메뉴 건너뛰기




Volumn 4414 LNBI, Issue , 2007, Pages 212-223

Protein remote homology detection based on binary profiles

Author keywords

Binary profile; Latent semantic analysis; Remote homology detection

Indexed keywords

DATABASE SYSTEMS; INFORMATION USE; NATURAL FREQUENCIES; NATURAL LANGUAGE PROCESSING SYSTEMS; SEMANTICS; SUPPORT VECTOR MACHINES;

EID: 34548089252     PISSN: 03029743     EISSN: 16113349     Source Type: Conference Proceeding    
DOI: 10.1007/978-3-540-71233-6_17     Document Type: Conference Paper
Times cited : (17)

References (30)
  • 2
    • 28644451639 scopus 로고    scopus 로고
    • Sensitive detection of sequence similarity using combinatorial pattern discovery: A challenging study of two distantly related protein families
    • Darzentas, N., Rigoutsos, I. and Ouzounis, C. A.: Sensitive detection of sequence similarity using combinatorial pattern discovery: A challenging study of two distantly related protein families. Proteins. 61 (2005) 926-937.
    • (2005) Proteins , vol.61 , pp. 926-937
    • Darzentas, N.1    Rigoutsos, I.2    Ouzounis, C.A.3
  • 3
    • 0742287001 scopus 로고    scopus 로고
    • Combining pairwise sequence similarity and support vector machines for detecting remote protein evolutionary and structural relationships
    • Li, L. and Noble, W. S.: Combining pairwise sequence similarity and support vector machines for detecting remote protein evolutionary and structural relationships. Journal of computational biology. 10 (2003) 857-868.
    • (2003) Journal of computational biology , vol.10 , pp. 857-868
    • Li, L.1    Noble, W.S.2
  • 4
    • 0019887799 scopus 로고
    • Identification of common molecular subsequences
    • Smith, T. F. and Waterman, M. S.: Identification of common molecular subsequences. J Mol Biol. 147(1981)195-197.
    • (1981) J Mol Biol , vol.147 , pp. 195-197
    • Smith, T.F.1    Waterman, M.S.2
  • 6
    • 0025272240 scopus 로고
    • Rapid and sensitive sequence comparison with fastp and fasta
    • Pearson, W. R.: Rapid and sensitive sequence comparison with fastp and fasta. Methods Enzymol. 183 (1990) 63-98.
    • (1990) Methods Enzymol , vol.183 , pp. 63-98
    • Pearson, W.R.1
  • 8
    • 0032438987 scopus 로고    scopus 로고
    • Hidden markov models for detecting remote protein homologies
    • Karplus, K., Barrett, C. and Hughey, R.: Hidden markov models for detecting remote protein homologies. Bioinformatics. 14 (1998) 846-856.
    • (1998) Bioinformatics , vol.14 , pp. 846-856
    • Karplus, K.1    Barrett, C.2    Hughey, R.3
  • 9
    • 5044247759 scopus 로고    scopus 로고
    • Performance of an iterated t-hmm for homology detection
    • Qian, B. and Goldstein, R. A.: Performance of an iterated t-hmm for homology detection. Bioinformatics. 20 (2004) 2175-2180.
    • (2004) Bioinformatics , vol.20 , pp. 2175-2180
    • Qian, B.1    Goldstein, R.A.2
  • 11
    • 0034048878 scopus 로고    scopus 로고
    • A discriminative framework for detecting remote protein homologies
    • Jaakkola, T., Diekhans, M. and Haussler, D.: A discriminative framework for detecting remote protein homologies. J Comput Biol. 7 (2000) 95-114.
    • (2000) J Comput Biol , vol.7 , pp. 95-114
    • Jaakkola, T.1    Diekhans, M.2    Haussler, D.3
  • 12
    • 0036358995 scopus 로고    scopus 로고
    • Leslie, C., Eskin, E. and Noble, W. S.: The spectrum kernel: A string kernel for svm protein classification. Journal. (Year) 564-575.
    • Leslie, C., Eskin, E. and Noble, W. S.: The spectrum kernel: A string kernel for svm protein classification. Journal. (Year) 564-575.
  • 13
    • 1542714925 scopus 로고    scopus 로고
    • Mismatch string kernels for discriminative protein classification
    • Leslie, C., Eskin, E., Cohen, A., Weston, J. and Noble, S. W.: Mismatch string kernels for discriminative protein classification. Bioinformatics. 20 (2004) 467-476.
    • (2004) Bioinformatics , vol.20 , pp. 467-476
    • Leslie, C.1    Eskin, E.2    Cohen, A.3    Weston, J.4    Noble, S.W.5
  • 14
    • 0344033670 scopus 로고    scopus 로고
    • Efficient remote homology detection using local structure
    • Hou, Y., Hsu, W., Lee, M. L. and Bystroff, C.: Efficient remote homology detection using local structure. Bioinformatics. 19 (2003) 2294-2301.
    • (2003) Bioinformatics , vol.19 , pp. 2294-2301
    • Hou, Y.1    Hsu, W.2    Lee, M.L.3    Bystroff, C.4
  • 15
