Model for Long-range Correlations in DNA Sequences

Model for Long-range Correlations in DNA Sequences

Date: December 1996
Creator: Allegrini, Paolo
Description: We address the problem of the DNA sequences developing a "dynamical" method based on the assumption that the statistical properties of DNA paths are determined by the joint action of two processes, one deterministic, with long-range correlations, and the other random and delta correlated. The generator of the deterministic evolution is a nonlinear map, belonging to a class of maps recently tailored to mimic the processes of weak chaos responsible for the birth of anomalous diffusion. It is assumed that the deterministic process corresponds to unknown biological rules which determine the DNA path, whereas the noise mimics the influence of an infinite-dimensional environment on the biological process under study. We prove that the resulting diffusion process, if the effect of the random process is neglected, is an a-stable Levy process with 1 < a < 2. We also show that, if the diffusion process is determined by the joint action of the deterministic and the random process, the correlation effects of the "deterministic dynamics" are cancelled on the short-range scale, but show up in the long-range one. We denote our prescription to generate statistical sequences as the Copying Mistake Map (CMM). We carry out our analysis of several DNA sequences, ...
Contributing Partner: UNT Libraries
Dynamical approach to Lévy processes

Dynamical approach to Lévy processes

Date: November 1996
Creator: Allegrini, Paolo; Grigolini, Paolo & West, Bruce J.
Description: This article discusses a dynamical approach to Lévy processes, which makes it possible to derive all statistical properties of the diffusion process from the correlation function of the dichotomous fluctuating variable Φy(t).
Contributing Partner: UNT College of Arts and Sciences
Cognitive Scale-Free Networks as a Model for Intermittency in Human Natural Language

Cognitive Scale-Free Networks as a Model for Intermittency in Human Natural Language

Date: 2003
Creator: Allegrini, Paolo; Grigolini, Paolo & Palatella, Luigi
Description: Paper discussing cognitive scale-free networks as a model for intermittency in human natural language.
Contributing Partner: UNT College of Arts and Sciences
Intermittency and scale-free networks: a dynamical model for human language complexity

Intermittency and scale-free networks: a dynamical model for human language complexity

Date: 2004
Creator: Allegrini, Paolo; Grigolini, Paolo & Palatella, Luigi
Description: Article discussing intermittency, scale-free networks, and a dynamical model for human language complexity.
Contributing Partner: UNT College of Arts and Sciences
Site correlation, anomalous diffusion, and enhancement of the localization length

Site correlation, anomalous diffusion, and enhancement of the localization length

Date: November 1, 1996
Creator: Allegrini, Paolo; Bonci, Luca; Grigolini, Paolo & West, Bruce J.
Description: This article discusses site correlation, anomalous diffusion, and enhancement of localization length.
Contributing Partner: UNT College of Arts and Sciences
Renewal, Modulation, and Superstatistics in Times Series

Renewal, Modulation, and Superstatistics in Times Series

Date: April 27, 2006
Creator: Allegrini, Paolo; Barbi, Francesco; Grigolini, Paolo & Paradisi, Paolo
Description: Article discussing two different approaches, referred to as renewal and modulation, to generate time series with a nonexponential distribution of waiting times.
Contributing Partner: UNT College of Arts and Sciences
Non-Poisson Dichotomous Noise: Higher-Order Correlation Functions and Aging

Non-Poisson Dichotomous Noise: Higher-Order Correlation Functions and Aging

Date: October 26, 2004
Creator: Allegrini, Paolo; Grigolini, Paolo; Palatella, Luigi & West, Bruce J.
Description: This article discusses non-Poisson dichotomous noise and higher-order correlation functions and aging.
Contributing Partner: UNT College of Arts and Sciences
Response of Complex Systems to Complex Perturbations: the Complexity Matching Effect

Response of Complex Systems to Complex Perturbations: the Complexity Matching Effect

Date: December 2006
Creator: Allegrini, Paolo; Bologna, Mauro; Grigolini, Paolo & West, Bruce J.
Description: Paper discussing the complexity matching effect.
Contributing Partner: UNT College of Arts and Sciences
Dynamical model for DNA sequences

Dynamical model for DNA sequences

Date: November 1995
Creator: Allegrini, Paolo; Barbi, M.; Grigolini, Paolo & West, Bruce J.
Description: This article discusses a dynamical model for DNA sequences based on the assumption that the statistical properties of DNA paths are determined by the joint action of two processes, one deterministic with long-range correlations and the other random and δ-function correlated.
Contributing Partner: UNT College of Arts and Sciences
Non-Gaussian statistics of anomalous diffusion: The DNA sequences of prokaryotes

Non-Gaussian statistics of anomalous diffusion: The DNA sequences of prokaryotes

Date: September 1998
Creator: Allegrini, Paolo; Buiatti, Marco, 1972-; Grigolini, Paolo & West, Bruce J.
Description: This article discusses a non-Gaussian indicator to measure the deviation from Gaussian statistics of a diffusion process generated by dichotomous fluctuations with infinite memory.
Contributing Partner: UNT College of Arts and Sciences
Fractional Brownian motion as a nonstationary process: An alternative paradigm for DNA sequences

Fractional Brownian motion as a nonstationary process: An alternative paradigm for DNA sequences

Date: April 1998
Creator: Allegrini, Paolo; Buiatti, Marco, 1972-; Grigolini, Paolo & West, Bruce J.
Description: Article discussing the fractional Brownian motion (FBM) as a nonstationary process and an alternative paradigm for DNA sequences.
Contributing Partner: UNT College of Arts and Sciences
Memory Beyond Memory in Heart Beating, a Sign of a Healthy Physiological Condition

