• 2024
  Zeitler L, Goldar A, Denby Wilkes C, Soutourina J, The next-generation sequencing-chess problem., NAR Genom Bioinform 2024 Sep; 6(4): lqae144.
• 2024
  Brulport A, Bourdon M, Vaiman D, Drouet C, Pocate-Cheriet K, Bouzid K, Marcellin L, Santulli P, Abo C, Jeljeli M, Chouzenoux S, Chapron C, Batteux F, Berthelot C, Doridot L, An integrated multi-tissue approach for endometriosis candidate biomarkers: a systematic review., Reprod Biol Endocrinol 2024 Feb; 22(1): 21.
• 2023
  Parey E, Fernandez-Aroca D, Frost S, Uribarren A, Park TJ, Zöttl M, St John Smith E, Berthelot C, Villar D, Phylogenetic modeling of enhancer shifts in African mole-rats reveals regulatory changes associated with tissue-specific traits., Genome Res 2023 Sep; 33(9): 1513-1526.
• 2023
  Muffato M, Louis A, Nguyen NTT, Lucas J, Berthelot C, Roest Crollius H, Reconstruction of hundreds of reference ancestral genomes across the eukaryotic kingdom., Nat Ecol Evol 2023 Mar; 7(3): 355-366.
• 2023
  Parey E, Louis A, Montfort J, Bouchez O, Roques C, Iampietro C, Lluch J, Castinel A, Donnadieu C, Desvignes T, Floi Bucao C, Jouanno E, Wen M, Mejri S, Dirks R, Jansen H, Henkel C, Chen WJ, Zahm M, Cabau C, Klopp C, Thompson A, Robinson-Rechavi M, Braasch I, Lecointre G, Bobe J, Postlethwait JH, Berthelot C, Crollius HR, Guiguen Y, , Genome structures resolve the early diversification of teleost fishes., Science 2023 Feb; 379(6632): 572-575.
• 2022
  Toomey MB, Marques CI, Araújo PM, Huang D, Zhong S, Liu Y, Schreiner GD, Myers CA, Pereira P, Afonso S, Andrade P, Gazda MA, Lopes RJ, Viegas I, Koch RE, Haynes ME, Smith DJ, Ogawa Y, Murphy D, Kopec RE, Parichy DM, Carneiro M, Corbo JC, , A mechanism for red coloration in vertebrates., Curr Biol 2022 Aug; (): .
• 2022
  Parey E, Louis A, Montfort J, Guiguen Y, Roest Crollius H, Berthelot C, , An atlas of fish genome evolution reveals delayed rediploidization following the teleost whole-genome duplication., Genome Res 2022 Aug; (): .
• 2022
  Kent BA, Holman C, Amoako E, Antonietti A, Azam JM, Ballhausen H, Bediako Y, Belasen AM, Carneiro CFD, Chen YC, Compeer EB, Connor CAC, Crüwell S, Debat H, Dorris E, Ebrahimi H, Erlich JC, Fernández-Chiappe F, Fischer F, Gazda MA, Glatz T, Grabitz P, Heise V, Kent DG, Lo H, McDowell G, Mehta D, Neumann WJ, Neves K, Patterson M, Penfold NC, Piper SK, Puebla I, Quashie PK, Quezada CP, Riley JL, Rohmann JL, Saladi S, Schwessinger B, Siegerink B, Stehlik P, Tzilivaki A, Umbers KDL, Varma A, Walavalkar K, de Winde CM, Zaza C, Weissgerber TL, , Recommendations for empowering early career researchers to improve research culture and practice., PLoS Biol 2022 07; 20(7): e3001680.
• 2022
  Schulz R, Barnett A, Bernard R, Brown NJL, Byrne JA, Eckmann P, Gazda MA, Kilicoglu H, Prager EM, Salholz-Hillel M, Ter Riet G, Vines T, Vorland CJ, Zhuang H, Bandrowski A, Weissgerber TL, , Is the future of peer review automated?, BMC Res Notes 2022 Jun; 15(1): 203.
• 2022
  Moyon L, Berthelot C, Louis A, Nguyen NTT, Roest Crollius H, , Classification of non-coding variants with high pathogenic impact., PLoS Genet 2022 Apr; 18(4): e1010191.
