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Volumn 18, Issue SUPPL. 1, 2002, Pages

Inferring sub-cellular localization through automated lexical analysis

Author keywords

Genome sequence analysis; Lexical analysis; Predicting subcellular localization; Protein function

Indexed keywords

PROTEOME; PROTEIN;

EID: 0344480548     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/18.suppl_1.S78     Document Type: Conference Paper
Times cited : (81)

References (58)
  • 1
    • 0034708480 scopus 로고    scopus 로고
    • The genome sequence of Drosophila melanogaster
    • Adams, M.D. et al. (2000) The genome sequence of Drosophila melanogaster. Science, 287, 2185-2195.
    • (2000) Science , vol.287 , pp. 2185-2195
    • Adams, M.D.1
  • 3
    • 0029889221 scopus 로고    scopus 로고
    • Local alignment statistics
    • Altschul, S.F. and Gish, W. (1996) Local alignment statistics. Meth. Enzymol., 266, 460-480.
    • (1996) Meth. Enzymol. , vol.266 , pp. 460-480
    • Altschul, S.F.1    Gish, W.2
  • 6
    • 0031690080 scopus 로고    scopus 로고
    • Automatic extraction of keywords from scientific text: Application to the knowledge domain of protein families
    • Andrade, M.A. and Valencia, A. (1998) Automatic extraction of keywords from scientific text: application to the knowledge domain of protein families. Bioinformatics, 14, 600-607.
    • (1998) Bioinformatics , vol.14 , pp. 600-607
    • Andrade, M.A.1    Valencia, A.2
  • 8
    • 0035292407 scopus 로고    scopus 로고
    • Functional information in SWISS-PROT: The basis for large-scale characterisation of protein sequences
    • Apweiler, R. (2001) Functional information in SWISS-PROT: the basis for large-scale characterisation of protein sequences. Brief Bioinform., 2, 9-18.
    • (2001) Brief Bioinform. , vol.2 , pp. 9-18
    • Apweiler, R.1
  • 11
    • 0034649566 scopus 로고    scopus 로고
    • Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    • Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature, 408, 796-815.
    • (2000) Nature , vol.408 , pp. 796-815
  • 12
    • 0033957834 scopus 로고    scopus 로고
    • The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
    • Bairoch, A. and Apweiler, R. (2000) The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000. Nucleic Acids Res., 28, 45-48.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 45-48
    • Bairoch, A.1    Apweiler, R.2
  • 13
    • 0031933469 scopus 로고    scopus 로고
    • Recent developments in biological sequence databases
    • Baker, P.G. and Brass, A. (1998) Recent developments in biological sequence databases. Curr. Opin. Biotechnol., 9, 54-58.
    • (1998) Curr. Opin. Biotechnol. , vol.9 , pp. 54-58
    • Baker, P.G.1    Brass, A.2
  • 15
    • 0029997801 scopus 로고    scopus 로고
    • Applying motif and profile searches
    • Bork, P. and Gibson, T.J. (1996) Applying motif and profile searches. Meth. Enzymol., 266, 162-184.
    • (1996) Meth. Enzymol. , vol.266 , pp. 162-184
    • Bork, P.1    Gibson, T.J.2
  • 16
    • 0031897589 scopus 로고    scopus 로고
    • Predicting functions from protein sequences-where are the bottlenecks?
    • Bork, P. and Koonin, E.V. (1998) Predicting functions from protein sequences-where are the bottlenecks? Nature Genet., 18, 313-318.
    • (1998) Nature Genet. , vol.18 , pp. 313-318
    • Bork, P.1    Koonin, E.V.2
  • 18
    • 0034331073 scopus 로고    scopus 로고
    • Finding nuclear localisation signals
    • Cokol, M., Nair, R. and Rost, B. (2000) Finding nuclear localisation signals. EMBO Reports, 1, 411-415.
    • (2000) EMBO Reports , vol.1 , pp. 411-415
    • Cokol, M.1    Nair, R.2    Rost, B.3
  • 20
    • 0035424599 scopus 로고    scopus 로고
    • Intrinsic errors in genome annotation
    • Devos, D. and Valencia, A. (2001) Intrinsic errors in genome annotation. Trends Genet., 17, 429-431.
    • (2001) Trends Genet. , vol.17 , pp. 429-431
    • Devos, D.1    Valencia, A.2
  • 21
    • 0032085105 scopus 로고    scopus 로고
    • Protein annotation: Detective work for function prediction
