Hugues Roest Crollius

Hugues Roest Crollius

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Hugues Roest Crollius

Hugues Roest Crollius

Publications by authors named "Hugues Roest Crollius"

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Chromosome evolution at the origin of the ancestral vertebrate genome.

Genome Biol 2018 10 17;19(1):166. Epub 2018 Oct 17.

Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Ecole Normale Supérieure, CNRS, INSERM, PSL Research University, 75005, Paris, France.

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https://genomebiology.biomedcentral.com/articles/10.1186/s13
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http://dx.doi.org/10.1186/s13059-018-1559-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6193309PMC
October 2018

Genomicus 2018: karyotype evolutionary trees and on-the-fly synteny computing.

Nucleic Acids Res 2018 01;46(D1):D816-D822

Ecole Normale Supérieure, Institut de Biologie de l'ENS, IBENS, Paris F-75005, France.

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http://dx.doi.org/10.1093/nar/gkx1003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753199PMC
January 2018

High precision detection of conserved segments from synteny blocks.

PLoS One 2017 3;12(7):e0180198. Epub 2017 Jul 3.

IBENS, Département de Biologie, Ecole Normale Supérieure, CNRS, Inserm, PSL Research, University, Paris, France.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0180198PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5495381PMC
October 2017

Comparative epigenomics in the Brassicaceae reveals two evolutionarily conserved modes of PRC2-mediated gene regulation.

Genome Biol 2017 10 31;18(1):207. Epub 2017 Oct 31.

Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Ecole Normale Supérieure, Centre National de la Recherche Scientifique (CNRS), Institut National de la Santé et de la Recherche Médicale (INSERM), Paris, F-75005, France.

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http://dx.doi.org/10.1186/s13059-017-1333-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5663038PMC
October 2017

Erratum to: Understanding Brassicaceae evolution through ancestral genome reconstruction.

Genome Biol 2016 Apr 4;17:64. Epub 2016 Apr 4.

INRA/UBP UMR 1095 GDEC 'Génétique, Diversité et Ecophysiologie des Céréales', 5 Chemin de Beaulieu, Clermont Ferrand, 63100, France.

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http://dx.doi.org/10.1186/s13059-016-0887-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4820912PMC
April 2016

Master regulators in primary skin fibroblast fate reprogramming in a human ex vivo model of chronic wounds.

Wound Repair Regen 2016 03 28;24(2):247-62. Epub 2016 Jan 28.

Functional Imaging of Transcription, CNRS UMR8197, ENS, IBENS, Paris, France.

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http://dx.doi.org/10.1111/wrr.12392DOI Listing
March 2016

Understanding Brassicaceae evolution through ancestral genome reconstruction.

Genome Biol 2015 Dec 10;16:262. Epub 2015 Dec 10.

INRA/UBP UMR 1095 GDEC 'Génétique, Diversité et Ecophysiologie des Céréales', 5 Chemin de Beaulieu, 63100, Clermont Ferrand, France.

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http://dx.doi.org/10.1186/s13059-015-0814-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4675067PMC
December 2015

Genomicus update 2015: KaryoView and MatrixView provide a genome-wide perspective to multispecies comparative genomics.

Nucleic Acids Res 2015 Jan 6;43(Database issue):D682-9. Epub 2014 Nov 6.

Ecole Normale Supérieure, Institut de Biologie de l'ENS, IBENS, Paris F-75005, France Inserm U1024, Paris F-75005, France CNRS, UMR 8197, Paris F-75005, France.

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http://dx.doi.org/10.1093/nar/gku1112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383929PMC
January 2015

GenomicusPlants: a web resource to study genome evolution in flowering plants.

Plant Cell Physiol 2015 Jan 27;56(1):e4. Epub 2014 Nov 27.

Ecole Normale Supérieure, Institut de Biologie de l'ENS, IBENS, Paris, F-75005 France CNRS, UMR 8197, Paris, F-75005 France Inserm, U1024, Paris, F-75005 France.

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http://dx.doi.org/10.1093/pcp/pcu177DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4301744PMC
January 2015

Description of embryonic development of spotted green pufferfish (Tetraodon nigroviridis).

