-
1
-
-
0035895505
-
The sequence of the human genome
-
Venter, J. C., Adams, M. D., Myers, E. W., et al. (2001) The sequence of the human genome. Science 291(5507), 1304-1351.
-
(2001)
Science
, vol.291
, Issue.5507
, pp. 1304-1351
-
-
Venter, J.C.1
Adams, M.D.2
Myers, E.W.3
-
2
-
-
0032082048
-
Genomics and computational molecular biology
-
Brutlag, D. L. (1998) Genomics and computational molecular biology. Curr. Opin. Microbiol. 1(3), 340-345.
-
(1998)
Curr. Opin. Microbiol
, vol.1
, Issue.3
, pp. 340-345
-
-
Brutlag, D.L.1
-
3
-
-
0031043927
-
The prion folding problem
-
Harrison, P. M., Bamborough, P., Daggett, V., Prusiner, S., and Cohen, F. E. (1997) The prion folding problem. Curr. Opin. Struct. Biol. 7, 53-59.
-
(1997)
Curr. Opin. Struct. Biol
, vol.7
, pp. 53-59
-
-
Harrison, P.M.1
Bamborough, P.2
Daggett, V.3
Prusiner, S.4
Cohen, F.E.5
-
4
-
-
0031897589
-
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? Nat. Genet. 18(4), 313-318.
-
(1998)
Nat. Genet
, vol.18
, Issue.4
, pp. 313-318
-
-
Bork, P.1
Koonin, E.V.2
-
5
-
-
0034868592
-
What is bioinformatics? A proposed definition and overview of the field
-
Luscombe, N. M., Greenbaum, D., and Gerstein, M. (2001) What is bioinformatics? A proposed definition and overview of the field. Methods Inf. Med. 40(4), 346-358.
-
(2001)
Methods Inf. Med
, vol.40
, Issue.4
, pp. 346-358
-
-
Luscombe, N.M.1
Greenbaum, D.2
Gerstein, M.3
-
6
-
-
0032491377
-
Predicting function: From genes to genomes and back
-
Bork, P., Dandekar, T., Diaz-Lazcoz, Y., Eisenhaber, F., Huynen, M., and Yuan, Y. (1998) Predicting function: from genes to genomes and back. J. Mol. Biol. 283(4), 707-725.
-
(1998)
J. Mol. Biol
, vol.283
, Issue.4
, pp. 707-725
-
-
Bork, P.1
Dandekar, T.2
Diaz-Lazcoz, Y.3
Eisenhaber, F.4
Huynen, M.5
Yuan, Y.6
-
7
-
-
0346731042
-
Automatic prediction of protein function
-
Rost, B., Liu, J., Nair, R., Wrzeszczynski, K. O., and Ofran, Y. (2003) Automatic prediction of protein function. Cell. Mol. Life Sci. 60(12), 2637-2650.
-
(2003)
Cell. Mol. Life Sci
, vol.60
, Issue.12
, pp. 2637-2650
-
-
Rost, B.1
Liu, J.2
Nair, R.3
Wrzeszczynski, K.O.4
Ofran, Y.5
-
8
-
-
0034491031
-
InterPro - an integrated documentation resource for protein families, domains and functional sites
-
Apweiler, R., Attwood, T. K., Bairoch, A., et al. (2000) InterPro - an integrated documentation resource for protein families, domains and functional sites. Bioinformatics 16(12), 1145-1150.
-
(2000)
Bioinformatics
, vol.16
, Issue.12
, pp. 1145-1150
-
-
Apweiler, R.1
Attwood, T.K.2
Bairoch, A.3
-
9
-
-
0034069495
-
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(1), 25-29.
-
(2000)
Nat. Genet
, vol.25
, Issue.1
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
-
10
-
-
0003422388
-
-
4th ed. W. H. Freeman & Co, New York
-
Lodish, H., Berk, A., Baltimore, D., and Darnell, J. (2000) Molecular Cell Biology, 4th ed. W. H. Freeman & Co, New York.
-
(2000)
Molecular Cell Biology
-
-
Lodish, H.1
Berk, A.2
Baltimore, D.3
Darnell, J.4
-
11
-
-
0033917142
-
Defects in processing and trafficking of the cystic fibrosis transmembrane conductance regulator
-
Skach, W. R. (2000) Defects in processing and trafficking of the cystic fibrosis transmembrane conductance regulator. Kidney Int. 57(3), 825-831.
-
(2000)
Kidney Int
, vol.57
, Issue.3
, pp. 825-831
-
-
Skach, W.R.1
-
12
-
-
0032167856
-
Functional expression of the Wilson disease protein reveals mislocalization and impaired copper-dependent trafficking of the common H1069Q mutation
-
Payne, A. S., Kelly, E. J., and Gitlin, J. D. (1998) Functional expression of the Wilson disease protein reveals mislocalization and impaired copper-dependent trafficking of the common H1069Q mutation. Proc. Natl. Acad. Sci. USA 95(18), 10854-10859.
