David Thybert

发表

Decoupling of evolutionary changes in transcription factor binding and gene expression in mammals

Bianca M. Schmitt, D. Odom, P. Flicek, 2015, Genome research.

A rather dry subject; investigating the study of arid-associated microbial communities

W. Haerty, N. Kronfeld-Schor, David Thybert, 2020, Environmental Microbiome.

Genome variation and conserved regulation identify genomic regions responsible for strain specific phenotypes in rat

P. Flicek, A. Kwitek, David Thybert, 2017, bioRxiv.

Cooperativity and Rapid Evolution of Cobound Transcription Factors in Closely Related Mammals

Michael D. Wilson, D. Odom, J. Marioni, 2013, Cell.

Multidimensional Scaling Reveals the Main Evolutionary Pathways of Class A G-Protein-Coupled Receptors

Marie Chabbert, Hervé Abdi, Julien Pelé, 2011, PloS one.

SORGOdb: Superoxide Reductase Gene Ontology curated DataBase

D. Goudenège, David Thybert, F. Barloy-Hubler, 2011, BMC Microbiology.

Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes

Mark Gerstein, Benedict Paten, Paul Flicek, 2017, bioRxiv.

Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes

Son K. Pham, Ian T. Fiddes, Bronwen L. Aken, 2017, bioRxiv.

The Evolutionary Fates of a Large Segmental Duplication in Mouse

John P. Didion, T. A. Bell, L. McMillan, 2016, Genetics.

Genome variation and conserved regulation identify genomic regions responsible for strain specific phenotypes in rat

P. Flicek, A. Kwitek, David Thybert, 2017, bioRxiv.

Pseudogenes in the mouse lineage: transcriptional activity and strain-specific history

Thomas M. Keane, Ian T. Fiddes, M. Gerstein, 2018, bioRxiv.

Transcriptional activity and strain-specific history of mouse pseudogenes

Ian T. Fiddes, M. Gerstein, J. Harrow, 2020, Nature Communications.

The Quest for Orthologs orthology benchmark service in 2022

Adrian M. Altenhoff, E. Sonnhammer, P. Thomas, 2022, Nucleic Acids Res..

The Evolutionary Fates of a Large Segmental Duplication in Mouse

John P. Didion, T. A. Bell, L. McMillan, 2016, Genetics.

The Ensembl COVID-19 resource: ongoing integration of public SARS-CoV-2 data

Andrew D. Yates, Carla A. Cummins, Denye N. Ogeh, 2020, bioRxiv.

OxyGene: an innovative platform for investigating oxidative-response genes in whole prokaryotic genomes

David Thybert, F. Barloy-Hubler, S. Avner, 2008, BMC Genomics.

Latent Regulatory Potential of Human-Specific Repetitive Elements

Paul Flicek, Rory Stark, Michael D. Wilson, 2013, Molecular cell.

Chromosome assembly of large and complex genomes using multiple references

Son K. Pham, Thomas M. Keane, Fengtang Yang, 2016, bioRxiv.

Ensembl 2023

Jonathan M. Mudge, Andrew D. Yates, José Carlos Marugán, 2022, Nucleic Acids Res..

Ensembl 2021

Astrid Gall, James E. Allen, Daniel R. Zerbino, 2020, Nucleic Acids Res..

Interplay of cis and trans mechanisms driving transcription factor binding and gene expression evolution

Tim F. Rayner, Bianca M. Schmitt, D. Odom, 2016, Nature Communications.

Interplay of cis and trans mechanisms driving transcription factor binding, chromatin, and gene expression evolution

Bianca M. Schmitt, D. Odom, J. Marioni, 2016 .

Random monoallelic gene expression increases upon embryonic stem cell differentiation.

Jan H Bergmann, Paul Flicek, John C Marioni, 2014, Developmental cell.

Sixteen diverse laboratory mouse reference genomes define strain specific haplotypes and novel functional loci

Mark Gerstein, Jane Loveland, Dent Earl, 2018, Nature Genetics.

Ten Years of Collaborative Progress in the Quest for Orthologs

Alex Warwick Vesztrocy, Natasha M. Glover, Adrian M. Altenhoff, 2021, Molecular biology and evolution.

Ensembl 2022

James E. Allen, Jonathan M. Mudge, Andrew D. Yates, 2021, Nucleic Acids Res..

Sixteen diverse laboratory mouse reference genomes define strain specific haplotypes and novel functional loci

Son K. Pham, Thomas M. Keane, Ian T. Fiddes, 2018, Nature Genetics.

Regulatory Divergence of Transcript Isoforms in a Mammalian Model System

D. Odom, J. Marioni, A. Brazma, 2015, PloS one.

Multiple laboratory mouse reference genomes define strain specific haplotypes and novel functional loci

Mark Gerstein, Jane Loveland, Dent Earl, 2018, bioRxiv.

Extensive compensatory cis-trans regulation in the evolution of mouse gene expression

Paul Flicek, Alvis Brazma, Klara Stefflova, 2012, Genome research.

Lepidoptera genomics based on 88 chromosomal reference sequences informs population genetic parameters for conservation

Fergal J. Martin, R. Durbin, T. Genez, 2023, bioRxiv.

Interplay of cis and trans mechanisms driving transcription factor binding and gene expression evolution

Bianca M. Schmitt, D. Odom, J. Marioni, 2017, bioRxiv.