List of works - Simona Cocco

Adaptive cluster algorithm to infer Boltzmann machines from multi-electrode recording data.

scientific article

An evolution-based model for designing chorismate mutase enzymes

scientific article published on 01 July 2020

Analytical and numerical study of internal representations in multilayer neural networks with binary weights

scientific article published on 01 July 1996

Direct coevolutionary couplings reflect biophysical residue interactions in proteins

scientific article published on November 2016

Direct-Coupling Analysis of nucleotide coevolution facilitates RNA secondary and tertiary structure prediction

scientific article

Dynamical modeling of molecular constructions and setups for DNA unzipping

scientific article published on 01 July 2009

Dynamics of excitatory synaptic components in sustained firing at low rates

scientific article published on 26 January 2005

Exponentially hard problems are sometimes polynomial, a large deviation analysis of search algorithms for the random satisfiability problem, and its application to stop-and-restart resolutions.

scientific article published on 19 September 2002

Fast inference of interactions in assemblies of stochastic integrate-and-fire neurons from spike recordings.

scientific article

Force and kinetic barriers to initiation of DNA unzipping

scientific article published on 28 March 2002

From principal component to direct coupling analysis of coevolution in proteins: low-eigenvalue modes are needed for structure prediction

scientific article

Functional connectivity models for decoding of spatial representations from hippocampal CA1 recordings.

scientific article published on 8 May 2017

Functional coupling networks inferred from prefrontal cortex activity show experience-related effective plasticity.

scientific article published in October 2017

Inferred Ising model unveils potentiation of pairwise neural interactions and replay of rule-learning related neural activity.

scientific article published on 8 July 2013

Inferred network from prefrontal cortex activity of rats unveils cell assemblies.

scientific article published on 8 July 2013

Inferring interactions in assemblies of stochastic integrate-and-fire neurons from spike recordings: method, applications and software.

scientific article

Integration and multiplexing of positional and contextual information by the hippocampal network

scholarly article by Lorenzo Posani published in August 2018

Inverse Statistical Physics of Protein Sequences: A Key Issues Review

scientific article published on 9 November 2017

Learning protein constitutive motifs from sequence data

scientific article published on 12 March 2019

Overstretching and force-driven strand separation of double-helix DNA

scientific article published on 20 July 2004

Probing T-cell response by sequence-based probabilistic modeling

scientific article published on 02 September 2021

Protein-mediated DNA loops: effects of protein bridge size and kinks.

scientific article published on 2 December 2005

Quantitative modeling of the effect of antigen dosage on B-cell affinity distributions in maturating germinal centers

scientific article published on 15 June 2020

Quantitative theory of entropic forces acting on constrained nucleotide sequences applied to viruses

scientific article published on 17 March 2014

Reconstruction and identification of DNA sequence landscapes from unzipping experiments at equilibrium.

scientific article published on January 2014

The heterogeneous landscape and early evolution of pathogen-associated CpG and UpA dinucleotides in SARS-CoV-2

scientific article published on 08 May 2020

Trajectories in phase diagrams, growth processes, and computational complexity: how search algorithms solve the 3-satisfiability problem.

scientific article published in February 2001

Trend and fluctuations: analysis and design of population dynamics measurements in replicate ecosystems

scientific article published on 16 December 2013

Unzipping dynamics of long DNAs

scientific article published on 22 November 2002

List of works by Simona Cocco

Adaptive cluster algorithm to infer Boltzmann machines from multi-electrode recording data.

An evolution-based model for designing chorismate mutase enzymes

Analytical and numerical study of internal representations in multilayer neural networks with binary weights

Direct coevolutionary couplings reflect biophysical residue interactions in proteins

Direct-Coupling Analysis of nucleotide coevolution facilitates RNA secondary and tertiary structure prediction

Dynamical modeling of molecular constructions and setups for DNA unzipping

Dynamics of excitatory synaptic components in sustained firing at low rates

Exponentially hard problems are sometimes polynomial, a large deviation analysis of search algorithms for the random satisfiability problem, and its application to stop-and-restart resolutions.

Fast inference of interactions in assemblies of stochastic integrate-and-fire neurons from spike recordings.

Force and kinetic barriers to initiation of DNA unzipping

From principal component to direct coupling analysis of coevolution in proteins: low-eigenvalue modes are needed for structure prediction

Functional connectivity models for decoding of spatial representations from hippocampal CA1 recordings.

Functional coupling networks inferred from prefrontal cortex activity show experience-related effective plasticity.

Inferred Ising model unveils potentiation of pairwise neural interactions and replay of rule-learning related neural activity.

Inferred network from prefrontal cortex activity of rats unveils cell assemblies.

Inferring interactions in assemblies of stochastic integrate-and-fire neurons from spike recordings: method, applications and software.

Integration and multiplexing of positional and contextual information by the hippocampal network

Inverse Statistical Physics of Protein Sequences: A Key Issues Review

Learning protein constitutive motifs from sequence data

Overstretching and force-driven strand separation of double-helix DNA

Probing T-cell response by sequence-based probabilistic modeling

Protein-mediated DNA loops: effects of protein bridge size and kinks.

Quantitative modeling of the effect of antigen dosage on B-cell affinity distributions in maturating germinal centers

Quantitative theory of entropic forces acting on constrained nucleotide sequences applied to viruses

Reconstruction and identification of DNA sequence landscapes from unzipping experiments at equilibrium.

The heterogeneous landscape and early evolution of pathogen-associated CpG and UpA dinucleotides in SARS-CoV-2

Trajectories in phase diagrams, growth processes, and computational complexity: how search algorithms solve the 3-satisfiability problem.

Trend and fluctuations: analysis and design of population dynamics measurements in replicate ecosystems

Unzipping dynamics of long DNAs