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Dynamic, Yet Structured: The Cell Membrane Three Decades after the Singer-Nicolson Model

Proceedings of the National Academy of Sciences - PNAS, 2003-07, Vol.100 (14), p.8053-8058

2003

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Toward more accurate ancestral protein genotype-phenotype reconstructions with the use of species tree-aware gene trees

Molecular biology and evolution, 2015-01, Vol.32 (1), p.13-22

2015

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Integrative modeling of gene and genome evolution roots the archaeal tree of life

Proceedings of the National Academy of Sciences - PNAS, 2017-06, Vol.114 (23), p.E4602-E4611

2017

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A rooted phylogeny resolves early bacterial evolution

Science (American Association for the Advancement of Science), 2021-05, Vol.372 (6542)

2021

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Phylogenetic modeling of lateral gene transfer reconstructs the pattern and relative timing of speciations

Proceedings of the National Academy of Sciences - PNAS, 2012-10, Vol.109 (43), p.17513-17518

2012

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Damage and fluctuations induce loops in optimal transport networks

Physical review letters, 2010-01, Vol.104 (4), p.048704-048704, Article 048704

2010

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SpeciesRax: A Tool for Maximum Likelihood Species Tree Inference from Gene Family Trees under Duplication, Transfer, and Loss

Molecular biology and evolution, 2022-02, Vol.39 (2)

2022

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Efficient Exploration of the Space of Reconciled Gene Trees

Systematic biology, 2013-11, Vol.62 (6), p.901-912

2013

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Quantifying GC-Biased Gene Conversion in Great Ape Genomes Using Polymorphism-Aware Models

Genetics (Austin), 2019-08, Vol.212 (4), p.1321-1336

2019

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ecceTERA: comprehensive gene tree-species tree reconciliation using parsimony

Bioinformatics, 2016-07, Vol.32 (13), p.2056-2058

2016

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Hierarchical tissue organization as a general mechanism to limit the accumulation of somatic mutations

Nature communications, 2017-02, Vol.8 (1), p.14545-14545, Article 14545

2017

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How Long Does Wolbachia Remain on Board?

Molecular biology and evolution, 2017-05, Vol.34 (5), p.1183-1193

2017

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Divergent genomic trajectories predate the origin of animals and fungi

Nature (London), 2022-09, Vol.609 (7928), p.747-753

2022

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Resurrection of Ancestral Malate Dehydrogenases Reveals the Evolutionary History of Halobacterial Proteins: Deciphering Gene Trajectories and Changes in Biochemical Properties

Molecular biology and evolution, 2021-09, Vol.38 (9), p.3754-3774

2021

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Trade-off between reducing mutational accumulation and increasing commitment to differentiation determines tissue organization

Nature communications, 2022-03, Vol.13 (1), p.1666-1666, Article 1666

2022

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Genome-scale coestimation of species and gene trees

Genome research, 2013-02, Vol.23 (2), p.323

2013

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The Inference of Gene Trees with Species Trees

Systematic biology, 2015-01, Vol.64 (1), p.e42-e62

2015

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AleRax: a tool for gene and species tree co-estimation and reconciliation under a probabilistic model of gene duplication, transfer, and loss

Bioinformatics (Oxford, England), 2024-03, Vol.40 (4)

2024

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The structure of the hematopoietic system can explain chronic myeloid leukemia progression

Scientific reports, 2023-04, Vol.13 (1), p.5411-5411, Article 5411

2023

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Regulatory T Cells in the Context of New-Onset Diabetes After Renal Transplant: A Single-Center Experience

Transplantation proceedings, 2019-05, Vol.51 (4), p.1234-1238

2019

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Cholesterol-Dependent Clustering of IL-2Rα and Its Colocalization with HLA and CD48 on T Lymphoma Cells Suggest their Functional Association with Lipid Rafts

Proceedings of the National Academy of Sciences - PNAS, 2000-05, Vol.97 (11), p.6013-6018

2000

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Phylogenomics provides robust support for a two-domains tree of life

Nature ecology & evolution, 2020-01, Vol.4 (1), p.138

2020

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Compositionally Constrained Sites Drive Long-Branch Attraction

Systematic biology, 2023-08, Vol.72 (4), p.767

2023

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Emergent neutrality in adaptive asexual evolution

Genetics (Austin), 2011-12, Vol.189 (4), p.1361-1375

2011

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ATP synthase evolution on a cross-braced dated tree of life

Nature communications, 2023-11, Vol.14 (1), p.7456-7456, Article 7456

2023

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Dynamic, Yet Structured: The Cell Membrane Three Decades after the Singer-Nicolson Model

Toward more accurate ancestral protein genotype-phenotype reconstructions with the use of species tree-aware gene trees

Integrative modeling of gene and genome evolution roots the archaeal tree of life

A rooted phylogeny resolves early bacterial evolution

Phylogenetic modeling of lateral gene transfer reconstructs the pattern and relative timing of speciations

Damage and fluctuations induce loops in optimal transport networks

SpeciesRax: A Tool for Maximum Likelihood Species Tree Inference from Gene Family Trees under Duplication, Transfer, and Loss

Efficient Exploration of the Space of Reconciled Gene Trees

Quantifying GC-Biased Gene Conversion in Great Ape Genomes Using Polymorphism-Aware Models

ecceTERA: comprehensive gene tree-species tree reconciliation using parsimony

Hierarchical tissue organization as a general mechanism to limit the accumulation of somatic mutations

How Long Does Wolbachia Remain on Board?

Divergent genomic trajectories predate the origin of animals and fungi

Resurrection of Ancestral Malate Dehydrogenases Reveals the Evolutionary History of Halobacterial Proteins: Deciphering Gene Trajectories and Changes in Biochemical Properties

Trade-off between reducing mutational accumulation and increasing commitment to differentiation determines tissue organization

Genome-scale coestimation of species and gene trees

The Inference of Gene Trees with Species Trees

AleRax: a tool for gene and species tree co-estimation and reconciliation under a probabilistic model of gene duplication, transfer, and loss

The structure of the hematopoietic system can explain chronic myeloid leukemia progression

Regulatory T Cells in the Context of New-Onset Diabetes After Renal Transplant: A Single-Center Experience

Cholesterol-Dependent Clustering of IL-2Rα and Its Colocalization with HLA and CD48 on T Lymphoma Cells Suggest their Functional Association with Lipid Rafts

Phylogenomics provides robust support for a two-domains tree of life

Compositionally Constrained Sites Drive Long-Branch Attraction

Emergent neutrality in adaptive asexual evolution

ATP synthase evolution on a cross-braced dated tree of life

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