• 2021
  Freitas S, Gazda MA, Rebelo MÂ, Muñoz-Pajares AJ, Vila-Viçosa C, Muñoz-Mérida A, Gonçalves LM, Azevedo-Silva D, Afonso S, Castro I, Castro PH, Sottomayor M, Beja-Pereira A, Tereso J, Ferrand N, Gonçalves E, Martins A, Carneiro M, Azevedo H, , Pervasive hybridization with local wild relatives in Western European grapevine varieties., Sci Adv 2021 Nov; 7(47): eabi8584.
• 2021
  Thompson AW, Hawkins MB, Parey E, Wcisel DJ, Ota T, Kawasaki K, Funk E, Losilla M, Fitch OE, Pan Q, Feron R, Louis A, Montfort J, Milhes M, Racicot BL, Childs KL, Fontenot Q, Ferrara A, David SR, McCune AR, Dornburg A, Yoder JA, Guiguen Y, Roest Crollius H, Berthelot C, Harris MP, Braasch I, , The bowfin genome illuminates the developmental evolution of ray-finned fishes., Nat Genet 2021 09; 53(9): 1373-1384.
• 2021
  Auer S, Haeltermann NA, Weissberger TL, Erlich JC, Susilaradeya D, Julkowska M, Gazda MA, Schwessinger B, Jadavji NM, , , A community-led initiative for training in reproducible research., Elife 2021 06; 10(): .
• 2021
  Jambor H, Antonietti A, Alicea B, Audisio TL, Auer S, Bhardwaj V, Burgess SJ, Ferling I, Gazda MA, Hoeppner LH, Ilangovan V, Lo H, Olson M, Mohamed SY, Sarabipour S, Varma A, Walavalkar K, Wissink EM, Weissgerber TL, , Creating clear and informative image-based figures for scientific publications., PLoS Biol 2021 03; 19(3): e3001161.
• 2021
  Andrade P, Gazda MA, Araújo PM, Afonso S, Rasmussen JA, Marques CI, Lopes RJ, Gilbert MTP, Carneiro M, , Molecular parallelisms between pigmentation in the avian iris and the integument of ectothermic vertebrates., PLoS Genet 2021 02; 17(2): e1009404.
• 2020
  Parey E, Louis A, Cabau C, Guiguen Y, Roest Crollius H, Berthelot C, , Synteny-Guided Resolution of Gene Trees Clarifies the Functional Impact of Whole-Genome Duplications., Mol Biol Evol 2020 11; 37(11): 3324-3337.
• 2020
  Gazda MA, Toomey MB, Araújo PM, Lopes RJ, Afonso S, Myers CA, Serres K, Kiser PD, Hill GE, Corbo JC, Carneiro M, , Genetic Basis of De Novo Appearance of Carotenoid Ornamentation in Bare Parts of Canaries., Mol Biol Evol 2020 05; 37(5): 1317-1328.
• 2019
  Berthelot C, Clarke J, Desvignes T, William Detrich H, Flicek P, Peck LS, Peters M, Postlethwait JH, Clark MS, , Adaptation of Proteins to the Cold in Antarctic Fish: A Role for Methionine?, Genome Biol Evol 2019 01; 11(1): 220-231.
• 2018
  Sacerdot C, Louis A, Bon C, Berthelot C, Roest Crollius H, , Chromosome evolution at the origin of the ancestral vertebrate genome., Genome Biol 2018 10; 19(1): 166.
• 2018
  Berthelot C, Villar D, Horvath JE, Odom DT, Flicek P, , Complexity and conservation of regulatory landscapes underlie evolutionary resilience of mammalian gene expression., Nat Ecol Evol 2018 Jan; 2(1): 152-163.
• 2018
  Bojarska K, Kuehn R, Gazda MA, Sato NJ, Okahisa Y, Tanaka KD, Attisano A, Gula R, Ueda K, Theuerkauf J, , Mating system and extra-pair paternity in the Fan-tailed Gerygone Gerygone flavolateralis in relation to parasitism by the Shining Bronze-cuckoo Chalcites lucidus., PLoS One 2018 ; 13(3): e0194059.
• 2017
  Pasquier J, Braasch I, Batzel P, Cabau C, Montfort J, Nguyen T, Jouanno E, Berthelot C, Klopp C, Journot L, Postlethwait JH, Guiguen Y, Bobe J, , Evolution of gene expression after whole-genome duplication: New insights from the spotted gar genome., J Exp Zool B Mol Dev Evol 2017 Nov; 328(7): 709-721.