-
(1998)
Proc. Natl. Acad. Sci. USA
, vol.95
, Issue.18
, pp. 10854-10859
-
-
Payne, A.S.1
Kelly, E.J.2
Gitlin, J.D.3
-
13
-
-
0037411121
-
Alpha(1)-antitrypsin deficiency, liver disease and emphysema
-
Parfrey, H., Mahadeva, R., and Lomas, D. A. (2003) Alpha(1)-antitrypsin deficiency, liver disease and emphysema. Int. J. Biochem. Cell Biol. 35(7), 1009-1014.
-
(2003)
Int. J. Biochem. Cell Biol
, vol.35
, Issue.7
, pp. 1009-1014
-
-
Parfrey, H.1
Mahadeva, R.2
Lomas, D.A.3
-
14
-
-
1042264072
-
Protein localization in proteomics
-
Davis, T. N. (2004) Protein localization in proteomics. Curr. Opin. Chem. Biol. 8(1), 49-53.
-
(2004)
Curr. Opin. Chem. Biol
, vol.8
, Issue.1
, pp. 49-53
-
-
Davis, T.N.1
-
15
-
-
0033909566
-
Protein sorting signals and prediction of subcellular localization
-
Nakai, K. (2000) Protein sorting signals and prediction of subcellular localization. Adv. Protein Chem. 54, 277-344.
-
(2000)
Adv. Protein Chem
, vol.54
, pp. 277-344
-
-
Nakai, K.1
-
16
-
-
2942624227
-
Advances in the prediction of protein targeting signals
-
Schneider, G. and Fechner, U. (2004) Advances in the prediction of protein targeting signals. Proteomics 4(6), 1571-1580.
-
(2004)
Proteomics
, vol.4
, Issue.6
, pp. 1571-1580
-
-
Schneider, G.1
Fechner, U.2
-
17
-
-
0029979607
-
Common principles of protein translocation across membranes
-
Schatz, G. and Dobberstein, B. (1996) Common principles of protein translocation across membranes. Science 271(5255), 1519-1526.
-
(1996)
Science
, vol.271
, Issue.5255
, pp. 1519-1526
-
-
Schatz, G.1
Dobberstein, B.2
-
18
-
-
0003422388
-
-
2nd ed. W. H. Freeman & Co, New York
-
Darnell, J., Lodish, H., and Baltimore, D. (1990) Molecular Cell Biology, 2nd ed. W. H. Freeman & Co, New York.
-
(1990)
Molecular Cell Biology
-
-
Darnell, J.1
Lodish, H.2
Baltimore, D.3
-
19
-
-
0036601150
-
Computational methods for the prediction of protein interactions
-
Valencia, A. and Pazos, F. (2002) Computational methods for the prediction of protein interactions. Curr. Opin. Struct. Biol. 12(3), 368-373.
-
(2002)
Curr. Opin. Struct. Biol
, vol.12
, Issue.3
, pp. 368-373
-
-
Valencia, A.1
Pazos, F.2
-
20
-
-
9144231826
-
PIRSF: Family classification system at the Protein Information Resource
-
Wu, C. H., Nikolskaya, A., Huang, H., et al. (2004) PIRSF: family classification system at the Protein Information Resource. Nucleic Acids Res. 32(1), D112-114.
-
(2004)
Nucleic Acids Res
, vol.32
, Issue.1
-
-
Wu, C.H.1
Nikolskaya, A.2
Huang, H.3
-
21
-
-
0035782686
-
Review: Prediction of in vivo fates of proteins in the era of genomics and proteomics
-
Nakai, K. (2001) Review: prediction of in vivo fates of proteins in the era of genomics and proteomics. J. Struct. Biol. 134(2-3), 103-116.
-
(2001)
J. Struct. Biol
, vol.134
, Issue.2-3
, pp. 103-116
-
-
Nakai, K.1
-
22
-
-
0030624324
-
Protein sequence annotation in the genome era: The annotation concept of SWISS-PROT+TREMBL
-
Apweiler, R., Gateau, A., Contrino, S., et al. (1997) Protein sequence annotation in the genome era: the annotation concept of SWISS-PROT+TREMBL. Proc. Int. Conf. Intell. Syst. Mol. Biol. 5, 33-43.
-
(1997)
Proc. Int. Conf. Intell. Syst. Mol. Biol
, vol.5
, pp. 33-43
-
-
Apweiler, R.1
Gateau, A.2
Contrino, S.3
-
23
-
-
0030861438
-
The SWISS-PROT protein sequence data bank and its new supplement TrEMBL
-
Bairoch, A. and Apweiler, R. (1997) The SWISS-PROT protein sequence data bank and its new supplement TrEMBL. Nucleic Acids Res. 25, 31-36.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 31-36
-
-
Bairoch, A.1
Apweiler, R.2
-
24
-
-
0034280113
-
Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing
-
13
-
Simpson, J. C., Wellenreuther, R., Poustka, A., Pepperkok, R., and Wiemann, S. (2000) Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing. EMBO Rep. 1(3), 287-292.