    • 4444273377 scopus 로고    scopus 로고
    • Protein homology detection using string alignment kernels
    • Saigo, H., Vert, J. P., Ueda, N. and Akutsu, T.: Protein homology detection using string alignment kernels. Bioinformatics. 20 (2004) 1682-1689.
    • (2004) Bioinformatics , vol.20 , pp. 1682-1689
    • Saigo, H.1    Vert, J.P.2    Ueda, N.3    Akutsu, T.4
  • 16
    • 28444473707 scopus 로고    scopus 로고
    • Comparison of svm-based methods for remote homology detection
    • Saigo, H., Vert, J. P., Akutsu, T. and Ueda, N.: Comparison of svm-based methods for remote homology detection. Genome Informatics. 13 (2002) 396-397.
    • (2002) Genome Informatics , vol.13 , pp. 396-397
    • Saigo, H.1    Vert, J.P.2    Akutsu, T.3    Ueda, N.4
  • 17
  • 18
    • 32144458563 scopus 로고    scopus 로고
    • Application of latent semantic analysis to protein remote homology detection
    • Dong, Q. W., Wang, X. L. and Lin, L.: Application of latent semantic analysis to protein remote homology detection. Bioinformatics. 22 (2006) 285-290.
    • (2006) Bioinformatics , vol.22 , pp. 285-290
    • Dong, Q.W.1    Wang, X.L.2    Lin, L.3
  • 19
    • 0000274403 scopus 로고    scopus 로고
    • Exploiting latent semantic information in statistical language modeling
    • Bellegarda, J.: Exploiting latent semantic information in statistical language modeling. Proc. IEEE. 88 (2000) 1279-1296.
    • (2000) Proc. IEEE , vol.88 , pp. 1279-1296
    • Bellegarda, J.1
  • 20
    • 28444492367 scopus 로고    scopus 로고
    • Dong, Q. W., Lin, L., Wang, X. L. and Li, M. H.: A pattern-based svm for protein remote homology detection. Journal. 4 Guangzhou, China (Year) 3363-3368.
    • Dong, Q. W., Lin, L., Wang, X. L. and Li, M. H.: A pattern-based svm for protein remote homology detection. Journal. 4 Guangzhou, China (Year) 3363-3368.
  • 21
    • 4944225083 scopus 로고    scopus 로고
    • Remote homology detection: A motif based approach
    • Ben-Hur, A. and Brutlag, D.: Remote homology detection: A motif based approach. Bioinformatics. 19 Suppl 1 (2003) i26-33.
    • (2003) Bioinformatics , vol.19 , Issue.SUPPL. 1
    • Ben-Hur, A.1    Brutlag, D.2
  • 22
    • 0031829372 scopus 로고    scopus 로고
    • Removing near-neighbour redundancy from large protein sequence collections
    • Holm, L. and Sander, C.: Removing near-neighbour redundancy from large protein sequence collections. Bioinformatics. 14 (1998) 423-429.
    • (1998) Bioinformatics , vol.14 , pp. 423-429
    • Holm, L.1    Sander, C.2
  • 23
    • 0028043552 scopus 로고
    • Position-based sequence weights
    • Henikoff, S. and Henikoff, J. G.: Position-based sequence weights. J Mol. Biol. 243 (1994) 574-578.
    • (1994) J Mol. Biol , vol.243 , pp. 574-578
    • Henikoff, S.1    Henikoff, J.G.2
  • 24
  • 27
    • 0001969211 scopus 로고    scopus 로고
    • Use of receiver operating characteristic(roc) analysis to evaluate sequence matching
    • Gribskov, M. and Robinson, N. L.: Use of receiver operating characteristic(roc) analysis to evaluate sequence matching. Computers and Chemistry. 20 (1996) 25-33.
    • (1996) Computers and Chemistry , vol.20 , pp. 25-33
    • Gribskov, M.1    Robinson, N.L.2
  • 28
    • 34548080303 scopus 로고    scopus 로고
    • Bailey, T. L. and Grundy, W. N.: Classifying proteins by family using the product of correlated p-values. Journal. (Year) 10-14.
    • Bailey, T. L. and Grundy, W. N.: Classifying proteins by family using the product of correlated p-values. Journal. (Year) 10-14.
  • 29
    • 0028181441 scopus 로고
    • Hidden markov models in computational biology: Applications to protein modeling
    • Krogh, A., Brown, M., Mian, I. S., Sjolander, K. and Haussler, D.: Hidden markov models in computational biology: Applications to protein modeling. Journal of Molecular Biology. 235 (1994) 1501-1531.
    • (1994) Journal of Molecular Biology , vol.235 , pp. 1501-1531
    • Krogh, A.1    Brown, M.2    Mian, I.S.3    Sjolander, K.4    Haussler, D.5
  • 30
    • 33747135021 scopus 로고    scopus 로고
    • Novel knowledge-based mean force potential at the profile level
    • Dong, Q. w., Wang, X. I. and Lin, L.: Novel knowledge-based mean force potential at the profile level. BMC Bioinformatics. 7: (2006) 324.
    • (2006) BMC Bioinformatics , vol.7 , pp. 324
    • Dong, Q.W.1    Wang, X.I.2    Lin, L.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.