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    2001.(with A. Som, S. Chattopadhyay and J. Chakrabarti) “Codon Distribution In DNA.” Physical Review E, Vol. 63, issue 5, 051908(pp.051908-1- 051908-8). U.S.A.This paper is based on a presumption: triplets in a genetic string behave almost like linguistic structure. The authors of this paper analogically considered genetic string as a body of linguistic structure By virtue of potentiality of occurrence in a certain context, a linguistic unit (like phoneme [In case of codons, all the nucleotides A, G, T, C may be metaphorically considered as smallest units], Morpheme, lexeme [all the triplets/exons are, for the time being metaphorically considered as words], sentence) enters into interdependent syntagmatic relation. Each triplet occurs syntagmatically with each other, e.g., ATG syntagmatically co-occurs with TTT or TGC, i.e., all the 64 triplets have a definite selectional restriction rule and they are subjected to the Projection Principle at the moment of producing innumerable proteins. One may also say that if some triplets are producing same amino acid are said to be in a paradigmatic relationship (one can be substituted by the other). They are metaphorically considered as synonymous. However, there are some crucial questions: in a given syntagm of a genetic string, how the triplets are distributed? Is there any (inter)dependency relationship among triplets? Before going to answer such crucial questions and before going to deploy Chomskian syntactic tool, we had set our primary task to find out the rank-frequency distribution of triplets. We had deployed a particular Statistico-Linguistic Law, i.e., Zipf’s Law, to understand the rank versus frequency distribution of the codons. What we had found was that the Zipf’s exponent differentiates in case of genetic sequences. http://linguistlist.org/pubs/papers/browse-papers-action.cfm?PaperID=7741 http://arxiv.org/abs/physics/0102021 http://prola.aps.org/abstract/PRE/v63/i5/e051908 http://isid.academia.edu/DebaprasadBandyopadhyay/Papers/388910/_Codon_Distribution_In_DNA._ http://www.researchgate.net/publication/220021081_Codon_Distribution_In_DNA_A._Som_S._Chattopadhyay_J._Chakrabarti__Debaprasad_Bandyopadhyay

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    2001.(with A. Som, S. Chattopadhyay and J. Chakrabarti) “Codon Distribution In DNA.” Physical Review E, Vol. 63, issue 5, 051908(pp.051908-1- 051908-8). U.S.A.This paper is based on a presumption: triplets in a genetic string behave almost like linguistic structure. The authors of this paper analogically considered genetic string as a body of linguistic structure By virtue of potentiality of occurrence in a certain context, a linguistic unit (like phoneme [In case of codons, all the nucleotides A, G, T, C may be metaphorically considered as smallest units], Morpheme, lexeme [all the triplets/exons are, for the time being metaphorically considered as words], sentence) enters into interdependent syntagmatic relation. Each triplet occurs syntagmatically with each other, e.g., ATG syntagmatically co-occurs with TTT or TGC, i.e., all the 64 triplets have a definite selectional restriction rule and they are subjected to the Projection Principle at the moment of producing innumerable proteins. One may also say that if some triplets are producing same amino acid are said to be in a paradigmatic relationship (one can be substituted by the other). They are metaphorically considered as synonymous. However, there are some crucial questions: in a given syntagm of a genetic string, how the triplets are distributed? Is there any (inter)dependency relationship among triplets? Before going to answer such crucial questions and before going to deploy Chomskian syntactic tool, we had set our primary task to find out the rank-frequency distribution of triplets. We had deployed a particular Statistico-Linguistic Law, i.e., Zipf’s Law, to understand the rank versus frequency distribution of the codons. What we had found was that the Zipf’s exponent differentiates in case of genetic sequences. http://linguistlist.org/pubs/papers/browse-papers-action.cfm?PaperID=7741 http://arxiv.org/abs/physics/0102021 http://prola.aps.org/abstract/PRE/v63/i5/e051908 http://isid.academia.edu/DebaprasadBandyopadhyay/Papers/388910/_Codon_Distribution_In_DNA._ http://www.researchgate.net/publication/220021081_Codon_Distribution_In_DNA_A._Som_S._Chattopadhyay_J._Chakrabarti__Debaprasad_Bandyopadhyay

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    Codon Distribution in DNA

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    Debaprasad Bandyopadhyay
    2001.(with A. Som, S. Chattopadhyay and J. Chakrabarti) “Codon Distribution In DNA.” Physical Review E, Vol. 63, issue 5, 051908(pp.051908-1- 051908-8). U.S.A.This paper is based on a presumption: triplets in a genetic string behave almost like linguistic structure. The authors of this paper analogically considered genetic string as a body of linguistic structure By virtue of potentiality of occurrence in a certain context, a linguistic unit (like phoneme [In case of codons, all the nucleotides A, G, T, C may be metaphorically considered as smallest units], Morpheme, lexeme [all the triplets/exons are, for the time being metaphorically considered as words], sentence) enters into interdependent syntagmatic relation. Each triplet occurs syntagmatically with each other, e.g., ATG syntagmatically co-occurs with TTT or TGC, i.e., all the 64 triplets have a definite selectional restriction rule and they are subjected to the Projection Principle at the moment of producing innumerable proteins. One may also say that if some triplets are producing same amino acid are said to be in a paradigmatic relationship (one can be substituted by the other). They are metaphorically considered as synonymous. However, there are some crucial questions: in a given syntagm of a genetic string, how the triplets are distributed? Is there any (inter)dependency relationship among triplets? Before going to answer such crucial questions and before going to deploy Chomskian syntactic tool, we had set our primary task to find out the rank-frequency distribution of triplets. We had deployed a particular Statistico-Linguistic Law, i.e., Zipf’s Law, to understand the rank versus frequency distribution of the codons. What we had found was that the Zipf’s exponent differentiates in case of genetic sequences. http://linguistlist.org/pubs/papers/browse-papers-action.cfm?PaperID=7741 http://arxiv.org/abs/physics/0102021 http://prola.aps.org/abstract/PRE/v63/i5/e051908 http://isid.academia.edu/DebaprasadBandyopadhyay/Papers/388910/_Codon_Distribution_In_DNA._ http://www.researchgate.net/publication/220021081_Codon_Distribution_In_DNA_A._Som_S._Chattopadhyay_J._Chakrabarti__Debaprasad_Bandyopadhyay