-
(2000)
EMBO Rep
, pp. 287-292
-
-
Simpson, J.C.1
Wellenreuther, R.2
Poustka, A.3
Pepperkok, R.4
Wiemann, S.5
-
25
-
-
0027105007
-
A knowledge base for predicting protein localization sites in eukaryotic cells
-
Nakai, K. and Kanehisa, M. (1992) A knowledge base for predicting protein localization sites in eukaryotic cells. Genomics 14(4), 897-911.
-
(1992)
Genomics
, vol.14
, Issue.4
, pp. 897-911
-
-
Nakai, K.1
Kanehisa, M.2
-
26
-
-
0032972509
-
PSORT: A program for detecting sorting signals in proteins and predicting their subcellular localization
-
Nakai, K. and Horton, P. (1999) PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. Trends Biochem. Sci. 24(1), 34-36.
-
(1999)
Trends Biochem. Sci
, vol.24
, Issue.1
, pp. 34-36
-
-
Nakai, K.1
Horton, P.2
-
27
-
-
0036187913
-
Extensive feature detection of N-terminal protein sorting signals
-
Bannai, H., Tamada, Y., Maruyama, O., Nakai, K., and Miyano, S. (2002) Extensive feature detection of N-terminal protein sorting signals. Bioinformatics 18(2), 298-305.
-
(2002)
Bioinformatics
, vol.18
, Issue.2
, pp. 298-305
-
-
Bannai, H.1
Tamada, Y.2
Maruyama, O.3
Nakai, K.4
Miyano, S.5
-
28
-
-
0042622254
-
PSORT-B: Improving protein subcellular localization prediction for Gram-negative bacteria
-
Gardy, J. L., Spencer, C., Wang, K., et al. (2003) PSORT-B: Improving protein subcellular localization prediction for Gram-negative bacteria. Nucleic Acids Res. 31(13), 3613-3617.
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.13
, pp. 3613-3617
-
-
Gardy, J.L.1
Spencer, C.2
Wang, K.3
-
29
-
-
34547560275
-
-
Horton, P., Park, K. J., Obayashi, T., et al. (2007) WoLF PSORT: protein localization predictor. Nucleic Acids Res. 35(Web Server issue), W585-587.
-
Horton, P., Park, K. J., Obayashi, T., et al. (2007) WoLF PSORT: protein localization predictor. Nucleic Acids Res. 35(Web Server issue), W585-587.
-
-
-
-
30
-
-
0029175644
-
Protein sorting signals: Simple peptides with complex functions
-
von Heijne, G. (1995) Protein sorting signals: simple peptides with complex functions. EXS 73, 67-76.
-
(1995)
EXS
, vol.73
, pp. 67-76
-
-
von Heijne, G.1
-
31
-
-
0034331073
-
Finding nuclear localization signals
-
15
-
Cokol, M., Nair, R., and Rost, B. (2000) Finding nuclear localization signals. EMBO Rep. 1(5), 411-415.
-
(2000)
EMBO Rep
, pp. 411-415
-
-
Cokol, M.1
Nair, R.2
Rost, B.3
-
32
-
-
0021856417
-
Signal sequences. The limits of variation
-
von Heijne, G. (1985) Signal sequences. The limits of variation. J. Mol. Biol. 184, 99-105.
-
(1985)
J. Mol. Biol
, vol.184
, pp. 99-105
-
-
von Heijne, G.1
-
33
-
-
0032760629
-
Mechanisms of protein translocation into mitochondria
-
Voos, W., Martin, H., Krimmer, T., and Pfanner, N. (1999) Mechanisms of protein translocation into mitochondria. Biochim. Biophys. Acta 1422(3), 235-254.
-
(1999)
Biochim. Biophys. Acta
, vol.1422
, Issue.3
, pp. 235-254
-
-
Voos, W.1
Martin, H.2
Krimmer, T.3
Pfanner, N.4
-
34
-
-
0034308219
-
Chloroplast transit peptides: Structure, function and evolution
-
Bruce, B. D. (2000) Chloroplast transit peptides: structure, function and evolution. Trends Cell Biol. 10(10), 440-447.
-
(2000)
Trends Cell Biol
, vol.10
, Issue.10
, pp. 440-447
-
-
Bruce, B.D.1
-
35
-
-
0033044637
-
Machine learning approaches for the prediction of signal peptides and other protein sorting signals
-
Nielsen, H., Brunak, S., and von Heijne, G. (1999) Machine learning approaches for the prediction of signal peptides and other protein sorting signals. Protein Eng. 12, 3-9.
-
(1999)
Protein Eng
, vol.12
, pp. 3-9
-
-
Nielsen, H.1
Brunak, S.2
von Heijne, G.3
-
36
-
-
0034697980
-
Predicting subcellular localization of proteins based on their N-terminal amino acid sequence
-
Emanuelsson, O., Nielsen, H., Brunak, S., and von Heijne, G. (2000) Predicting subcellular localization of proteins based on their N-terminal amino acid sequence. J. Mol. Biol. 300(4), 1005-1016.