Zebrafish 2014 Dec;11(6):509-17

1 School of Clinical and Experimental Medicine, College of Medical and Dental Sciences, University of Birmingham , Edgbaston, United Kingdom .

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http://dx.doi.org/10.1089/zeb.2014.0984DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4248246PMC
December 2014

Signaling switch of the axon guidance receptor Robo3 during vertebrate evolution.

Neuron 2014 Dec 26;84(6):1258-72. Epub 2014 Nov 26.

INSERM, UMRS U968, Institut de la Vision, Paris 75012, France; Sorbonne Universités, Université Pierre et Marie Curie (UPMC) Univ Paris 06, Institut de la Vision, Paris 75012, France; CNRS, UMR 7210, Paris 75012, France. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S08966273140100
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http://dx.doi.org/10.1016/j.neuron.2014.11.004DOI Listing
December 2014

The loss of adipokine genes in the chicken genome and implications for insulin metabolism.

Mol Biol Evol 2014 Oct 10;31(10):2637-46. Epub 2014 Jul 10.

UMR85 Physiologie de la Reproduction et des Comportements, INRA, Nouzilly, France UMR7247, CNRS, Nouzilly, France Université François Rabelais de Tours, Tours, France Institut Français du Cheval et de l'Equitation, Nouzilly, France

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http://dx.doi.org/10.1093/molbev/msu208DOI Listing
October 2014

PhylDiag: identifying complex synteny blocks that include tandem duplications using phylogenetic gene trees.

BMC Bioinformatics 2014 Aug 8;15:268. Epub 2014 Aug 8.

Ecole Normale Supérieure, Institut de Biologie de l'ENS, IBENS, 46 rue d'Ulm, 75005 Paris, France.

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http://dx.doi.org/10.1186/1471-2105-15-268DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4155083PMC
August 2014

Transcriptome-wide identification of RNA binding sites by CLIP-seq.

Methods 2013 Sep 30;63(1):32-40. Epub 2013 Mar 30.

Institut de Biologie de l'Ecole Normale Supérieure, Section de Génomique Fonctionnelle, Paris, France; CNRS UMR8197, Paris, France; INSERM U1024, Paris, France.

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http://dx.doi.org/10.1016/j.ymeth.2013.03.022DOI Listing
September 2013

The zebrafish reference genome sequence and its relationship to the human genome.

Authors:
Kerstin Howe Matthew D Clark Carlos F Torroja James Torrance Camille Berthelot Matthieu Muffato John E Collins Sean Humphray Karen McLaren Lucy Matthews Stuart McLaren Ian Sealy Mario Caccamo Carol Churcher Carol Scott Jeffrey C Barrett Romke Koch Gerd-Jörg Rauch Simon White William Chow Britt Kilian Leonor T Quintais José A Guerra-Assunção Yi Zhou Yong Gu Jennifer Yen Jan-Hinnerk Vogel Tina Eyre Seth Redmond Ruby Banerjee Jianxiang Chi Beiyuan Fu Elizabeth Langley Sean F Maguire Gavin K Laird David Lloyd Emma Kenyon Sarah Donaldson Harminder Sehra Jeff Almeida-King Jane Loveland Stephen Trevanion Matt Jones Mike Quail Dave Willey Adrienne Hunt John Burton Sarah Sims Kirsten McLay Bob Plumb Joy Davis Chris Clee Karen Oliver Richard Clark Clare Riddle David Elliot David Eliott Glen Threadgold Glenn Harden Darren Ware Sharmin Begum Beverley Mortimore Beverly Mortimer Giselle Kerry Paul Heath Benjamin Phillimore Alan Tracey Nicole Corby Matthew Dunn Christopher Johnson Jonathan Wood Susan Clark Sarah Pelan Guy Griffiths Michelle Smith Rebecca Glithero Philip Howden Nicholas Barker Christine Lloyd Christopher Stevens Joanna Harley Karen Holt Georgios Panagiotidis Jamieson Lovell Helen Beasley Carl Henderson Daria Gordon Katherine Auger Deborah Wright Joanna Collins Claire Raisen Lauren Dyer Kenric Leung Lauren Robertson Kirsty Ambridge Daniel Leongamornlert Sarah McGuire Ruth Gilderthorp Coline Griffiths Deepa Manthravadi Sarah Nichol Gary Barker Siobhan Whitehead Michael Kay Jacqueline Brown Clare Murnane Emma Gray Matthew Humphries Neil Sycamore Darren Barker David Saunders Justene Wallis Anne Babbage Sian Hammond Maryam Mashreghi-Mohammadi Lucy Barr Sancha Martin Paul Wray Andrew Ellington Nicholas Matthews Matthew Ellwood Rebecca Woodmansey Graham Clark James D Cooper James Cooper Anthony Tromans Darren Grafham Carl Skuce Richard Pandian Robert Andrews Elliot Harrison Andrew Kimberley Jane Garnett Nigel Fosker Rebekah Hall Patrick Garner Daniel Kelly Christine Bird Sophie Palmer Ines Gehring Andrea Berger Christopher M Dooley Zübeyde Ersan-Ürün Cigdem Eser Horst Geiger Maria Geisler Lena Karotki Anette Kirn Judith Konantz Martina Konantz Martina Oberländer Silke Rudolph-Geiger Mathias Teucke Christa Lanz Günter Raddatz Kazutoyo Osoegawa Baoli Zhu Amanda Rapp Sara Widaa Cordelia Langford Fengtang Yang Stephan C Schuster Nigel P Carter Jennifer Harrow Zemin Ning Javier Herrero Steve M J Searle Anton Enright Robert Geisler Ronald H A Plasterk Charles Lee Monte Westerfield Pieter J de Jong Leonard I Zon John H Postlethwait Christiane Nüsslein-Volhard Tim J P Hubbard Hugues Roest Crollius Jane Rogers Derek L Stemple

