Natural Structure

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Xiaojun Chen - One of the best experts on this subject based on the ideXlab platform.

Diego U. Ferreiro - One of the best experts on this subject based on the ideXlab platform.

  • On the Natural Structure of Amino Acid Patterns in Families of Protein Sequences
    Journal of Physical Chemistry B, 2018
    Co-Authors: Pablo Turjanski, Diego U. Ferreiro
    Abstract:

    All known terrestrial proteins are coded as continuous strings of ≈20 amino acids. The patterns formed by the repetitions of elements in groups of finite sequences describes the Natural architectures of protein families. We present a method to search for patterns and groupings of patterns in protein sequences using a mathematically precise definition for “repetition”, an efficient algorithmic implementation and a robust scoring system with no adjustable parameters. We show that the sequence patterns can be well-separated into disjoint classes according to their recurrence in nested Structures. The statistics of the occurrences of patterns indicate that short repetitions are sufficient to account for the differences between Natural families and randomized groups of sequences by more than 10 standard deviations, while contiguous sequence patterns shorter than 5 residues are effectively random in their occurrences. A small subset of patterns is sufficient to account for a robust ”familiarity” definition betw...

  • On the Natural Structure of Amino Acid Patterns in Families of Protein Sequences.
    arXiv: Biomolecules, 2018
    Co-Authors: Pablo Turjanski, Diego U. Ferreiro
    Abstract:

    All known terrestrial proteins are coded as continuous strings of ~20 amino acids. The patterns formed by the repetitions of elements in groups of finite sequences describes the Natural architectures of protein families. We present a method to search for patterns and groupings of patterns in protein sequences using a mathematically precise definition for 'repetition', an efficient algorithmic implementation and a robust scoring system with no adjustable parameters. We show that the sequence patterns can be well-separated into disjoint classes according to their recurrence in nested Structures. The statistics of pattern occurrences indicate that short repetitions are enough to account for the differences between Natural families and randomized groups by more than 10 standard deviations, while patterns shorter than 5 residues are effectively random. A small subset of patterns is sufficient to account for a robust ''familiarity'' definition of arbitrary sets of sequences.

C.m. Brown - One of the best experts on this subject based on the ideXlab platform.

  • Sequences, Structure, and active vision
    Proceedings. 1991 IEEE Computer Society Conference on Computer Vision and Pattern Recognition, 1991
    Co-Authors: R.d. Rimey, C.m. Brown
    Abstract:

    Sequences of symbols generated by a visual and action sequence provide information about the Natural Structure of the world. HMMs (hidden Markov models) provide one way to learn (recover), store, produce, manipulate, and analyze both visual sequences and associated knowledge Structures for computer vision.

Maria Ronco - One of the best experts on this subject based on the ideXlab platform.

  • Tridendriform Structure on combinatorial Hopf algebras
    Journal of Algebra, 2010
    Co-Authors: Emily Burgunder, Maria Ronco
    Abstract:

    We extend the definition of tridendriform bialgebra by introducing a parameter q. The subspace of primitive elements of a q-tridendriform bialgebra is equipped with an associative product and a Natural Structure of brace algebra, related by a distributive law. This data is called q-Gerstenhaber–Voronov algebras. We prove the equivalence between the categories of conilpotent q-tridendriform bialgebras and of q-Gerstenhaber–Voronov algebras. The space spanned by surjective maps between finite sets, as well as the space spanned by parking functions, have a Natural Structure of q-tridendriform bialgebra, denoted ST(q) and PQSym(q)∗, in such a way that ST(q) is a sub-tridendriform bialgebra of PQSym(q)∗. Finally we show that the bialgebra of M-permutations defined by T. Lam and P. Pylyavskyy comes from a q-tridendriform algebra which is a quotient of ST(q).

  • Tridendriform Structure on combinatorial Hopf algebras
    arXiv: Rings and Algebras, 2009
    Co-Authors: Emily Burgunder, Maria Ronco
    Abstract:

    We extend the definition of tridendriform bialgebra by introducing a weight q. The subspace of primitive elements of a q-tridendriform bialgebra is equipped with an associative product and a Natural Structure of brace algebra, related by a distributive law. This data is called q-Gerstenhaber-Voronov algebras. We prove the equivalence between the categories of connected q-tridendriform bialgebras and of q-Gerstenhaber-Voronov algebras. The space spanned by surjective maps, as well as the space spanned by parking functions, have Natural Structures of q-tridendriform bialgebras, denoted ST(q) and PQSym(q)*, in such a way that ST(q) is a sub-tridendriform bialgebra of PQSym(q)*. Finally we show that the bialgebra of M-permutations defined by T. Lam and P. Pylyavskyy may be endowed with a Natural Structure of q-tridendriform algebra which is a quotient of ST(q).

D. Krob - One of the best experts on this subject based on the ideXlab platform.