-
(2000)
J. Mol. Biol
, vol.300
, Issue.4
, pp. 1005-1016
-
-
Emanuelsson, O.1
Nielsen, H.2
Brunak, S.3
von Heijne, G.4
-
37
-
-
19544372994
-
Prediction of subcellular localization using sequence-biased recurrent networks
-
Boden, M. and Hawkins, J. (2005) Prediction of subcellular localization using sequence-biased recurrent networks. Bioinformatics 21(10), 2279-2286.
-
(2005)
Bioinformatics
, vol.21
, Issue.10
, pp. 2279-2286
-
-
Boden, M.1
Hawkins, J.2
-
38
-
-
2142657817
-
A combined transmembrane topology and signal peptide prediction method
-
Kall, L., Krogh, A., and Sonnhammer, E. L. (2004) A combined transmembrane topology and signal peptide prediction method. J. Mol. Biol. 338(5), 1027-1036.
-
(2004)
J. Mol. Biol
, vol.338
, Issue.5
, pp. 1027-1036
-
-
Kall, L.1
Krogh, A.2
Sonnhammer, E.L.3
-
39
-
-
0035852328
-
Prediction of organellar targeting signals
-
Emanuelsson, O. and von Heijne, G. (2001) Prediction of organellar targeting signals. Biochim. Biophys. Acta 1541(1-2), 114-119.
-
(2001)
Biochim. Biophys. Acta
, vol.1541
, Issue.1-2
, pp. 114-119
-
-
Emanuelsson, O.1
von Heijne, G.2
-
40
-
-
0035367127
-
Whole-genome analysis: Annotations and updates
-
Gaasterland, T. and Oprea, M. (2001) Whole-genome analysis: annotations and updates. Curr. Opin. Struct. Biol. 11(3), 377-381.
-
(2001)
Curr. Opin. Struct. Biol
, vol.11
, Issue.3
, pp. 377-381
-
-
Gaasterland, T.1
Oprea, M.2
-
41
-
-
0003516147
-
-
Cambridge University Press, Cambridge, UK
-
Durbin, R., Eddy, S. R., Krogh, A., and Mitchison, G. (1998) Biological Sequence Analysis. Cambridge University Press, Cambridge, UK.
-
(1998)
Biological Sequence Analysis
-
-
Durbin, R.1
Eddy, S.R.2
Krogh, A.3
Mitchison, G.4
-
42
-
-
0031707505
-
Nucleocytoplasmic transport: The soluble phase
-
Mattaj, I. W. and Englmeier, L. (1998) Nucleocytoplasmic transport: the soluble phase. Annu. Rev. Biochem. 67, 265-306.
-
(1998)
Annu. Rev. Biochem
, vol.67
, pp. 265-306
-
-
Mattaj, I.W.1
Englmeier, L.2
-
43
-
-
0034041537
-
Nuclear targeting signal recognition: A key control point in nuclear transport?
-
Jans, D. A., Xiao, C. Y., and Lam, M. H. (2000) Nuclear targeting signal recognition: a key control point in nuclear transport? BioEssays 22(6), 532-544.
-
(2000)
BioEssays
, vol.22
, Issue.6
, pp. 532-544
-
-
Jans, D.A.1
Xiao, C.Y.2
Lam, M.H.3
-
44
-
-
34249846686
-
NucPred - predicting nuclear localization of proteins
-
Brameier, M., Krings, A., and MacCallum, R. M. (2007) NucPred - predicting nuclear localization of proteins. Bioinformatics 23(9), 1159-1160.
-
(2007)
Bioinformatics
, vol.23
, Issue.9
, pp. 1159-1160
-
-
Brameier, M.1
Krings, A.2
MacCallum, R.M.3
-
45
-
-
0036322695
-
Target space for structural genomics revisited
-
Liu, J. and Rost, B. (2002) Target space for structural genomics revisited. Bioinformatics 18(7), 922-933.
-
(2002)
Bioinformatics
, vol.18
, Issue.7
, pp. 922-933
-
-
Liu, J.1
Rost, B.2
-
46
-
-
0030614959
-
Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites
-
Nielsen, H., Engelbrecht, J., Brunak, S., and von Heijne, G. (1997) Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites. Protein Eng. 10(1), 1-6.
-
(1997)
Protein Eng
, vol.10
, Issue.1
, pp. 1-6
-
-
Nielsen, H.1
Engelbrecht, J.2
Brunak, S.3
von Heijne, G.4
-
47
-
-
3042521098
-
Improved prediction of signal peptides: SignalP 3.0
-
Bendtsen, J. D., Nielsen, H., von Heijne, G., and Brunak, S. (2004) Improved prediction of signal peptides: SignalP 3.0. J. Mol. Biol. 340(4), 783-795.
-
(2004)
J. Mol. Biol
, vol.340
, Issue.4
, pp. 783-795
-
-
Bendtsen, J.D.1
Nielsen, H.2
von Heijne, G.3
Brunak, S.4
-
48
-
-
0023803244
-
Predicting the secondary structure of globular proteins using neural network models
-
Qian, N. and Sejnowski, T. J. (1988) Predicting the secondary structure of globular proteins using neural network models. J. Mol. Biol. 202, 865-884.