Memory Beyond Memory in Heart Beating, a Sign of a Healthy Physiological Condition

Date: April 11, 2002
Creator: Allegrini, Paolo; Grigolini, Paolo; Hamilton, P.; Palatella, Luigi & Raffaelli, G.
Description: In this article, the authors describe two types of memory and illustrate each using artificial and actual heartbeat data sets.
Contributing Partner: UNT College of Arts and Sciences
Generalized Master Equation Via Aging Continuous-Time Random Walks

Generalized Master Equation Via Aging Continuous-Time Random Walks

Date: 2003
Creator: Allegrini, Paolo; Aquino, Gerardo; Grigolini, Paolo; Palatella, Luigi & Rosa, Angelo
Description: This article discusses the problem of the equivalence between continuous-time random walk (CTRW) and generalized master equation (GME).
Contributing Partner: UNT College of Arts and Sciences
From Knowledge, Knowability and the Search for Objective Randomness to a New Vision of Complexity

From Knowledge, Knowability and the Search for Objective Randomness to a New Vision of Complexity

Date: February 2, 2008
Creator: Allegrini, Paolo; Giuntoli, Martina; Grigolini, Paolo & West, Bruce J.
Description: Paper discussing knowledge, knowability, and the search for objective randomness to a new vision of complexity.
Contributing Partner: UNT College of Arts and Sciences
Conflict between trajectories and density description: the statistical source of disagreement

Conflict between trajectories and density description: the statistical source of disagreement

Date: December 2002
Creator: Allegrini, Paolo; Grigolini, Paolo; Palatella, Luigi & Rosa, Angelo
Description: Paper discussing the statistical source of disagreement between trajectories and density description.
Contributing Partner: UNT College of Arts and Sciences
Breakdown of the Onsager Principle as a Sign of Aging

Breakdown of the Onsager Principle as a Sign of Aging

Date: July 19, 2011
Creator: Allegrini, Paolo; Aquino, Gerardo; Grigolini, Paolo; Palatella, Luigi & Rosa, Angelo
Description: Article discussing the breakdown of the Onsager principle as a sign of aging.
Contributing Partner: UNT College of Arts and Sciences
Renewal aging and linear response

Renewal aging and linear response

Date: February 6, 2008
Creator: Allegrini, Paolo; Ascolani, Gianluca; Bologna, Mauro & Grigolini, Paolo
Description: Paper discussing the linear response to an external perturbation of a renewal process, in an aging condition that, with no perturbation, would yield super-diffusion.
Contributing Partner: UNT College of Arts and Sciences
Experimental Quenching of Harmonic Stimuli: Universality of Linear Response Theory

Experimental Quenching of Harmonic Stimuli: Universality of Linear Response Theory

Date: July 15, 2009
Creator: Allegrini, Paolo; Bologna, Mauro; Fronzoni, Leone; Grigolini, Paolo & Silvestri, Ludovico
Description: This article discusses experimental quenching of harmonic stimuli.
Contributing Partner: UNT College of Arts and Sciences
Event-Driven Power-Law Relaxation in Weak Turbulence

Event-Driven Power-Law Relaxation in Weak Turbulence

Date: January 5, 2009
Creator: Silvestri, Ludovico; Fronzoni, Leone; Grigolini, Paolo & Allegrini, Paolo
Description: This article discusses event-driven power-law relaxation in weak turbulence.
Contributing Partner: UNT College of Arts and Sciences
Fluctuation-Dissipation Theorem for Event-Dominated Processes

Fluctuation-Dissipation Theorem for Event-Dominated Processes

Date: July 6, 2007
Creator: Allegrini, Paolo; Bologna, Mauro; Grigolini, Paolo & West, Bruce J.
Description: Article discussing the fluctuation-dissipation theorem for event-dominated processes.
Contributing Partner: UNT College of Arts and Sciences
Correlation Function and Generalized Master Equation of Arbitrary Age

Correlation Function and Generalized Master Equation of Arbitrary Age

Date: June 10, 2005
Creator: Allegrini, Paolo; Aquino, Gerardo; Grigolini, Paolo; Palatella, Luigi; Rosa, Angelo & West, Bruce J.
Description: Article discussing research on correlation function and generalized master equation of arbitrary age.
Contributing Partner: UNT College of Arts and Sciences
Cooperation-induced topological complexity: a promising road to fault tolerance and Hebbian learning

Cooperation-induced topological complexity: a promising road to fault tolerance and Hebbian learning

Date: March 16, 2012
Creator: Turalska, Malgorzata; Geneston, Elvis L.; West, Bruce J.; Allegrini, Paolo & Grigolini, Paolo
Description: This article discusses cooperation-induced topological complexity and the emergence of intelligence.
Contributing Partner: UNT College of Arts and Sciences
From self-organized to extended criticality

From self-organized to extended criticality

Date: April 26, 2012
Creator: Lovecchio, Elisa; Allegrini, Paolo; Geneston, Elvis L.; West, Bruce J. & Grigolini, Paolo
Description: Article discussing the criticality of transition processes in neurophysiology.
Contributing Partner: UNT College of Arts and Sciences
Non-Poisson distribution of the time distances between two consecutive clusters of earthquakes

Non-Poisson distribution of the time distances between two consecutive clusters of earthquakes

Date: 2004
Creator: Palatella, Luigi; Allegrini, Paolo; Grigolini, Paolo; Latora, Vito; Mega, Mirko S.; Rapisarda, Andrea et al.
Description: Article discussing non-Poisson distribution of the time distances between two consecutive clusters of earthquakes.
Contributing Partner: UNT College of Arts and Sciences
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