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Revealing long-range interconnected hubs in human chromatin interaction data using graph theory

Physical review letters, 2013-09, Vol.111 (11), p.118102-118102, Article 118102

2013

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Experiments confirm the influence of genome long-range correlations on nucleosome positioning

Physical review letters, 2007-11, Vol.99 (21), p.218103-218103, Article 218103

2007

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SWDreader: A wavelet-based algorithm using spectral phase to characterize spike-wave morphological variation in genetic models of absence epilepsy

Journal of neuroscience methods, 2015-03, Vol.242, p.127-140

2015

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Replication-Associated Strand Asymmetries in Mammalian Genomes: Toward Detection of Replication Origins

Proceedings of the National Academy of Sciences - PNAS, 2005-07, Vol.102 (28), p.9836-9841

2005

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Deciphering DNA replication dynamics in eukaryotic cell populations in relation with their averaged chromatin conformations

Scientific reports, 2016-03, Vol.6 (1), p.22469-22469, Article 22469

2016

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Inferring where and when replication initiates from genome-wide replication timing data

Physical review letters, 2012-06, Vol.108 (26), p.268101-268101, Article 268101

2012

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Linking the DNA strand asymmetry to the spatio-temporal replication program: II. Accounting for neighbor-dependent substitution rates

The European physical journal. E, Soft matter and biological physics, 2012-11, Vol.35 (11), p.123-123, Article 123

2012

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Thermodynamics of DNA loops with long-range correlated structural disorder

Physical review letters, 2005-08, Vol.95 (6), p.068101.1-068101.4, Article 068101

2005

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Revealing intermittency in experimental data with steep power spectra

Europhysics letters, 2010-06, Vol.90 (5), p.50007

2010

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Wavelet-based estimators of scaling behavior

IEEE transactions on information theory, 2002-11, Vol.48 (11), p.2938-2954

2002

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Revisiting polymer statistical physics to account for the presence of long-range-correlated structural disorder in 2D DNA chains

The European physical journal. E, Soft matter and biological physics, 2011-11, Vol.34 (11), p.119-19, Article 119

2011

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Linking the DNA strand asymmetry to the spatio-temporal replication program: I. About the role of the replication fork polarity in genome evolution

The European physical journal. E, Soft matter and biological physics, 2012-09, Vol.35 (9), p.92-92, Article 92

2012

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Long-range correlations in genomic DNA: a signature of the nucleosomal structure

Physical review letters, 2001-03, Vol.86 (11), p.2471-2474

2001

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DNA replication timing data corroborate in silico human replication origin predictions

Physical review letters, 2007-12, Vol.99 (24), p.248102-248102, Article 248102

2007

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Generalized wormlike chain model for long-range correlated heteropolymers

Europhysics letters, 2009-05, Vol.86 (4), p.48001-p1-48001-p5

2009

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Spontaneous emergence of sequence-dependent rosettelike folding of chromatin fiber

Physical Review Special Topics: Physics Education Research, 2008-06, Vol.77 (6 Pt 1), p.061923-061923, Article 061923

2008

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From DNA sequence analysis to modeling replication in the human genome

Physical review letters, 2005-06, Vol.94 (24), p.248103.1-248103.4, Article 248103

2005

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Formation and positioning of nucleosomes: effect of sequence-dependent long-range correlated structural disorder

The European physical journal. E, Soft matter and biological physics, 2006-03, Vol.19 (3), p.263-277

2006

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FORK-seq: replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing

Genome Biology, 2020-05, Vol.21 (1), p.125-25, Article 125

2020

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Are splicing mutations the most frequent cause of hereditary disease?

FEBS letters, 2005-03, Vol.579 (9), p.1900-1903

2005

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Strain-specific genes of Helicobacter pylori: distribution, function and dynamics

Nucleic acids research, 2001-11, Vol.29 (21), p.4395

2001

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Embryonic stem cell specific "master" replication origins at the heart of the loss of pluripotency

PLoS computational biology, 2015-02, Vol.11 (2), p.e1003969-e1003969

2015

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3D chromatin conformation correlates with replication timing and is conserved in resting cells

Nucleic acids research, 2012-10, Vol.40 (19), p.9470

2012

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Structural organization of human replication timing domains

FEBS letters, 2015-10, Vol.589 (20), p.2944-2957

2015

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CoGenT++: an extensive and extensible data environment for computational genomics

Bioinformatics, 2005-10, Vol.21 (19), p.3806-3810

2005

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Revealing long-range interconnected hubs in human chromatin interaction data using graph theory

Experiments confirm the influence of genome long-range correlations on nucleosome positioning

SWDreader: A wavelet-based algorithm using spectral phase to characterize spike-wave morphological variation in genetic models of absence epilepsy

Replication-Associated Strand Asymmetries in Mammalian Genomes: Toward Detection of Replication Origins

Deciphering DNA replication dynamics in eukaryotic cell populations in relation with their averaged chromatin conformations

Inferring where and when replication initiates from genome-wide replication timing data

Linking the DNA strand asymmetry to the spatio-temporal replication program: II. Accounting for neighbor-dependent substitution rates

Thermodynamics of DNA loops with long-range correlated structural disorder

Revealing intermittency in experimental data with steep power spectra

Wavelet-based estimators of scaling behavior

Revisiting polymer statistical physics to account for the presence of long-range-correlated structural disorder in 2D DNA chains

Linking the DNA strand asymmetry to the spatio-temporal replication program: I. About the role of the replication fork polarity in genome evolution

Long-range correlations in genomic DNA: a signature of the nucleosomal structure

DNA replication timing data corroborate in silico human replication origin predictions

Generalized wormlike chain model for long-range correlated heteropolymers

Spontaneous emergence of sequence-dependent rosettelike folding of chromatin fiber

From DNA sequence analysis to modeling replication in the human genome

Formation and positioning of nucleosomes: effect of sequence-dependent long-range correlated structural disorder

FORK-seq: replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing

Are splicing mutations the most frequent cause of hereditary disease?

Strain-specific genes of Helicobacter pylori: distribution, function and dynamics

Embryonic stem cell specific "master" replication origins at the heart of the loss of pluripotency

3D chromatin conformation correlates with replication timing and is conserved in resting cells

Structural organization of human replication timing domains

CoGenT++: an extensive and extensible data environment for computational genomics

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