• 2015
  Berthelot C, Muffato M, Abecassis J, Roest Crollius H, , The 3D organization of chromatin explains evolutionary fragile genomic regions., Cell Rep 2015 Mar; 10(11): 1913-24.
• 2015
  Villar D, Berthelot C, Aldridge S, Rayner TF, Lukk M, Pignatelli M, Park TJ, Deaville R, Erichsen JT, Jasinska AJ, Turner JM, Bertelsen MF, Murchison EP, Flicek P, Odom DT, , Enhancer evolution across 20 mammalian species., Cell 2015 Jan; 160(3): 554-66.
• 2014
  Berthelot C, Brunet F, Chalopin D, Juanchich A, Bernard M, Noël B, Bento P, Da Silva C, Labadie K, Alberti A, Aury JM, Louis A, Dehais P, Bardou P, Montfort J, Klopp C, Cabau C, Gaspin C, Thorgaard GH, Boussaha M, Quillet E, Guyomard R, Galiana D, Bobe J, Volff JN, Genêt C, Wincker P, Jaillon O, Roest Crollius H, Guiguen Y, , The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates., Nat Commun 2014 Apr; 5(): 3657.
• 2013
  Howe K, Clark MD, Torroja CF, Torrance J, Berthelot C, Muffato M, Collins JE, Humphray S, McLaren K, Matthews L, McLaren S, Sealy I, Caccamo M, Churcher C, Scott C, Barrett JC, Koch R, Rauch GJ, White S, Chow W, Kilian B, Quintais LT, Guerra-Assunção JA, Zhou Y, Gu Y, Yen J, Vogel JH, Eyre T, Redmond S, Banerjee R, Chi J, Fu B, Langley E, Maguire SF, Laird GK, Lloyd D, Kenyon E, Donaldson S, Sehra H, Almeida-King J, Loveland J, Trevanion S, Jones M, Quail M, Willey D, Hunt A, Burton J, Sims S, McLay K, Plumb B, Davis J, Clee C, Oliver K, Clark R, Riddle C, Elliot D, Eliott D, Threadgold G, Harden G, Ware D, Begum S, Mortimore B, Mortimer B, Kerry G, Heath P, Phillimore B, Tracey A, Corby N, Dunn M, Johnson C, Wood J, Clark S, Pelan S, Griffiths G, Smith M, Glithero R, Howden P, Barker N, Lloyd C, Stevens C, Harley J, Holt K, Panagiotidis G, Lovell J, Beasley H, Henderson C, Gordon D, Auger K, Wright D, Collins J, Raisen C, Dyer L, Leung K, Robertson L, Ambridge K, Leongamornlert D, McGuire S, Gilderthorp R, Griffiths C, Manthravadi D, Nichol S, Barker G, Whitehead S, Kay M, Brown J, Murnane C, Gray E, Humphries M, Sycamore N, Barker D, Saunders D, Wallis J, Babbage A, Hammond S, Mashreghi-Mohammadi M, Barr L, Martin S, Wray P, Ellington A, Matthews N, Ellwood M, Woodmansey R, Clark G, Cooper J, Cooper J, Tromans A, Grafham D, Skuce C, Pandian R, Andrews R, Harrison E, Kimberley A, Garnett J, Fosker N, Hall R, Garner P, Kelly D, Bird C, Palmer S, Gehring I, Berger A, Dooley CM, Ersan-Ürün Z, Eser C, Geiger H, Geisler M, Karotki L, Kirn A, Konantz J, Konantz M, Oberländer M, Rudolph-Geiger S, Teucke M, Lanz C, Raddatz G, Osoegawa K, Zhu B, Rapp A, Widaa S, Langford C, Yang F, Schuster SC, Carter NP, Harrow J, Ning Z, Herrero J, Searle SM, Enright A, Geisler R, Plasterk RH, Lee C, Westerfield M, de Jong PJ, Zon LI, Postlethwait JH, Nüsslein-Volhard C, Hubbard TJ, Roest Crollius H, Rogers J, Stemple DL, , The zebrafish reference genome sequence and its relationship to the human genome., Nature 2013 Apr; 496(7446): 498-503.
• 2010
  Champlot S, Berthelot C, Pruvost M, Bennett EA, Grange T, Geigl EM, , An efficient multistrategy DNA decontamination procedure of PCR reagents for hypersensitive PCR applications., PLoS One 2010 Sep; 5(9): .