Literature DB >> 21405611

Adaptive cluster expansion for inferring boltzmann machines with noisy data.

S Cocco1, R Monasson.   

Abstract

We introduce a procedure to infer the interactions among a set of binary variables, based on their sampled frequencies and pairwise correlations. The algorithm builds the clusters of variables contributing most to the entropy of the inferred Ising model and rejects the small contributions due to the sampling noise. Our procedure successfully recovers benchmark Ising models even at criticality and in the low temperature phase, and is applied to neurobiological data.

Year:  2011        PMID: 21405611     DOI: 10.1103/PhysRevLett.106.090601

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  27 in total

1.  Statistical mechanics for natural flocks of birds.

Authors:  William Bialek; Andrea Cavagna; Irene Giardina; Thierry Mora; Edmondo Silvestri; Massimiliano Viale; Aleksandra M Walczak
Journal:  Proc Natl Acad Sci U S A       Date:  2012-03-16       Impact factor: 11.205

2.  Scaling laws describe memories of host-pathogen riposte in the HIV population.

Authors:  John P Barton; Mehran Kardar; Arup K Chakraborty
Journal:  Proc Natl Acad Sci U S A       Date:  2015-02-02       Impact factor: 11.205

3.  Influence of multiple-sequence-alignment depth on Potts statistical models of protein covariation.

Authors:  Allan Haldane; Ronald M Levy
Journal:  Phys Rev E       Date:  2019-03       Impact factor: 2.529

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

Authors:  Lorenzo Posani; Simona Cocco; Karel Ježek; Rémi Monasson
Journal:  J Comput Neurosci       Date:  2017-05-08       Impact factor: 1.621

5.  Neural assemblies revealed by inferred connectivity-based models of prefrontal cortex recordings.

Authors:  G Tavoni; S Cocco; R Monasson
Journal:  J Comput Neurosci       Date:  2016-07-28       Impact factor: 1.621

6.  Structural propensities of kinase family proteins from a Potts model of residue co-variation.

Authors:  Allan Haldane; William F Flynn; Peng He; R S K Vijayan; Ronald M Levy
Journal:  Protein Sci       Date:  2016-06-26       Impact factor: 6.725

7.  Coevolutionary Landscape of Kinase Family Proteins: Sequence Probabilities and Functional Motifs.

Authors:  Allan Haldane; William F Flynn; Peng He; Ronald M Levy
Journal:  Biophys J       Date:  2018-01-09       Impact factor: 4.033

8.  Epistasis and entrenchment of drug resistance in HIV-1 subtype B.

Authors:  Avik Biswas; Allan Haldane; Eddy Arnold; Ronald M Levy
Journal:  Elife       Date:  2019-10-08       Impact factor: 8.140

9.  A Tractable Method for Describing Complex Couplings between Neurons and Population Rate.

Authors:  Christophe Gardella; Olivier Marre; Thierry Mora
Journal:  eNeuro       Date:  2016-08-18

10.  Missing mass approximations for the partition function of stimulus driven Ising models.

Authors:  Robert Haslinger; Demba Ba; Ralf Galuske; Ziv Williams; Gordon Pipa
Journal:  Front Comput Neurosci       Date:  2013-07-24       Impact factor: 2.380

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