Arends, J.W.3
  • 12
    • 78650633610 scopus 로고    scopus 로고
    • Automatic recognition of multi-word terms: The C-value/NC-value method
    • Frantzi K., Ananiadou S., Mima H. Automatic recognition of multi-word terms: the C-value/NC-value method. Int. J. Digital Libraries. 3:2000;115-130.
    • (2000) Int. J. Digital Libraries , vol.3 , pp. 115-130
    • Frantzi, K.1    Ananiadou, S.2    Mima, H.3
  • 15
    • 0020484488 scopus 로고
    • An improved algorithm for matching biological sequences
    • Gotoh O. An improved algorithm for matching biological sequences. J. Mol. Biol. 162(3):1982;705-708.
    • (1982) J. Mol. Biol. , vol.162 , Issue.3 , pp. 705-708
    • Gotoh, O.1
  • 16
    • 0035757271 scopus 로고    scopus 로고
    • Subword segmentation-leveling out morphological variations for medical document retrieval
    • Hahn, U., Honeck, M., Piotrowski, M., Schulz, S., 2001. Subword segmentation-leveling out morphological variations for medical document retrieval. Proc. AMIA Symp., 229-233.
    • (2001) Proc. AMIA Symp. , pp. 229-233
    • Hahn, U.1    Honeck, M.2    Piotrowski, M.3    Schulz, S.4
  • 18
    • 5244254409 scopus 로고
    • FASTR: A unification-based front-end to automatic indexing
    • Rockefeller University, New York, NY
    • Jacquemin, C., 1994. FASTR: A unification-based front-end to automatic indexing. In: Proceedings of the Paper Presentation at the RIAO 94, Rockefeller University, New York, NY.
    • (1994) Proceedings of the Paper Presentation at the RIAO 94
    • Jacquemin, C.1
  • 20
    • 0034832550 scopus 로고    scopus 로고
    • Corpus-based statistical screening for content-bearing terms
    • Kim W.G., Wilbur W.J. Corpus-based statistical screening for content-bearing terms. J. Am. Soc. Informat. Sci. 52(3):2001;247-259.
    • (2001) J. Am. Soc. Informat. Sci. , vol.52 , Issue.3 , pp. 247-259
    • Kim, W.G.1    Wilbur, W.J.2
  • 21
    • 0034707204 scopus 로고    scopus 로고
    • Using BLAST for identifying gene and protein names in journal articles
    • Krauthammer M., Rzhetsky A., Morozov P., Friedman C. Using BLAST for identifying gene and protein names in journal articles. Gene. 259:2000;245-252.
    • (2000) Gene , vol.259 , pp. 245-252
    • Krauthammer, M.1    Rzhetsky, A.2    Morozov, P.3    Friedman, C.4
  • 22
    • 0042128697 scopus 로고    scopus 로고
    • Mining terminological knowledge in large biomedical corpora
    • Liu, H., Friedman, C., 2003. Mining terminological knowledge in large biomedical corpora. Pac. Symp. Biocomput., 415-426.
    • (2003) Pac. Symp. Biocomput. , pp. 415-426
    • Liu, H.1    Friedman, C.2
  • 27
    • 0014757386 scopus 로고
    • A general method applicable to the search for similarities in the amino acid sequence of two proteins
    • Needleman S.B., Wunsch C.D. A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol. 48(3):1970;443-453.
    • (1970) J. Mol. Biol. , vol.48 , Issue.3 , pp. 443-453
    • Needleman, S.B.1    Wunsch, C.D.2
  • 28
    • 2242422735 scopus 로고    scopus 로고
    • Terminology-driven literature mining and knowledge acquisition in biomedicine
    • Nenadic G., Mima H., Spasic I., Ananiadou S., Tsujii J.-I. Terminology-driven literature mining and knowledge acquisition in biomedicine. Med. Informat. 67:2002;33-48.
    • (2002) Med. Informat. , vol.67 , pp. 33-48
    • Nenadic, G.1    Mima, H.2    Spasic, I.3    Ananiadou, S.4    Tsujii, J.-I.5
  • 29
    • 0038620464 scopus 로고    scopus 로고
    • Terminology-driven mining of biomedical literature
    • Nenadic G., Spasic I., Ananiadou S. Terminology-driven mining of biomedical literature. Bioinformatics. 19(8):2003;938-943.
