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Efficient experimental design and analysis strategies for the detection of differential expression using RNA-Sequencing

BMC genomics, 2012-09, Vol.13 (1), p.484-484, Article 484

2012

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Protracted Speciation under the State-Dependent Speciation and Extinction Approach

Systematic biology, 2022-10, Vol.71 (6), p.1362-1377

2022

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Coalescence and sampling distributions for Feller diffusions

Theoretical population biology, 2024-02, Vol.155, p.67-76

2024

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An approximate stationary solution for multi-allele neutral diffusion with low mutation rates

Theoretical population biology, 2016-12, Vol.112, p.22-32

2016

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Rate matrix estimation from site frequency data

Theoretical population biology, 2017-02, Vol.113, p.23-33

2017

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Maximum likelihood estimators for scaled mutation rates in an equilibrium mutation–drift model

Theoretical population biology, 2020-08, Vol.134, p.106-118

2020

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The stationary distribution of a sample from the Wright–Fisher diffusion model with general small mutation rates

Journal of mathematical biology, 2019-03, Vol.78 (4), p.1211-1224

2019

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Mutation in populations governed by a Galton–Watson branching process

Theoretical population biology, 2018-03, Vol.120, p.52-61

2018

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The transition distribution of a sample from a Wright–Fisher diffusion with general small mutation rates

Journal of mathematical biology, 2019-12, Vol.79 (6-7), p.2315-2342

2019

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Genetic drift in populations governed by a Galton–Watson branching process

Theoretical population biology, 2016-06, Vol.109, p.63-74

2016

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The stationary and quasi-stationary properties of neutral multi-type branching process diffusions

Stochastic models, 2023-01, Vol.39 (1), p.185-218

2023

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Coalescence in the diffusion limit of a Bienaymé–Galton–Watson branching process

Theoretical population biology, 2019-12, Vol.130, p.50-59

2019

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Stationary distribution of a 2-island 2-allele Wright–Fisher diffusion model with slow mutation and migration rates

Theoretical population biology, 2018-12, Vol.124, p.70-80

2018

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Washing scaling of GeneChip microarray expression

BMC bioinformatics, 2010-05, Vol.11 (1), p.291-291, Article 291

2010

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Error estimates for the analysis of differential expression from RNA-seq count data

PeerJ (San Francisco, CA), 2014-09, Vol.2, p.e576-e576

2014

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Physico-chemical foundations underpinning microarray and next-generation sequencing experiments

Nucleic acids research, 2013-03, Vol.41 (5), p.2779-2796

2013

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Estimation of the methylation pattern distribution from deep sequencing data

BMC bioinformatics, 2015-05, Vol.16 (1), p.145-145, Article 145

2015

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Multiple gene expression profile alignment for microarray time-series data clustering

Bioinformatics, 2010-09, Vol.26 (18), p.2281-2288

2010

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The distribution of word matches between Markovian sequences with periodic boundary conditions

Journal of computational biology, 2014-01, Vol.21 (1), p.41-63

2014

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Nonspecific Hybridization Scaling of Microarray Expression Estimates: A Physicochemical Approach for Chip-to-Chip Normalization

The journal of physical chemistry. B, 2009-03, Vol.113 (9), p.2874-2895

2009

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Asymptotic behaviour and optimal word size for exact and approximate word matches between random sequences

BMC bioinformatics, 2006-12, Vol.7 Suppl 5 (S5), p.S21-S21, Article S21

2006

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Understanding the physics of oligonucleotide microarrays: the Affymetrix spike-in data reanalysed

Physical biology, 2008-03, Vol.5 (1), p.016004-016004

Burden, Conrad J

2008

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Adsorption models of hybridization and post-hybridization behaviour on oligonucleotide microarrays

Journal of physics. Condensed matter, 2006-06, Vol.18 (23), p.5545-5565

2006

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Physico-chemical modelling of target depletion during hybridization on oligonulceotide microarrays

Physical biology, 2009-12, Vol.7 (1), p.016004-016004

2009

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Alignment-free Sequence Comparison for Biologically Realistic Sequences of Moderate Length

Statistical applications in genetics and molecular biology, 2012-01, Vol.11 (1), p.1-28

2012

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Efficient experimental design and analysis strategies for the detection of differential expression using RNA-Sequencing

Protracted Speciation under the State-Dependent Speciation and Extinction Approach

Coalescence and sampling distributions for Feller diffusions

An approximate stationary solution for multi-allele neutral diffusion with low mutation rates

Rate matrix estimation from site frequency data

Maximum likelihood estimators for scaled mutation rates in an equilibrium mutation–drift model

The stationary distribution of a sample from the Wright–Fisher diffusion model with general small mutation rates

Mutation in populations governed by a Galton–Watson branching process

The transition distribution of a sample from a Wright–Fisher diffusion with general small mutation rates

Genetic drift in populations governed by a Galton–Watson branching process

The stationary and quasi-stationary properties of neutral multi-type branching process diffusions

Coalescence in the diffusion limit of a Bienaymé–Galton–Watson branching process

Stationary distribution of a 2-island 2-allele Wright–Fisher diffusion model with slow mutation and migration rates

Washing scaling of GeneChip microarray expression

Error estimates for the analysis of differential expression from RNA-seq count data

Physico-chemical foundations underpinning microarray and next-generation sequencing experiments

Estimation of the methylation pattern distribution from deep sequencing data

Multiple gene expression profile alignment for microarray time-series data clustering

The distribution of word matches between Markovian sequences with periodic boundary conditions

Nonspecific Hybridization Scaling of Microarray Expression Estimates: A Physicochemical Approach for Chip-to-Chip Normalization

Asymptotic behaviour and optimal word size for exact and approximate word matches between random sequences

Understanding the physics of oligonucleotide microarrays: the Affymetrix spike-in data reanalysed

Adsorption models of hybridization and post-hybridization behaviour on oligonucleotide microarrays

Physico-chemical modelling of target depletion during hybridization on oligonulceotide microarrays

Alignment-free Sequence Comparison for Biologically Realistic Sequences of Moderate Length

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