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SNPGenie: estimating evolutionary parameters to detect natural selection using pooled next-generation sequencing data

Bioinformatics (Oxford, England), 2015-11, Vol.31 (22), p.3709-3711

2015

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HPV16 E7 Genetic Conservation Is Critical to Carcinogenesis

Cell, 2017-09, Vol.170 (6), p.1164-1174.e6

2017

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Human papillomavirus genomics: Understanding carcinogenicity

Tumour virus research, 2023-06, Vol.15 (C), p.200258-200258, Article 200258

2023

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Dynamically evolving novel overlapping gene as a factor in the SARS-CoV-2 pandemic

eLife, 2020-10, Vol.9

2020

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Reply to: Population genetic considerations regarding the interpretation of within-patient SARS-CoV-2 polymorphism data

Nature communications, 2024-04, Vol.15 (1), p.3239-3239, Article 3239

2024

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Conflicting and ambiguous names of overlapping ORFs in the SARS-CoV-2 genome: A homology-based resolution

Virology (New York, N.Y.), 2021-06, Vol.558, p.145-151

2021

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Within-host nucleotide diversity of virus populations: insights from next-generation sequencing

Infection, genetics and evolution, 2015-03, Vol.30, p.1-7

2015

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Plant ecological genomics at the limits of life in the Atacama Desert

Proceedings of the National Academy of Sciences - PNAS, 2021-11, Vol.118 (46), p.1

2021

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Selective Bottlenecks Shape Evolutionary Pathways Taken during Mammalian Adaptation of a 1918-like Avian Influenza Virus

Cell host & microbe, 2016-02, Vol.19 (2), p.169-180

2016

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Mutations in the HPV16 genome induced by APOBEC3 are associated with viral clearance

Nature communications, 2020-02, Vol.11 (1), p.886-12, Article 886

2020

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The Intersection of HPV Epidemiology, Genomics and Mechanistic Studies of HPV-Mediated Carcinogenesis

Viruses, 2018-02, Vol.10 (2), p.80

2018

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Discovery of numerous novel small genes in the intergenic regions of the Escherichia coli O157:H7 Sakai genome

PloS one, 2017-09, Vol.12 (9), p.e0184119-e0184119

2017

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Selection on haemagglutinin imposes a bottleneck during mammalian transmission of reassortant H5N1 influenza viruses

Nature communications, 2013-10, Vol.4 (1), p.2636-2636, Article 2636

2013

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High genetic diversity and adaptive potential of two simian hemorrhagic fever viruses in a wild primate population

PloS one, 2014-03, Vol.9 (3), p.e90714

2014

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COVID-19: time for WHO to reconsider its stance towards Taiwan

Nature (London), 2020-03, Vol.579 (7798), p.193-193

Nelson, Chase W

2020

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COVID-19: don't ignore Taiwan

Nature (London), 2020-03, Vol.579 (7798), p.193-193

Nelson, Chase W

2020

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OLGenie: Estimating Natural Selection to Predict Functional Overlapping Genes

Molecular biology and evolution, 2020-08, Vol.37 (8), p.2440-2449

2020

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Conditional Immune Escape during Chronic Simian Immunodeficiency Virus Infection

Journal of virology, 2016-01, Vol.90 (1), p.545-552

2016

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Lack of transgenerational effects of ionizing radiation exposure from the Chernobyl accident

Science (American Association for the Advancement of Science), 2021-05, Vol.372 (6543), p.725-729

2021

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Biosemiotic Entropy of the Genome: Mutations and Epigenetic Imbalances Resulting in Cancer

Entropy (Basel, Switzerland), 2013-01, Vol.15 (1), p.234-261

2013

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Remembering Austin L. Hughes

Infection, genetics and evolution, 2016-06, Vol.40, p.262-265

Nelson, Chase W.

2016

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Discovering unknown human and mouse transcription factor binding sites and their characteristics from ChIP-seq data

Proceedings of the National Academy of Sciences - PNAS, 2021-05, Vol.118 (20), p.1

2021

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Arteriviruses, Pegiviruses, and Lentiviruses Are Common among Wild African Monkeys

Journal of virology, 2016-08, Vol.90 (15), p.6724-6737

2016

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Improved detection of low-frequency within-host variants from deep sequencing: A case study with human papillomavirus

Virus evolution, 2024, Vol.10 (1), p.veae013-veae013

2024

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Transmission dynamics of SARS-CoV-2 within-host diversity in two major hospital outbreaks in South Africa

Virus evolution, 2021-01, Vol.7 (1), p.veab041-veab041

2021

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SNPGenie: estimating evolutionary parameters to detect natural selection using pooled next-generation sequencing data

HPV16 E7 Genetic Conservation Is Critical to Carcinogenesis

Human papillomavirus genomics: Understanding carcinogenicity

Dynamically evolving novel overlapping gene as a factor in the SARS-CoV-2 pandemic

Reply to: Population genetic considerations regarding the interpretation of within-patient SARS-CoV-2 polymorphism data

Conflicting and ambiguous names of overlapping ORFs in the SARS-CoV-2 genome: A homology-based resolution

Within-host nucleotide diversity of virus populations: insights from next-generation sequencing

Plant ecological genomics at the limits of life in the Atacama Desert

Selective Bottlenecks Shape Evolutionary Pathways Taken during Mammalian Adaptation of a 1918-like Avian Influenza Virus

Mutations in the HPV16 genome induced by APOBEC3 are associated with viral clearance

The Intersection of HPV Epidemiology, Genomics and Mechanistic Studies of HPV-Mediated Carcinogenesis

Discovery of numerous novel small genes in the intergenic regions of the Escherichia coli O157:H7 Sakai genome

Selection on haemagglutinin imposes a bottleneck during mammalian transmission of reassortant H5N1 influenza viruses

High genetic diversity and adaptive potential of two simian hemorrhagic fever viruses in a wild primate population

COVID-19: time for WHO to reconsider its stance towards Taiwan

COVID-19: don't ignore Taiwan

OLGenie: Estimating Natural Selection to Predict Functional Overlapping Genes

Conditional Immune Escape during Chronic Simian Immunodeficiency Virus Infection

Lack of transgenerational effects of ionizing radiation exposure from the Chernobyl accident

Biosemiotic Entropy of the Genome: Mutations and Epigenetic Imbalances Resulting in Cancer

Remembering Austin L. Hughes

Discovering unknown human and mouse transcription factor binding sites and their characteristics from ChIP-seq data

Arteriviruses, Pegiviruses, and Lentiviruses Are Common among Wild African Monkeys

Improved detection of low-frequency within-host variants from deep sequencing: A case study with human papillomavirus

Transmission dynamics of SARS-CoV-2 within-host diversity in two major hospital outbreaks in South Africa

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