    • (2003) Bioinformatics , vol.19 , Issue.8 , pp. 938-943
    • Nenadic, G.1    Spasic, I.2    Ananiadou, S.3
  • 31
    • 0035162594 scopus 로고    scopus 로고
    • RefSeq and LocusLink: NCBI gene-centered resources
    • Pruitt K., Maglott D. RefSeq and LocusLink: NCBI gene-centered resources. Nucl. Acids Res. 29:2001;137-140.
    • (2001) Nucl. Acids Res. , vol.29 , pp. 137-140
    • Pruitt, K.1    Maglott, D.2
  • 32
    • 0024610919 scopus 로고
    • A tutorial on hidden Markov models and selected applications in speech recognition
    • Rabiner L.R. A tutorial on hidden Markov models and selected applications in speech recognition. Proc. IEEE. 77(2):1989;257-286.
    • (1989) Proc. IEEE , vol.77 , Issue.2 , pp. 257-286
    • Rabiner, L.R.1
  • 33
    • 0003882234 scopus 로고
    • Addison-Wesley Publishing Company. Reading, MA
    • Salton, G., 1989. Automatic Text Processing. Addison-Wesley Publishing Company. Reading, MA.
    • (1989) Automatic Text Processing
    • Salton, G.1
  • 34
    • 0002413320 scopus 로고
    • The state of retrieval system evaluation, information processing
    • Salton G. The state of retrieval system evaluation, information processing. Informat. Proc. Manag. 28(4):1992;441-449.
    • (1992) Informat. Proc. Manag. , vol.28 , Issue.4 , pp. 441-449
    • Salton, G.1
  • 35
    • 85045829263 scopus 로고
    • Letter
    • Salton G. Letter. Science. 268(June 9):1995;1418-1419.
    • (1995) Science , vol.268 , Issue.JUNE 9 , pp. 1418-1419
    • Salton, G.1
  • 36
    • 0041922338 scopus 로고    scopus 로고
    • Hidden Markov models and optimized sequence alignments
    • Smith L., Yeganova L., Wilbur W.J. Hidden Markov models and optimized sequence alignments. Computat. Biol. Chem. 27:2003;77-84.
    • (2003) Computat. Biol. Chem. , vol.27 , pp. 77-84
    • Smith, L.1    Yeganova, L.2    Wilbur, W.J.3
  • 37
    • 0036678776 scopus 로고    scopus 로고
    • Tagging gene and protein names in biomedical text
    • Tanabe L., Wilbur W.J. Tagging gene and protein names in biomedical text. Bioinformatics. 18:2002;1124-1132.
    • (2002) Bioinformatics , vol.18 , pp. 1124-1132
    • Tanabe, L.1    Wilbur, W.J.2
  • 38
    • 85039504916 scopus 로고    scopus 로고
    • Generation of a large gene/protein lexicon by morphological pattern analysis
    • in press
    • Tanabe L., Wilbur W.J. Generation of a large gene/protein lexicon by morphological pattern analysis. J. Bioinformat. Computat. Biol. 2(1):2004;1-16. in press.
    • (2004) J. Bioinformat. Computat. Biol. , vol.2 , Issue.1 , pp. 1-16
    • Tanabe, L.1    Wilbur, W.J.2
  • 39
    • 2342537393 scopus 로고
    • TREC-Program-Committee, 1995. Lett. Sci. 268 (June 9), 1417-1418.
    • (1995) Lett. Sci. , vol.268 , Issue.JUNE 9 , pp. 1417-1418
  • 41
    • 1242349373 scopus 로고    scopus 로고
    • Extracting synonymous gene and protein terms from biological literature
    • Yu H., Agichtein E. Extracting synonymous gene and protein terms from biological literature. Bioinformatics. 19(Suppl 1):2003;I340-I349.
    • (2003) Bioinformatics , vol.19 , Issue.SUPPL. 1 , pp. 340-I349
    • Yu, H.1    Agichtein, E.2
  • 43
    • 0042626106 scopus 로고    scopus 로고
    • Automatically identifying gene/protein terms in MEDLINE abstracts
    • Yu H., Hatzivassiloglou V., Rzhetsky A., Wilbur W.J. Automatically identifying gene/protein terms in MEDLINE abstracts. J. Biomed. Inform. 35(56):2002;322-330.
    • (2002) J. Biomed. Inform. , vol.35 , Issue.56 , pp. 322-330
    • Yu, H.1    Hatzivassiloglou, V.2    Rzhetsky, A.3    Wilbur, W.J.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.