-
(1988)
J. Mol. Biol
, vol.202
, pp. 865-884
-
-
Qian, N.1
Sejnowski, T.J.2
-
49
-
-
0031603460
-
Prediction of signal peptides and signal anchors by a hidden Markov model
-
Nielsen, H. and Krogh, A. (1998) Prediction of signal peptides and signal anchors by a hidden Markov model. Proc. Int. Conf. Intell. Syst. Mol. Biol. 6, 122-130.
-
(1998)
Proc. Int. Conf. Intell. Syst. Mol. Biol
, vol.6
, pp. 122-130
-
-
Nielsen, H.1
Krogh, A.2
-
50
-
-
0037249644
-
NLSdb: Database of nuclear localization signals
-
Nair, R., Carter, P., and Rost, B. (2003) NLSdb: database of nuclear localization signals. Nucleic Acids Res. 31(1), 397-399.
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.1
, pp. 397-399
-
-
Nair, R.1
Carter, P.2
Rost, B.3
-
51
-
-
0029029232
-
Nuclear localization signals overlap DNA- or RNA-binding domains in nucleic acid-binding proteins
-
LaCasse, E. C. and Lefebvre, Y. A. (1995) Nuclear localization signals overlap DNA- or RNA-binding domains in nucleic acid-binding proteins. Nucleic Acids Res. 23(10), 1647-1656.
-
(1995)
Nucleic Acids Res
, vol.23
, Issue.10
, pp. 1647-1656
-
-
LaCasse, E.C.1
Lefebvre, Y.A.2
-
52
-
-
9144232912
-
-
Apweiler, R., Bairoch, A., Wu, C. H., et al. (2004) UniProt: the Universal Protein knowledgebase. Nucleic Acids Res. 32(Database issue), D115-119.
-
Apweiler, R., Bairoch, A., Wu, C. H., et al. (2004) UniProt: the Universal Protein knowledgebase. Nucleic Acids Res. 32(Database issue), D115-119.
-
-
-
-
53
-
-
0033957834
-
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(1), 45-48.
-
(2000)
Nucleic Acids Res
, vol.28
, Issue.1
, pp. 45-48
-
-
Bairoch, A.1
Apweiler, R.2
-
54
-
-
0035229819
-
Textquest: Document clustering of Medline abstracts for concept discovery in molecular biology
-
Iliopoulos, I., Enright, A. J., and Ouzounis, C. A. (2001) Textquest: document clustering of Medline abstracts for concept discovery in molecular biology. Pac. Symp. Biocomput. 384-395.
-
(2001)
Pac. Symp. Biocomput
, pp. 384-395
-
-
Iliopoulos, I.1
Enright, A.J.2
Ouzounis, C.A.3
-
55
-
-
0035229924
-
Detecting gene relations from Medline abstracts
-
Stephens, M., Palakal, M., Mukhopadhyay, S., Raje, R., and Mostafa, J. (2001) Detecting gene relations from Medline abstracts. Pac. Symp. Biocomput. 483-495.
-
(2001)
Pac. Symp. Biocomput
, pp. 483-495
-
-
Stephens, M.1
Palakal, M.2
Mukhopadhyay, S.3
Raje, R.4
Mostafa, J.5
-
56
-
-
0035236048
-
GENIES: A natural-language processing system for the extraction of molecular pathways from journal articles
-
Friedman, C., Kra, P., Yu, H., Krauthammer, M., and Rzhetsky, A. (2001) GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles. Bioinformatics 17(Suppl. 1), S74-82.
-
(2001)
Bioinformatics
, vol.17
, Issue.SUPPL. 1
-
-
Friedman, C.1
Kra, P.2
Yu, H.3
Krauthammer, M.4
Rzhetsky, A.5
-
57
-
-
0036358850
-
Predicting the subcellular location of proteins from text using support vector machines
-
Stapley, B. J., Kelley, L. A., and Sternberg, M. J. (2002) Predicting the subcellular location of proteins from text using support vector machines. Pac. Symp. Biocomput. 374-385.
-
(2002)
Pac. Symp. Biocomput
, pp. 374-385
-
-
Stapley, B.J.1
Kelley, L.A.2
Sternberg, M.J.3
-
58
-
-
34447304880
-
SherLoc: High-accuracy prediction of protein subcellular localization by integrating text and protein sequence data
-
Shatkay, H., Hoglund, A., Brady, S., Blum, T., Donnes, P., and Kohlbacher, O. (2007) SherLoc: high-accuracy prediction of protein subcellular localization by integrating text and protein sequence data. Bioinformatics 23(11), 1410-1417.
-
(2007)
Bioinformatics
, vol.23
, Issue.11
, pp. 1410-1417
-
-
Shatkay, H.1
Hoglund, A.2
Brady, S.3
Blum, T.4
Donnes, P.5
Kohlbacher, O.6
-
59
-
-
39049189808
-
Significantly improved prediction of subcellular localization by integrating text and protein sequence data
-
Hoglund, A., Blum, T., Brady, S., et al. (2006) Significantly improved prediction of subcellular localization by integrating text and protein sequence data. Pac. Symp. Biocomput. 16-27.
