Studies of spectral properties of short genes using the wavelet subspace Hilbert–Huang transform (WSHHT)

[1]  A. Antoniou.  Digital Filters: Analysis, Design and Applications , 2018 .

[2]  Y. Saeys,et al.  In search of the small ones: improved prediction of short exons in vertebrates, plants, fungi and protists , 2007, Bioinform..

[3]  Nourédine Yahya Bey.  Extraction of signals buried in noise Part II: Experimental results , 2006, Signal Process..

[4]  Engin Avci,et al.  Speech recognition using a wavelet packet adaptive network based fuzzy inference system , 2006, Expert Syst. Appl..

[5]  Elif Derya Übeyli,et al.  A recurrent neural network classifier for Doppler ultrasound blood flow signals , 2006, Pattern Recognit. Lett..

[6]  Nourédine Yahya Bey.  Extraction of signals buried in noise. Part I: Fundamentals , 2006, Signal Process..

[7]  Burkhard Morgenstern,et al.  Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources , 2006, BMC Bioinformatics.

[8]  Lihua Yang,et al.  The study of the intermittency test filtering character of Hilbert-Huang transform , 2005, Math. Comput. Simul..

[9]  P. Tse,et al.  An improved Hilbert–Huang transform and its application in vibration signal analysis , 2005 .

[10]  J. Shapiro,et al.  Why repetitive DNA is essential to genome function , 2005, Biological reviews of the Cambridge Philosophical Society.

[11]  J. Shapiro.  A 21st century view of evolution: genome system architecture, repetitive DNA, and natural genetic engineering. , 2005, Gene.

[12]  Sofia C. Olhede,et al.  'Analytic' wavelet thresholding , 2004 .

[13]  Steven Salzberg,et al.  TigrScan and GlimmerHMM: two open source ab initio eukaryotic gene-finders , 2004, Bioinform..

[14]  M. Brent,et al.  Recent advances in gene structure prediction. , 2004, Current opinion in structural biology.

[15]  A. Jasińska,et al.  Repetitive sequences that shape the human transcriptome , 2004, FEBS letters.

[16]  C. Guedes Soares,et al.  Identification of the components of wave spectra by the Hilbert Huang transform method , 2004 .

[17]  Yizhar Lavner,et al.  Gene prediction by spectral rotation measure: a new method for identifying protein-coding regions. , 2003, Genome research.

[18]  Hong Yan,et al.  Classification of short human exons and introns based on statistical features. , 2003, Physical review. E, Statistical, nonlinear, and soft matter physics.

[19]  Paul Dan Cristea,et al.  Large scale features in DNA genomic signals , 2003, Signal Process..

[20]  Feng-Biao Guo,et al.  ZCURVE: a new system for recognizing protein-coding genes in bacterial and archaeal genomes. , 2003, Nucleic acids research.

[21]  Alan Wee-Chung Liew,et al.  DB-Curve: a novel 2D method of DNA sequence visualization and representation , 2003 .

[22]  Rong Jiang,et al.  Wavelet based feature extraction and multiple classifiers for electricity fraud detection , 2002, IEEE/PES Transmission and Distribution Conference and Exhibition.

[23]  P. Rouzé,et al.  Current methods of gene prediction, their strengths and weaknesses. , 2002, Nucleic acids research.

[24]  J. Shapiro,et al.  Repetitive DNA, genome system architecture and genome reorganization. , 2002, Research in microbiology.

[25]  Chun-Ting Zhang,et al.  Recognizing shorter coding regions of human genes based on the statistics of stop codons. , 2002, Biopolymers.

[26]  Dimitris Anastassiou,et al.  Genomic signal processing , 2001, IEEE Signal Process. Mag..

[27]  Dimitris Anastassiou,et al.  Frequency-domain analysis of biomolecular sequences , 2000, Bioinform..

[28]  Thomas Schiex,et al.  EUGÈNE: An Eukaryotic Gene Finder That Combines Several Sources of Evidence , 2000, JOBIM.

[29]  S. Buldyrev,et al.  Species independence of mutual information in coding and noncoding DNA. , 2000, Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics.

[30]  T A Thanaraj,et al.  Positional characterisation of false positives from computational prediction of human splice sites. , 2000, Nucleic acids research.

[31]  Y C Fung,et al.  Engineering analysis of biological variables: an example of blood pressure over 1 day. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[32]  M. Borodovsky,et al.  GeneMark.hmm: new solutions for gene finding. , 1998, Nucleic acids research.

[33]  S. Tiwari,et al.  Prediction of probable genes by Fourier analysis of genomic sequences , 1997, Comput. Appl. Biosci..

[34]  Wentian Li,et al.  The Study of Correlation Structures of DNA Sequences: A Critical Review , 1997, Comput. Chem..

