Beyond String Algorithms: Protein Sequence Analysis Using Wavelet Transforms

[1]  B. Rost,et al.  Conservation and prediction of solvent accessibility in protein families , 1994, Proteins.

[2]  F. Gage,et al.  Age-associated neuronal atrophy occurs in the primate brain and is reversible by growth factor gene therapy. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[3]  T L Blundell,et al.  Use of amino acid environment-dependent substitution tables and conformational propensities in structure prediction from aligned sequences of homologous proteins. I. Solvent accessibility classes. , 1994, Journal of molecular biology.

[4]  R. Doolittle,et al.  A simple method for displaying the hydropathic character of a protein. , 1982, Journal of molecular biology.

[5]  Xiaoyong Zou,et al.  Prediction of protein secondary structure based on continuous wavelet transform. , 2003, Talanta.

[6]  Pietro Liò,et al.  Wavelet change-point prediction of transmembrane proteins , 2000, Bioinform..

[7]  S Roy,et al.  Hydrophobic basis of packing in globular proteins. , 1980, Proceedings of the National Academy of Sciences of the United States of America.

[8]  Arun Krishnan,et al.  Rapid detection of conserved regions in protein sequences using wavelets , 2004, Silico Biol..

[9]  Ingrid Daubechies,et al.  Ten Lectures on Wavelets , 1992 .

[10]  Irena Cosic,et al.  An Overview of Protein Sequence Comparisons Using Wavelets , 2001 .

[11]  Satoru Kuhara,et al.  The hydrophobic cores of proteins predicted by wavelet analysis , 1999, Bioinform..

[12]  B Rost,et al.  Pitfalls of protein sequence analysis. , 1996, Current opinion in biotechnology.

[13]  R. Aalberse,et al.  Structural biology of allergens. , 2000, The Journal of allergy and clinical immunology.

[14]  A. Lupas,et al.  Predicting coiled coils from protein sequences , 1991, Science.

[15]  Charles K. Chui,et al.  An Introduction to Wavelets , 1992 .

[16]  Ali S. Hadi,et al.  Finding Groups in Data: An Introduction to Chster Analysis , 1991 .

[17]  B. Rost,et al.  Topology prediction for helical transmembrane proteins at 86% accuracy–Topology prediction at 86% accuracy , 1996, Protein science : a publication of the Protein Society.

[18]  Wim Sweldens,et al.  An Overview of Wavelet Based Multiresolution Analyses , 1994, SIAM Rev..

[19]  Bin Ma,et al.  PatternHunter: faster and more sensitive homology search , 2002, Bioinform..

[20]  Michael B. Stadler,et al.  Allergenicity prediction by protein sequence , 2003, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[21]  A. Lesk.  COMPUTATIONAL MOLECULAR BIOLOGY , 1988, Proceeding of Data For Discovery.

[22]  A. Silvanovich,et al.  Bioinformatic Methods for Allergenicity Assessment Using a Comprehensive Allergen Database , 2002, International Archives of Allergy and Immunology.

[23]  Charles Elkan,et al.  Fitting a Mixture Model By Expectation Maximization To Discover Motifs In Biopolymer , 1994, ISMB.

[24]  Christos Faloutsos,et al.  Fast subsequence matching in time-series databases , 1994, SIGMOD '94.

[25]  D. Higgins,et al.  T-Coffee: A novel method for fast and accurate multiple sequence alignment. , 2000, Journal of molecular biology.

[26]  I. Daubechies.  Orthonormal bases of compactly supported wavelets , 1988 .

[27]  Dr. Irena Cosic.  The Resonant Recognition Model of Macromolecular Bioactivity , 1997, BioMethods.

[28]  Ross Ihaka,et al.  Gentleman R: R: A language for data analysis and graphics , 1996 .

[29]  Giri Narasimhan,et al.  Mining Protein Sequences for Motifs , 2002, J. Comput. Biol..

[30]  Liisa Holm,et al.  Rapid automatic detection and alignment of repeats in protein sequences , 2000, Proteins.

[31]  Michael F. Shlesinger,et al.  WAVELET TRANSFORMATION OF PROTEIN HYDROPHOBICITY SEQUENCES SUGGESTS THEIR MEMBERSHIPS IN STRUCTURAL FAMILIES , 1997 .

[32]  S. B. Needleman,et al.  A general method applicable to the search for similarities in the amino acid sequence of two proteins. , 1970, Journal of molecular biology.

[33]  E. Marcotte,et al.  A fast algorithm for genome‐wide analysis of proteins with repeated sequences , 1999, Proteins.

[34]  R. Sauer,et al.  Transcription factors: structural families and principles of DNA recognition. , 1992, Annual review of biochemistry.

[35]  S H Kim,et al.  Predicting surface exposure of amino acids from protein sequence. , 1990, Protein engineering.

[36]  T L Blundell,et al.  Comparison of solvent-inaccessible cores of homologous proteins: definitions useful for protein modelling. , 1987, Protein engineering.

[37]  Christos Faloutsos,et al.  Efficient Similarity Search In Sequence Databases , 1993, FODO.