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Revealing mechanisms of infectious disease spread through empirical contact networks

PLoS computational biology, 2021-12, Vol.17 (12), p.e1009604-e1009604

2021

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Investigating Functional Roles for Positive Feedback and Cellular Heterogeneity in the Type I Interferon Response to Viral Infection

Viruses, 2018-09, Vol.10 (10), p.517

2018

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Broad CTL Response in Early HIV Infection Drives Multiple Concurrent CTL Escapes

PLoS computational biology, 2015-10, Vol.11 (10), p.e1004492-e1004492

2015

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Tree-Based Co-Clustering Identifies Chromatin Accessibility Patterns Associated With Hematopoietic Lineage Structure

Frontiers in genetics, 2021-10, Vol.12, p.707117-707117

2021

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Interferon stimulated binding of ISRE is cell type specific and is predicted by homeostatic chromatin state

Cytokine: X, 2021-12, Vol.3 (4), p.100056-100056, Article 100056

Leviyang, Sivan

2021

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Computational inference methods for selective sweeps arising in acute HIV infection

Genetics (Austin), 2013-07, Vol.194 (3), p.737-752

Leviyang, Sivan

2013

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Constructing lower-bounds for CTL escape rates in early SIV infection

Journal of theoretical biology, 2014-07, Vol.352, p.82-91

Leviyang, Sivan

2014

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Properties of Weir and Cockerham’s estimators and associated bootstrap confidence intervals

Theoretical population biology, 2011-02, Vol.79 (1-2), p.39-52

2011

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Regulation of interferon stimulated gene expression levels at homeostasis

Cytokine (Philadelphia, Pa.), 2020-02, Vol.126, p.154870-154870, Article 154870

2020

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The Coalescence of Intrahost HIV Lineages Under Symmetric CTL Attack

Bulletin of mathematical biology, 2012-08, Vol.74 (8), p.1818-1856

Leviyang, Sivan

2012

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Analysis of a stochastic predator–prey model with applications to intrahost HIV genetic diversity

Journal of mathematical biology, 2012-12, Vol.65 (6-7), p.1285-1336

Leviyang, Sivan

2012

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Sampling HIV Intrahost Genealogies Based on a Model of Acute Stage CTL Response

Bulletin of mathematical biology, 2012-03, Vol.74 (3), p.509-535

Leviyang, Sivan

2012

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Broad CTL Response in Early HIV Infection Drives Multiple Concurrent CTL Escapes: e1004492

PLoS computational biology, 2015-10, Vol.11 (10)

2015

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distribution of F st and other genetic statistics for a class of population structure models

Journal of mathematical biology, 2011-02, Vol.62 (2), p.203-289

Leviyang, Sivan

2011

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The distribution of Fst and other genetic statistics for a class of population structure models

Journal of mathematical biology, 2011-02, Vol.62 (2), p.203-289

Leviyang, Sivan

2011

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The distribution of F sub(st) and other genetic statistics for a class of population structure models

Journal of mathematical biology, 2011-02, Vol.62 (2), p.203-289

Leviyang, Sivan

2011

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The distribution of F ^sub st^ and other genetic statistics for a class of population structure models

Journal of mathematical biology, 2011-02, Vol.62 (2), p.203

Leviyang, Sivan

2011

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A penalized regression approach to haplotype reconstruction of viral populations arising in early HIV/SIV infection

Bioinformatics (Oxford, England), 2017-08, Vol.33 (16), p.2455-2463

2017

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SIV infection duration largely determines broadening of neutralizing antibody response in macaques

The Journal of clinical investigation, 2020-10, Vol.130 (10), p.5413-5424

2020

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The Distribution of Fst for the Island Model in the Large Population, Weak Mutation Limit

Stochastic analysis and applications, 2010-07, Vol.28 (4), p.577-601

LEVIYANG, Sivan

2010

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The Distribution of F st for the Island Model in the Large Population, Weak Mutation Limit

Stochastic analysis and applications, 2010-06, Vol.28 (4), p.577-601

Leviyang, Sivan

2010

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High-Resolution Sequencing of Viral Populations during Early Simian Immunodeficiency Virus Infection Reveals Evolutionary Strategies for Rapid Escape from Emerging Env-Specific Antibody Responses

Journal of virology, 2018-04, Vol.92 (7)

2018

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Rare HIV-1 transmitted/founder lineages identified by deep viral sequencing contribute to rapid shifts in dominant quasispecies during acute and early infection

PLoS pathogens, 2017-07, Vol.13 (7), p.e1006510-e1006510

2017

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Properties of Weir and Cockerham's Fst estimators and associated bootstrap confidence intervals

Theoretical population biology, 2011-02, Vol.79 (1-2), p.39-52

2011

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Correction: Rare HIV-1 transmitted/founder lineages identified by deep viral sequencing contribute to rapid shifts in dominant quasispecies during acute and early infection

PLoS pathogens, 2017-09, Vol.13 (9), p.e1006620

2017

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Revealing mechanisms of infectious disease spread through empirical contact networks

Investigating Functional Roles for Positive Feedback and Cellular Heterogeneity in the Type I Interferon Response to Viral Infection

Broad CTL Response in Early HIV Infection Drives Multiple Concurrent CTL Escapes

Tree-Based Co-Clustering Identifies Chromatin Accessibility Patterns Associated With Hematopoietic Lineage Structure

Interferon stimulated binding of ISRE is cell type specific and is predicted by homeostatic chromatin state

Computational inference methods for selective sweeps arising in acute HIV infection

Constructing lower-bounds for CTL escape rates in early SIV infection

Properties of Weir and Cockerham’s estimators and associated bootstrap confidence intervals

Regulation of interferon stimulated gene expression levels at homeostasis

The Coalescence of Intrahost HIV Lineages Under Symmetric CTL Attack

Analysis of a stochastic predator–prey model with applications to intrahost HIV genetic diversity

Sampling HIV Intrahost Genealogies Based on a Model of Acute Stage CTL Response

Broad CTL Response in Early HIV Infection Drives Multiple Concurrent CTL Escapes: e1004492

distribution of F st and other genetic statistics for a class of population structure models

The distribution of Fst and other genetic statistics for a class of population structure models

The distribution of F sub(st) and other genetic statistics for a class of population structure models

The distribution of F ^sub st^ and other genetic statistics for a class of population structure models

A penalized regression approach to haplotype reconstruction of viral populations arising in early HIV/SIV infection

SIV infection duration largely determines broadening of neutralizing antibody response in macaques

The Distribution of Fst for the Island Model in the Large Population, Weak Mutation Limit

The Distribution of F st for the Island Model in the Large Population, Weak Mutation Limit

High-Resolution Sequencing of Viral Populations during Early Simian Immunodeficiency Virus Infection Reveals Evolutionary Strategies for Rapid Escape from Emerging Env-Specific Antibody Responses

Rare HIV-1 transmitted/founder lineages identified by deep viral sequencing contribute to rapid shifts in dominant quasispecies during acute and early infection

Properties of Weir and Cockerham's Fst estimators and associated bootstrap confidence intervals

Correction: Rare HIV-1 transmitted/founder lineages identified by deep viral sequencing contribute to rapid shifts in dominant quasispecies during acute and early infection

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