[35]  James W. Fickett,et al.  The Gene Identification Problem: An Overview for Developers , 1995, Comput. Chem..

[36]  Michael Feldman,et al.  Non-linear system vibration analysis using Hilbert transform--II. Forced vibration analysis method 'Forcevib' , 1994 .

[37]  Michael Feldman,et al.  Non-linear system vibration analysis using Hilbert transform--I. Free vibration analysis method 'Freevib' , 1994 .

[38]  C. Peng,et al.  Mosaic organization of DNA nucleotides. , 1994, Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics.

[39]  Mark Borodovsky,et al.  GENMARK: Parallel Gene Recognition for Both DNA Strands , 1993, Comput. Chem..

[40]  J. Fickett,et al.  Assessment of protein coding measures. , 1992, Nucleic acids research.

[41]  A. Lapedes,et al.  Determination of eukaryotic protein coding regions using neural networks and information theory. , 1992, Journal of molecular biology.

[42]  R. Voss,et al.  Evolution of long-range fractal correlations and 1/f noise in DNA base sequences. , 1992, Physical review letters.

[43]  Wentian Li,et al.  Long-range correlation and partial 1/fα spectrum in a noncoding DNA sequence , 1992 .

[44]  J. Toulmé,et al.  Phosphoroselenoate oligodeoxynucleotides: synthesis, physico-chemical characterization, anti-sense inhibitory properties and anti-HIV activity. , 1989, Nucleic acids research.

[45]  Stéphane Mallat,et al.  A Theory for Multiresolution Signal Decomposition: The Wavelet Representation , 1989, IEEE Trans. Pattern Anal. Mach. Intell..

[46]  J. Hawkins,et al.  A survey on intron and exon lengths. , 1988, Nucleic acids research.

[47]  D C Shields,et al.  Codon usage patterns in Escherichia coli, Bacillus subtilis, Saccharomyces cerevisiae, Schizosaccharomyces pombe, Drosophila melanogaster and Homo sapiens; a review of the considerable within-species diversity. , 1988, Nucleic acids research.

[48]  R. Linsker,et al.  A measure of DNA periodicity. , 1986, Journal of theoretical biology.

[49]  R. Staden,et al.  Computer methods to locate signals in nucleic acid sequences , 1984, Nucleic Acids Res..

[50]  J. Fickett.  Recognition of protein coding regions in DNA sequences. , 1982, Nucleic acids research.

[51]  A. D. McLachlan,et al.  Codon preference and its use in identifying protein coding regions in long DNA sequences , 1982, Nucleic Acids Res..

[52]  J. C. Shepherd.  Method to determine the reading frame of a protein from the purine/pyrimidine genome sequence and its possible evolutionary justification. , 1981, Proceedings of the National Academy of Sciences of the United States of America.

[53]  M J Shulman,et al.  The coding function of nucleotide sequences can be discerned by statistical analysis. , 1981, Journal of theoretical biology.

[54]  M. Gouy,et al.  Codon catalog usage and the genome hypothesis. , 1980, Nucleic acids research.

[55]  L. L. Gatlin,et al.  The information content of DNA. , 1966, Journal of theoretical biology.

[56]  J. Josse,et al.  Enzymatic synthesis of deoxyribonucleic acid. VIII. Frequencies of nearest neighbor base sequences in deoxyribonucleic acid. , 1961, The Journal of biological chemistry.

[57]  N. Sueoka,et al.  A STATISTICAL ANALYSIS OF DEOXYRIBONUCLEIC ACID DISTRIBUTION IN DENSITY GRADIENT CENTRIFUGATION. , 1959, Proceedings of the National Academy of Sciences of the United States of America.

[58]  M. Longuet-Higgins.  The statistical analysis of a random, moving surface , 1957, Philosophical Transactions of the Royal Society of London. Series A, Mathematical and Physical Sciences.

[59]  S. Rice.  Mathematical analysis of random noise , 1944 .

[60]  Michael Lynch,et al.  The Origins of Genome Architecture , 2007 .

[61]  John C. W. Shepherd,et al.  Periodic correlations in DNA sequences and evidence suggesting their evolutionary origin in a comma-less genetic code , 2005, Journal of Molecular Evolution.

[62]  Khaled H. Hamed,et al.  Time-frequency analysis , 2003 .

[63]  N. Huang,et al.  A new view of nonlinear water waves: the Hilbert spectrum , 1999 .

[64]  S. Salzberg,et al.  Microbial gene identification using interpolated Markov models. , 1998, Nucleic acids research.

[65]  J. C. Hiebert,et al.  MUTUAL EXCITATION VIA A TWO-PHONON SURFACE INTERACTION IN C$sup 12$(C$sup 12$, C$sup 12$*)C$sup 12$* , 1962 .