-
(2006)
Pac. Symp. Biocomput
, pp. 16-27
-
-
Hoglund, A.1
Blum, T.2
Brady, S.3
-
60
-
-
15944386344
-
Go molecular function terms are predictive of subcellular localization
-
Lu, Z. and Hunter, L. (2005) Go molecular function terms are predictive of subcellular localization. Pac. Symp. Biocomput. 151-161.
-
(2005)
Pac. Symp. Biocomput
, pp. 151-161
-
-
Lu, Z.1
Hunter, L.2
-
61
-
-
0036796319
-
Using text analysis to identify functionally coherent gene groups
-
Raychaudhuri, S., Schutze, H., and Altman, R. B. (2002) Using text analysis to identify functionally coherent gene groups. Genome Res. 12(10), 1582-1590.
-
(2002)
Genome Res
, vol.12
, Issue.10
, pp. 1582-1590
-
-
Raychaudhuri, S.1
Schutze, H.2
Altman, R.B.3
-
62
-
-
18744414524
-
GOAnno: GO annotation based on multiple alignment
-
Chalmel, F., Lardenois, A., Thompson, J. D., et al. (2005) GOAnno: GO annotation based on multiple alignment. Bioinformatics 21(9), 2095-2096.
-
(2005)
Bioinformatics
, vol.21
, Issue.9
, pp. 2095-2096
-
-
Chalmel, F.1
Lardenois, A.2
Thompson, J.D.3
-
63
-
-
0344480548
-
Inferring sub-cellular localization through automated lexical analysis
-
Nair, R. and Rost, B. (2002) Inferring sub-cellular localization through automated lexical analysis. Bioinformatics 18(Suppl. 1), S78-S86.
-
(2002)
Bioinformatics
, vol.18
, Issue.SUPPL. 1
-
-
Nair, R.1
Rost, B.2
-
64
-
-
1542400030
-
Predicting subcellular localization of proteins using machine-learned classifiers
-
Lu, Z., Szafron, D., Greiner, R., et al. (2004) Predicting subcellular localization of proteins using machine-learned classifiers. Bioinformatics 20(4), 547-556.
-
(2004)
Bioinformatics
, vol.20
, Issue.4
, pp. 547-556
-
-
Lu, Z.1
Szafron, D.2
Greiner, R.3
-
65
-
-
0031694515
-
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(6), 542-543.
-
(1998)
Bioinformatics
, vol.14
, Issue.6
, pp. 542-543
-
-
Tamames, J.1
Ouzounis, C.2
Casari, G.3
Sander, C.4
Valencia, A.5
-
67
-
-
0010327861
-
Nearest Neighbor (NN) Norms: NN Pattern Classification Techniques
-
Los Alamitos, CA
-
Dasarathy, B. V. (1991) Nearest Neighbor (NN) Norms: NN Pattern Classification Techniques. IEEE Computer Society Press, Los Alamitos, CA.
-
(1991)
IEEE Computer Society Press
-
-
Dasarathy, B.V.1
-
68
-
-
0034776419
-
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. Bioinformatics 17(10), 920-926.
-
(2001)
Bioinformatics
, vol.17
, Issue.10
, pp. 920-926
-
-
Kretschmann, E.1
Fleischmann, W.2
Apweiler, R.3
-
69
-
-
0032822429
-
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(7-8), 528-535.
-
(1999)
Bioinformatics
, vol.15
, Issue.7-8
, pp. 528-535
-
-
Eisenhaber, F.1
Bork, P.2
-
70
-
-
0344417851
-
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(3), 228-233.
-
(1999)
Bioinformatics
, vol.15
, Issue.3
, pp. 228-233
-
-
Fleischmann, W.1
Moller, S.2
Gateau, A.3
Apweiler, R.4
-
71
-
-
0036677029
-
Predicting protein cellular localization using a domain projection method
-
Mott, R., Schultz, J., Bork, P., and Ponting. C. P. (2002) Predicting protein cellular localization using a domain projection method. Genome Res. 12(8), 1168-1174.
-
(2002)
Genome Res
, vol.12
, Issue.8
, pp. 1168-1174
-
-
Mott, R.1
Schultz, J.2
Bork, P.3
Ponting, C.P.4
-
72
-
-
33846895496
-
Using motifs in the prediction of eukaryotic protein subcellular localization
-
Xie, D., Li, A., Lin, X., Wang, M., Jiang, Z., and Feng, H. (2005) Using motifs in the prediction of eukaryotic protein subcellular localization. Conf. Proc. IEEE Eng. Med. Biol. Soc. 3, 2802-2804.
-
(2005)
Conf. Proc. IEEE Eng. Med. Biol. Soc
, vol.3
, pp. 2802-2804
-
-
Xie, D.1
Li, A.2
Lin, X.3
Wang, M.4
Jiang, Z.5
Feng, H.6
-
73
-
-
27744493876
-
pTARGET: A new method for predicting protein subcellular localization in eukaryotes
-
Guda, C. and Subramaniam, S. (2005) pTARGET: a new method for predicting protein subcellular localization in eukaryotes. Bioinformatics 21(21), 3963-3969.