Nature 2013 Apr 17;496(7446):498-503. Epub 2013 Apr 17.

Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK.

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http://dx.doi.org/10.1038/nature12111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3703927PMC
April 2013

Genomicus: five genome browsers for comparative genomics in eukaryota.

Nucleic Acids Res 2013 Jan 27;41(Database issue):D700-5. Epub 2012 Nov 27.

Ecole Normale Supérieure, Institut de Biologie de l'ENS, IBENS, Paris, France.

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http://dx.doi.org/10.1093/nar/gks1156DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531091PMC
January 2013

CLIP-seq of eIF4AIII reveals transcriptome-wide mapping of the human exon junction complex.

Nat Struct Mol Biol 2012 Nov 21;19(11):1124-31. Epub 2012 Oct 21.

Institut de Biologie de l'Ecole Normale Supérieure, Section de Génomique Fonctionnelle, Paris, France.

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http://dx.doi.org/10.1038/nsmb.2420DOI Listing
November 2012

How much does the amphioxus genome represent the ancestor of chordates?

Brief Funct Genomics 2012 Mar 28;11(2):89-95. Epub 2012 Feb 28.

Institute of Biology of the Ecole Normale Supérieure, Paris, France.

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http://dx.doi.org/10.1093/bfgp/els003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3310212PMC
March 2012

Preventing dangerous nonsense: selection for robustness to transcriptional error in human genes.

PLoS Genet 2011 Oct 13;7(10):e1002276. Epub 2011 Oct 13.

Max Planck Institute for Molecular Genetics, Department of Computational Molecular Biology, Berlin, Germany.

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http://dx.doi.org/10.1371/journal.pgen.1002276DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3192821PMC
October 2011

Nucleosome rotational setting is associated with transcriptional regulation in promoters of tissue-specific human genes.

Genome Biol 2010 12;11(5):R51. Epub 2010 May 12.

Dyogen Group, Institut de Biologie de l'Ecole Normale Supérieure (IBENS), 46 rue d'Ulm, CNRS UMR8197, INSERM U1024, 75005 Paris Cedex 05, France.

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http://dx.doi.org/10.1186/gb-2010-11-5-r51DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2898081PMC
September 2010

[Hotspots of positive selection in primate genomes].

Med Sci (Paris) 2010 Jun-Jul;26(6-7):579-81

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http://dx.doi.org/10.1051/medsci/2010266-7579DOI Listing
September 2010

Genomicus: a database and a browser to study gene synteny in modern and ancestral genomes.