    • Doerks, T., Bairoch, A. and Bork, P. (1998) Protein annotation: detective work for function prediction. Trends Genet., 14, 248-250.
    • (1998) Trends Genet. , vol.14 , pp. 248-250
    • Doerks, T.1    Bairoch, A.2    Bork, P.3
  • 23
    • 0031887946 scopus 로고    scopus 로고
    • Wanted: Subcellular localization of proteins based on sequence
    • Eisenhaber, F. and Bork, P. (1998) Wanted: subcellular localization of proteins based on sequence. Trends Cell Biol., 8, 169-170.
    • (1998) Trends Cell Biol. , vol.8 , pp. 169-170
    • Eisenhaber, F.1    Bork, P.2
  • 24
    • 0032822429 scopus 로고    scopus 로고
    • Evaluation of human-readable annotation in biomolecular sequence databases with biological rule libraries
    • Eisenhaber, F. and Bork, P. (1999) Evaluation of human-readable annotation in biomolecular sequence databases with biological rule libraries. Bioinformatics, 15, 528-535.
    • (1999) Bioinformatics , vol.15 , pp. 528-535
    • Eisenhaber, F.1    Bork, P.2
  • 25
    • 0029653518 scopus 로고
    • Whole-genome random sequencing and assembly of Haemophilus influenzae Rd.
    • Fleischmann, R.D. et al. (1995) Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science, 269, 496-512.
    • (1995) Science , vol.269 , pp. 496-512
    • Fleischmann, R.D.1
  • 26
    • 0344417851 scopus 로고    scopus 로고
    • A novel method for automatic functional annotation of proteins
    • Fleischmann, W., Moller, S., Gateau, A. and Apweiler, R. (1999) A novel method for automatic functional annotation of proteins. Bioinformatics, 15, 228-233.
    • (1999) Bioinformatics , vol.15 , pp. 228-233
    • Fleischmann, W.1    Moller, S.2    Gateau, A.3    Apweiler, R.4
  • 28
    • 0030052411 scopus 로고    scopus 로고
    • MAGPIE: Automated genome interpretation
    • Gaasterland, T. and Sensen, C.W. (1996) MAGPIE: automated genome interpretation. Trends Genet., 12, 76-78.
    • (1996) Trends Genet. , vol.12 , pp. 76-78
    • Gaasterland, T.1    Sensen, C.W.2
  • 29
    • 0034084865 scopus 로고    scopus 로고
    • Who's your neighbor? New computational approaches for functional genomics
    • Galperin, M.Y. and Koonin, E.V. (2000) Who's your neighbor? New computational approaches for functional genomics. Nat. Biotechnol., 18, 609-613.
    • (2000) Nat. Biotechnol. , vol.18 , pp. 609-613
    • Galperin, M.Y.1    Koonin, E.V.2
  • 31
  • 34
    • 0343938895 scopus 로고    scopus 로고
    • Bridging the gap between sequence and function
    • Koonin, E.V. (2000) Bridging the gap between sequence and function. Trends Genet., 16, 16.
    • (2000) Trends Genet. , vol.16 , pp. 16
    • Koonin, E.V.1
  • 35
    • 0025245767 scopus 로고
    • Organization of the bacterial chromosome
    • Krawiec, S. and Riley, M. (1990) Organization of the bacterial chromosome. Microbiol. Rev., 54, 502-539.
    • (1990) Microbiol. Rev. , vol.54 , pp. 502-539
    • Krawiec, S.1    Riley, M.2
  • 36
    • 0034776419 scopus 로고    scopus 로고
    • Automatic rule generation for protein annotation with the C4.5 data mining algorithm applied on SWISS-PROT
    • Kretschmann, E., Fleischmann, W. and Apweiler, R. (2001) Automatic rule generation for protein annotation with the C4.5 data mining algorithm applied on SWISS-PROT. Bioinfonnatics, 17, 920-926.
    • (2001) Bioinfonnatics , vol.17 , pp. 920-926
    • Kretschmann, E.1    Fleischmann, W.2    Apweiler, R.3
  • 39
    • 0004145033 scopus 로고    scopus 로고
    • CUBIC, Columbia University, Department of Biochemistry and Molecular Biophysics
    • Liu, J. and Rost, B. (2000) Analysing All Proteins in Entire Genomes, CUBIC, Columbia University, Department of Biochemistry and Molecular Biophysics.
    • (2000) Analysing All Proteins in Entire Genomes
    • Liu, J.1    Rost, B.2
  • 40
    • 0031240609 scopus 로고    scopus 로고
    • A neural network method for identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites
    • Nielsen, H., Engelbrecht, J., Brunak, S. and von Heijne, G. (1997) A neural network method for identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites. Int. J. Neural Syst., 8, 581-599.
