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  • CompChem,97,Li
    1997 Abstract The study of correlation structure in the primary sequences of DNA is reviewed The issues reviewed include symmetries among 16 base base correlation functions accurate estimation of correlation measures the relationship between 1 f and Lorentzian spectra heterogeneity in DNA sequences different modeling strategies of the correlation structure of DNA sequences the difference of correlation structure between coding and non coding regions besides the period 3 pattern and

    Original URL path: http://linkage.rockefeller.edu/dnacorr/l-cc97-l.html (2012-11-26)
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  • BioPhysJ,97,Viswanathan
    these new methods we address a number of issues relating to the mosaic structure of genomic DNA We find several distinct characteristic patch sizes in certain genomic sequences and compare contrast and quantify the correlation properties of different sequences including a number of yeast human and prokaryotic sequences We exclude the possibility that the correlation properties and the known mosaic structure of DNA can be explained either by simple Markov

    Original URL path: http://linkage.rockefeller.edu/dnacorr/l-bj97-v.html (2012-11-26)
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  • JTheoBio,97,Zhang
    alternating group of order 4 in which the permuted objects are four bases The symmetry of DNA sequences is described by the DNA group which is isomorphic to the tetrahedral group The matrix representation for the DNA group has been obtained and used to establish the relationships between the transforms of bases and the rotations of the tetrahedron It is found that any DNA sequence can be uniquely described by

    Original URL path: http://linkage.rockefeller.edu/dnacorr/l-jtb97-z.html (2012-11-26)
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  • PhyRevE,96,Bernaola
    law distribution of patch lengths can be revealed Some of the identified DNA domains were uncorrelated but most of them continued displaying long range correlations even after several steps of recursive segmentation thus indicating a complex multi length scaled structure for the sequence On the other hand by separately shuffling each segment or by randomly rearranging the order in which the different segments occur in the sequence shuffled sequences preservating

    Original URL path: http://linkage.rockefeller.edu/dnacorr/l-pre96-bro.html (2012-11-26)
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  • PhyLettA,96,Chechetkin
    It is shown that the levels of ordering in protein coding and noncoding stretches of DNA sequences reflect the complexity of the spatial structures associated with them The more complicated structures need higher information and are encoded by the more

    Original URL path: http://linkage.rockefeller.edu/dnacorr/l-pla96-cl.html (2012-11-26)
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  • JTheoBio,96,Chechetkin
    217 1996 Abstract We present a method for unified statistical analysis of short and long range correlations between various nucleotides in genomic DNA strands The approach is based on the mutual study of Fourier structure factor spectra and pair correlation functions The analysis of cross correlations in the different ranges of structural spectra permits identification of the main sources of correlations namely the coherent point mutations coincident periodicities or large

    Original URL path: http://linkage.rockefeller.edu/dnacorr/l-jtb96-ct.html (2012-11-26)
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  • JTheoBio,96,Lio
    analysed some aspects of the primary structure of the chromosome of the prokaryote Haemophilus influenzae and of the eukaryote Saccharomyces cerevisiae that share the same G C content In particular we have investigated genomic patchiness over the gene size level 10 Kb and that patchiness due to long homogeneous tracts Long polypurine and polypyimidine tracts that are largely over represented in S cerevisiae chromosomes and under represented in H influenzae

    Original URL path: http://linkage.rockefeller.edu/dnacorr/l-jtb96-l.html (2012-11-26)
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  • MolBio&Evol,96,Lobry
    genomic compartmentalization of base frequencies There was a departure from intrastrand equifrequency between A and T or between C and G showing that the substitution patterns of the two strands of DNA were asymmetric The positions of the boundaries between these compartments were found to coincide with the origin and terminus of chromosome replication and there were more A T and C G deviations in intergenic regions and third codon

    Original URL path: http://linkage.rockefeller.edu/dnacorr/l-mbe96-l.html (2012-11-26)
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