-
(2005)
Bioinformatics
, vol.21
, Issue.21
, pp. 3963-3969
-
-
Guda, C.1
Subramaniam, S.2
-
74
-
-
16244398103
-
Mimicking cellular sorting improves prediction of subcellular localization
-
Nair, R. and Rost, B. (2005) Mimicking cellular sorting improves prediction of subcellular localization. J. Mol. Biol. 348(1), 85-100.
-
(2005)
J. Mol. Biol
, vol.348
, Issue.1
, pp. 85-100
-
-
Nair, R.1
Rost, B.2
-
75
-
-
0020132173
-
Correlation of the amino acid composition of a protein to its structural and biological characteristics
-
Nishikawa, K. and Ooi, T. (1982) Correlation of the amino acid composition of a protein to its structural and biological characteristics. J. Biochem. 91, 1821-1824.
-
(1982)
J. Biochem
, vol.91
, pp. 1821-1824
-
-
Nishikawa, K.1
Ooi, T.2
-
76
-
-
0028239038
-
Discrimination of intracellular and extracellular proteins using amino acid composition and residue-pair frequencies
-
Nakashima, H. and Nishikawa, K. (1994) Discrimination of intracellular and extracellular proteins using amino acid composition and residue-pair frequencies. J. Mol. Biol. 238(1), 54-61.
-
(1994)
J. Mol. Biol
, vol.238
, Issue.1
, pp. 54-61
-
-
Nakashima, H.1
Nishikawa, K.2
-
77
-
-
0032548904
-
Adaptation of protein surfaces to subcellular location
-
Andrade, M. A., O'Donoghue, S. I., and Rost, B. (1998) Adaptation of protein surfaces to subcellular location. J. Mol. Biol. 276(2), 517-525.
-
(1998)
J. Mol. Biol
, vol.276
, Issue.2
, pp. 517-525
-
-
Andrade, M.A.1
O'Donoghue, S.I.2
Rost, B.3
-
78
-
-
0025933503
-
Expert system for predicting protein localization sites in gram-negative bacteria
-
Nakai, K. and Kanehisa, M. (1991) Expert system for predicting protein localization sites in gram-negative bacteria. Proteins 11, 95-110.
-
(1991)
Proteins
, vol.11
, pp. 95-110
-
-
Nakai, K.1
Kanehisa, M.2
-
79
-
-
0032077533
-
Using neural networks for prediction of the subcellular location of proteins
-
Reinhardt, A. and Hubbard, T. (1998) Using neural networks for prediction of the subcellular location of proteins. Nucleic Acids Res. 26(9), 2230-2236.
-
(1998)
Nucleic Acids Res
, vol.26
, Issue.9
, pp. 2230-2236
-
-
Reinhardt, A.1
Hubbard, T.2
-
80
-
-
0034843744
-
Support vector machine approach for protein subcellular localization prediction
-
Hua, S. and Sun, Z. (2001) Support vector machine approach for protein subcellular localization prediction. Bioinformatics 17(8), 721-728.
-
(2001)
Bioinformatics
, vol.17
, Issue.8
, pp. 721-728
-
-
Hua, S.1
Sun, Z.2
-
82
-
-
0141515750
-
Prediction of protein subcellular locations by support vector machines using compositions of amino acids and amino acid pairs
-
Park, K. J. and Kanehisa, M. (2003) Prediction of protein subcellular locations by support vector machines using compositions of amino acids and amino acid pairs. Bioinformatics 19(13), 1656-1663.
-
(2003)
Bioinformatics
, vol.19
, Issue.13
, pp. 1656-1663
-
-
Park, K.J.1
Kanehisa, M.2
-
83
-
-
0035672036
-
Support vector machines for prediction of protein subcellular location by incorporating quasi-sequence-order effect
-
Cai, Y. D., Liu, X. J., Xu, X. B., and Chou, K. C. (2002) Support vector machines for prediction of protein subcellular location by incorporating quasi-sequence-order effect. J. Cell. Biochem. 84(2), 343-348.
-
(2002)
J. Cell. Biochem
, vol.84
, Issue.2
, pp. 343-348
-
-
Cai, Y.D.1
Liu, X.J.2
Xu, X.B.3
Chou, K.C.4
-
84
-
-
0345305854
-
Prediction and classification of protein subcellular location-sequence-order effect and pseudo amino acid composition
-
Chou, K. C. and Cai, Y. D. (2003) Prediction and classification of protein subcellular location-sequence-order effect and pseudo amino acid composition. J. Cell. Biochem. 90(6), 1250-1260.
-
(2003)
J. Cell. Biochem
, vol.90
, Issue.6
, pp. 1250-1260
-
-
Chou, K.C.1
Cai, Y.D.2
-
85
-
-
25444506574
-
pSLIP: SVM based protein subcellular localization prediction using multiple physicochemical properties
-
Sarda, D., Chua, G. H., Li, K. B, and Krishnan, A. (2005) pSLIP: SVM based protein subcellular localization prediction using multiple physicochemical properties. BMC Bioinform. 6, 152.