    • (1997) Int. J. Neural Syst. , vol.8 , pp. 581-599
    • Nielsen, H.1    Engelbrecht, J.2    Brunak, S.3    Von Heijne, G.4
  • 41
    • 0023989064 scopus 로고
    • Improved tools for biological sequence comparison
    • Pearson, W.R. and Lipman, D.J. (1988) Improved tools for biological sequence comparison. Proc. Natl Acad. Sci. USA, 85, 2444-2448.
    • (1988) Proc. Natl Acad. Sci. USA , vol.85 , pp. 2444-2448
    • Pearson, W.R.1    Lipman, D.J.2
  • 42
    • 0035861990 scopus 로고    scopus 로고
    • Automatic clustering of orthologs and in-paralogs from pairwise species comparisons
    • Remm, M., Storm, C.E. and Sonnhammer, E.L. (2001) Automatic clustering of orthologs and in-paralogs from pairwise species comparisons. J. Mol. Biol., 314, 1041-1052.
    • (2001) J. Mol. Biol. , vol.314 , pp. 1041-1052
    • Remm, M.1    Storm, C.E.2    Sonnhammer, E.L.3
  • 43
    • 0027133165 scopus 로고
    • Function of the gene products in Escherichia coli
    • Riley, M. (1993) Function of the gene products in Escherichia coli. Microbiol. Rev., 57, 862-952.
    • (1993) Microbiol. Rev. , vol.57 , pp. 862-952
    • Riley, M.1
  • 44
    • 0031584266 scopus 로고    scopus 로고
    • Protein evolution viewed through Escherichia coli protein sequences: Introducing the notion of astructural segment of homology, the module
    • Riley, M. and Labedan, B. (1997) Protein evolution viewed through Escherichia coli protein sequences: introducing the notion of astructural segment of homology, the module. J. Mol. Biol, 268, 857-868.
    • (1997) J. Mol. Biol , vol.268 , pp. 857-868
    • Riley, M.1    Labedan, B.2
  • 45
    • 0032962457 scopus 로고    scopus 로고
    • Twilight zone of protein sequence alignments
    • Rost, B. (1999) Twilight zone of protein sequence alignments. Protein Eng., 12, 85-94.
    • (1999) Protein Eng. , vol.12 , pp. 85-94
    • Rost, B.1
  • 46
    • 33645402686 scopus 로고    scopus 로고
    • Enzyme function less conserved than anticipated
    • submitted
    • Rost, B. (2001) Enzyme function less conserved than anticipated. J. Mol. Biol., submitted.
    • (2001) J. Mol. Biol.
    • Rost, B.1
  • 48
    • 0028071565 scopus 로고
    • The HSSP database of protein structure-sequence alignments
    • Sander, C. and Schneider, R. (1994) The HSSP database of protein structure-sequence alignments. Nucleic Acids Res., 22, 3597-3599.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 3597-3599
    • Sander, C.1    Schneider, R.2
  • 50
    • 84944486544 scopus 로고
    • Prediction and entropy of printed English
    • Shannon, C.E. (1951) Prediction and entropy of printed English. Bell System Tech. J., 30, 50-64.
    • (1951) Bell System Tech. J. , vol.30 , pp. 50-64
    • Shannon, C.E.1
  • 51
    • 0031694515 scopus 로고    scopus 로고
    • EUCLID: Automatic classification of proteins in functional classes by their database annotations
    • Tamames, J., Ouzounis, C., Casari, G., Sander, C. and Valencia, A. (1998) EUCLID: automatic classification of proteins in functional classes by their database annotations. Bioinformatics, 14, 542-543.
    • (1998) Bioinformatics , vol.14 , pp. 542-543
    • Tamames, J.1    Ouzounis, C.2    Casari, G.3    Sander, C.4    Valencia, A.5
  • 53
    • 0033956060 scopus 로고    scopus 로고
    • The COG database: A tool for genome-scale analysis of protein functions and evolution
    • Tatusov, R.L., Galperin, M.Y., Natale, D.A. and Koonin, E.V. (2000) The COG database: a tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res., 28, 33-36.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 33-36
    • Tatusov, R.L.1    Galperin, M.Y.2    Natale, D.A.3    Koonin, E.V.4
  • 54
    • 0032509302 scopus 로고    scopus 로고
    • Genome sequence of the nematode C. elegans: A platform for investigating biology
    • The C. elegans Sequencing Consortium, (1998) Genome sequence of the nematode C. elegans: a platform for investigating biology. Science, 282, 2012-2018.
    • (1998) Science , vol.282 , pp. 2012-2018


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