Bioinformatics 2010 Apr 24;26(8):1119-21. Epub 2010 Feb 24.

Dyogen Group, Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Centre National de la Recherche Scientifique UMR8197, Institut National de la Santé et de la Recherche Médicale U1024, 75005 Paris, France.

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http://dx.doi.org/10.1093/bioinformatics/btq079DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2853686PMC
April 2010

Human and non-human primate genomes share hotspots of positive selection.

PLoS Genet 2010 Feb 5;6(2):e1000840. Epub 2010 Feb 5.

DYOGEN Lab, CNRS UMR8541, Ecole Normale Supérieure, Paris, France.

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http://dx.doi.org/10.1371/journal.pgen.1000840DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2816677PMC
February 2010

Paleogenomics in vertebrates, or the recovery of lost genomes from the mist of time.

Bioessays 2008 Feb;30(2):122-34

Ecole Normale Supérieure, Dyogen Group, Paris, France.

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http://dx.doi.org/10.1002/bies.20707DOI Listing
February 2008

Gene loss and evolutionary rates following whole-genome duplication in teleost fishes.

Mol Biol Evol 2006 Sep 29;23(9):1808-16. Epub 2006 Jun 29.

Laboratoire de Biologie Moléculaire de la Cellule, INRA LA 1237, CNRS UMR5161, IFR 128 BioSciences Lyon-Gerland, Ecole Normale Supérieure de Lyon, Lyon, France.

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http://dx.doi.org/10.1093/molbev/msl049DOI Listing
September 2006

Exogean: a framework for annotating protein-coding genes in eukaryotic genomic DNA.

Genome Biol 2006 7;7 Suppl 1:S7.1-10. Epub 2006 Aug 7.

Dyogen Lab, CNRS UMR8541, Ecole Normale Supérieure, 46 rue d'Ulm, 75005 Paris, France.

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http://dx.doi.org/10.1186/gb-2006-7-s1-s7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1810556PMC
September 2006

Fish genomics and biology.

Genome Res 2005 Dec;15(12):1675-82

Dyogen Lab, Centre National de la Recherche Scientifique UMR8541, Ecole Normale Supérieure, 75005 Paris, France.

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http://dx.doi.org/10.1101/gr.3735805DOI Listing
December 2005

Inventing a sex-specific gene: a conserved role of DMRT1 in teleost fishes plus a recent duplication in the medaka Oryzias latipes resulted in DMY.

J Mol Evol 2003 ;57 Suppl 1:S148-53

Défenses Antivirales et Antitumorales, UMR CNRS 5124, 1919, Route de Mende, 34293 Montpellier Cedex 5, France.

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http://dx.doi.org/10.1007/s00239-003-0021-4DOI Listing
August 2004

Detecting single DNA copy number variations in complex genomes using one nanogram of starting DNA and BAC-array CGH.

Nucleic Acids Res 2004 Jul 29;32(13):e112. Epub 2004 Jul 29.

Génomique Cellulaire des Cancers, CNRS UMR 8125, Institut Gustave Roussy, 39 rue Camille Desmoulins, 94805 Villejuif Cedex, France.

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http://dx.doi.org/10.1093/nar/gnh108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC506828PMC
July 2004

Remarkable compartmentalization of transposable elements and pseudogenes in the heterochromatin of the Tetraodon nigroviridis genome.

Proc Natl Acad Sci U S A 2002 Oct 4;99(21):13636-41. Epub 2002 Oct 4.

Genoscope and Centre National de la Recherche Scientifique, Unité Mixte de Recherche 8030, 2 Rue Gaston Crémieux, 91057 Evry Cedex, France.

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http://dx.doi.org/10.1073/pnas.202284199DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC129727PMC
October 2002

Four-hundred million years of conserved synteny of human Xp and Xq genes on three Tetraodon chromosomes.

Genome Res 2002 Sep;12(9):1316-22

Comparative Genomics Group, Research School of Biological Sciences, Australian National University, Canberra, ACT 2601, Australia.

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http://dx.doi.org/10.1101/gr.222402DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC186653PMC
September 2002