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    [physics/0102021] Codon Distributions in DNA

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    Codon Distributions in DNA


    A. Som, S. Chattopadhyay, J. Chakrabarti, D. Bandyopadhyay
    (Submitted on 9 Feb 2001)
    The codons, sixtyfour in number, are distributed over the coding parts of DNA sequences. The distribution
    function is the plot of frequency-versus-rank of the codons. These distributions are characterised by
    parameters that are almost universal, i.e., gene independent. There is but a small part that depends on the
    gene. We present the theory to calculate the universal (gene-independent) part. The part that is genespecific, however, has undetermined overlaps and fluctuations.

    Comments: 31 pages, 5 figures


    Subjects:
    Biological Physics (physics.bio-ph); Data Analysis, Statistics and
    Probability (physics.data-an); Quantitative Biology (q-bio)
    DOI:
    10.1103/PhysRevE.63.051908
    Cite as:

    arXiv:physics/0102021v1 [physics.bio-ph]

    Submission history
    From: Sujay Chattopadhyay [view email]
    [v1] Fri, 9 Feb 2001 07:02:56 GMT (24kb)

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    Phys. Rev. E 63, 051908 (2001): Codon distributions in DNA

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    1,*

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    A. Som , S. Chattopadhyay

    Citing Articles (4)

    Physics - spotlighting exceptional research

    1,

    , J. Chakrabarti

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    Bandyopadhyay
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    Department of Theoretical Physics, Indian Association

    for the Cultivation of Science, Calcutta 700 032, India

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    Linguistics Research Unit, Indian Statistical Institute,

    Calcutta 700 035, India

    Received 9 November 2000; revised 16 January 2001; published 18

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    Phys. Rev. E 63, 051908 (2001): Codon distributions in DNA

    Focus: Another Step Back for Wave-Particle

    April 2001

    Duality
    The codons, 64 in number, are distributed over the coding parts of
    DNA sequences. The distribution function is the plot of frequency
    versus rank of the codons. These distributions are characterized by
    parameters that are almost universal, i.e., gene independent. There
    is but a small part that depends on the gene. We present the theory
    to calculate the universal (gene-independent) part. The part that is
    gene-specific, however, has undetermined overlaps and fluctuations.
    2001 The American Physical Society

    URL:
    http://link.aps.org/doi/10.1103/PhysRevE.63.051908
    DOI:
    10.1103/PhysRevE.63.051908
    PACS:
    87.10.+e, 87.15.-v, 05.40.-a, 72.70.+m
    *

    Email address: tpas@mahendra.iacs.res.in

    Email address: tpsc@mahendra.iacs.res.in


    Email address: tpjc@mahendra.iacs.res.in
    Email address: bandyo@isical.ac.in
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    Academic Paper
    Title: Codon Distributions in DNA
    Paper URL: http://arxiv.org/abs/physics/0102021
    Author: S. Chattopadhyay
    Email: click here to access email
    Author: J. Chakrabarti
    Email: click here to access email
    Author: Debaprasad Bandyopadhyay
    Email: click here to access email
    Homepage: http://isid.academia.edu/DebaprasadBandyopadhyay
    Institution: Indian Statistical Institute
    Linguistic Field: Discipline of Linguistics
    Abstract: The symbolic sequences of the exons that make human proteins are subjected to methods of statistical
    linguistics. The ideas developed for the natural languages by G.K. Zipf, when applied to these sequences,
    show a significant promise. In Particular, we argue, The Zipf's exponent differentiate, and hence, identifies
    disparate human sequences. The codons, 64 in number, are distributed over the coding part of DNA
    sequences. Metaphorically speaking, the sequences almost resembles linguistic structure. The distribution
    function is the plot of frequency versus rank of the codons. These distributions are characterized by
    parameters that are almost universal, i.e., gene independent. Authors (A, Som, S.Chattopadhyay, J.
    Chakrobarti and Debaprasad Bandyoapdhyay) present the theory to calculate the universal (gene
    independent) with the help of linguistic theory. The part that is gene specific, however has undetermined
    overlaps and fluctuations.
    Type: Collection
    Status: Completed
    Venue: Indian Association for Cultivation of Science, Kolkata
    Publication Info: Physical Review E, Vol. 63, issue 5, 051908(pp.051908-1- 051908-8). U.S.A.
    URL: http://arxiv.org/abs/physics/0102021

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