-
(2005)
BMC Bioinform
, vol.6
, pp. 152
-
-
Sarda, D.1
Chua, G.H.2
Li, K.B.3
Krishnan, A.4
-
86
-
-
34248383193
-
Subcellular localization prediction with new protein encoding schemes
-
Ogul, H. and Mumcuogu, E. U. (2007) Subcellular localization prediction with new protein encoding schemes. IEEE/ACM Trans. Comput. Biol. Bioinform. 4(2), 227-232.
-
(2007)
IEEE/ACM Trans. Comput. Biol. Bioinform
, vol.4
, Issue.2
, pp. 227-232
-
-
Ogul, H.1
Mumcuogu, E.U.2
-
87
-
-
24644450611
-
Predicting protein subcellular localization: Past, present, and future
-
Donnes, P. and Hoglund, A. (2004) Predicting protein subcellular localization: past, present, and future. Genomics Proteomics Bioinform. 2(4), 209-215.
-
(2004)
Genomics Proteomics Bioinform
, vol.2
, Issue.4
, pp. 209-215
-
-
Donnes, P.1
Hoglund, A.2
-
88
-
-
34248531753
-
Locating proteins in the cell using TargetP, SignalP and related tools
-
Emanuelsson, O., Brunak, S., von Heijne, G., and Nielsen, H. (2007) Locating proteins in the cell using TargetP, SignalP and related tools. Nat. Protoc. 2(4), 953-971.
-
(2007)
Nat. Protoc
, vol.2
, Issue.4
, pp. 953-971
-
-
Emanuelsson, O.1
Brunak, S.2
von Heijne, G.3
Nielsen, H.4
-
89
-
-
33746218840
-
Prediction of protein subcellular localization
-
Yu, C. S., Chen, Y. C., Lu, C. H., and Hwang, J. K. (2006) Prediction of protein subcellular localization. Proteins 64(3), 643-651.
-
(2006)
Proteins
, vol.64
, Issue.3
, pp. 643-651
-
-
Yu, C.S.1
Chen, Y.C.2
Lu, C.H.3
Hwang, J.K.4
-
90
-
-
33747375161
-
-
Guda, C. (2006) pTARGET: a web server for predicting protein subcellular localization. Nucleic Acids Res. 34(Web Server issue), W210-213.
-
Guda, C. (2006) pTARGET: a web server for predicting protein subcellular localization. Nucleic Acids Res. 34(Web Server issue), W210-213.
-
-
-
-
91
-
-
33747872590
-
BaCelLo: A balanced subcellular localization predictor
-
Pierleoni, A., Martelli, P. L., Fariselli, P., and Casadio, R. (2006) BaCelLo: a balanced subcellular localization predictor. Bioinformatics 22(14), e408-416.
-
(2006)
Bioinformatics
, vol.22
, Issue.14
-
-
Pierleoni, A.1
Martelli, P.L.2
Fariselli, P.3
Casadio, R.4
-
92
-
-
33947407688
-
Evaluation and comparison of mammalian subcellular localization prediction methods
-
Sprenger, J., Fink, J. L., and Teasdale, R. D. (2006) Evaluation and comparison of mammalian subcellular localization prediction methods. BMC Bioinform. 7(Suppl. 5), S3.
-
(2006)
BMC Bioinform
, vol.7
, Issue.SUPPL. 5
-
-
Sprenger, J.1
Fink, J.L.2
Teasdale, R.D.3
-
93
-
-
33748878164
-
Methods for predicting bacterial protein subcellular localization
-
Gardy, J. L. and Brinkman, F. S. (2006) Methods for predicting bacterial protein subcellular localization. Nat. Rev. Microbiol. 4(10), 741-751.
-
(2006)
Nat. Rev. Microbiol
, vol.4
, Issue.10
, pp. 741-751
-
-
Gardy, J.L.1
Brinkman, F.S.2
-
94
-
-
0036891705
-
Sequence conserved for subcellular localization
-
Nair, R. and Rost, B. (2002) Sequence conserved for subcellular localization. Protein Sci. 11(12), 2836-2847.
-
(2002)
Protein Sci
, vol.11
, Issue.12
, pp. 2836-2847
-
-
Nair, R.1
Rost, B.2
-
95
-
-
0031240609
-
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(5-6), 581-599.
-
(1997)
Int. J. Neural Syst
, vol.8
, Issue.5-6
, pp. 581-599
-
-
Nielsen, H.1
Engelbrecht, J.2
Brunak, S.3
von Heijne, G.4
-
96
-
-
2942589051
-
Predotar: A tool for rapidly screening proteomes for N-terminal targeting sequences
-
Small, I., Peeters, N., Legeai, F., and Lurin, C. (2004) Predotar: a tool for rapidly screening proteomes for N-terminal targeting sequences. Proteomics 4(6), 1581-1590.
-
(2004)
Proteomics
, vol.4
, Issue.6
, pp. 1581-1590
-
-
Small, I.1
Peeters, N.2
Legeai, F.3
Lurin, C.4
|