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Publications



2018


2018

Spatiotemporal variation of the association between climate dynamics and HFRS outbreaks in Eastern China during 2005-2016 and its geographic determinants.
He J, Christakos G, Wu J, Cazelles B, Qian Q, Mu D, Wang Y, Yin W, Zhang W
PLoS Negl Trop Dis. 2018 Jun 6. 12(6):e0006554.

Transcriptional control and exploitation of an immune-responsive family of plant retrotransposons.
Zervudacki J, Yu A, Amesefe D, Wang J, Drouaud J, Navarro L, Deleris A
EMBO J. 2018 Jun 5.

The eukaryotic bell-shaped temporal rate of DNA replication origin firing emanates from a balance between origin activation and passivation.
Arbona JM, Goldar A, Hyrien O, Arneodo A, Audit B
Elife. 2018 Jun 1. 7.

Supergene Evolution Triggered by the Introgression of a Chromosomal Inversion.
Jay P, Whibley A, Frézal L, Rodríguez de Cara MÁ, Nowell RW, Mallet J, Dasmahapatra KK, Joron M
Curr Biol. 2018 Jun 4. 28(11):1839-1845.e3.

Microglia Under the Spotlight : Activity and Complement-Dependent Engulfment of Synapses.
Thion MS, Garel S
Trends Neurosci. 2018 Jun. 41(6):332-334.

Molecular and epigenetic regulations and functions of the LAFL transcriptional regulators that control seed development.
Lepiniec L, Devic M, Roscoe TJ, Bouyer D, Zhou DX, Boulard C, Baud S, Dubreucq B
Plant Reprod. 2018 May 24.

Dissection of DNA double-strand-break repair using novel single-molecule forceps.
Wang JL, Duboc C, Wu Q, Ochi T, Liang S, Tsutakawa SE, Lees‑Miller SP, Nadal M, Tainer JA, Blundell TL, Strick TR
Nat Struct Mol Biol. 2018 Jun. 25(6):482-487.

Polycomb Repressive Complex 2 attenuates the very high expression of the Arabidopsis gene NRT2.1.
Bellegarde F, Herbert L, Séré D, Caillieux E, Boucherez J, Fizames C, Roudier F, Gojon A, Martin A
Sci Rep. 2018 May 21. 8(1):7905.

Endocytosis-mediated siderophore uptake as a strategy for Fe acquisition in diatoms.
Kazamia E, Sutak R, Paz‑Yepes J, Dorrell RG, Vieira FRJ, Mach J, Morrissey J, Leon S, Lam F, Pelletier E, Camadro JM, Bowler C, Lesuisse E
Sci Adv. 2018 May. 4(5):eaar4536.

Non-cell Autonomous OTX2 Homeoprotein Regulates Visual Cortex Plasticity Through Gadd45b/g.
Apulei J, Kim N, Testa D, Ribot J, Morizet D, Bernard C, Jourdren L, Blugeon C, Di Nardo AA, Prochiantz A
Cereb Cortex. 2018 May 16.

Homoeolog expression bias in allopolyploid oleaginous marine diatom Fistulifera solaris.
Nomaguchi T, Maeda Y, Yoshino T, Asahi T, Tirichine L, Bowler C, Tanaka T
BMC Genomics. 2018 May 4. 19(1):330.

A cautionary TALE : how plant breeding may have favoured expanded TALE repertoires in Xanthomonas.
Schandry N, Jacobs JM, Szurek B, Perez‑Quintero AL
Mol Plant Pathol. 2018 Jun. 19(6):1297-1301.

RSAT 2018 : regulatory sequence analysis tools 20th anniversary.
Nguyen NTT, Contreras‑Moreira B, Castro‑Mondragon JA, Santana‑Garcia W, Ossio R, Robles‑Espinoza CD, Bahin M, Collombet S, Vincens P, Thieffry D, van Helden J, Medina‑Rivera A, Thomas‑Chollier M
Nucleic Acids Res. 2018 May 2.

Quadruplexes in ’Dicty’ : crystal structure of a four-quartet G-quadruplex formed by G-rich motif found in the Dictyostelium discoideum genome.
Guédin A, Lin LY, Armane S, Lacroix L, Mergny JL, Thore S, Yatsunyk LA
Nucleic Acids Res. 2018 Jun 1. 46(10):5297-5307.

Mib1 prevents Notch Cis-inhibition to defer differentiation and preserve neuroepithelial integrity during neural delamination.
Baek C, Freem L, Goïame R, Sang H, Morin X, Tozer S
PLoS Biol. 2018 Apr. 16(4):e2004162.

Evidence for altered dendritic spine compartmentalization in Alzheimer’s disease and functional effects in a mouse model.
Androuin A, Potier B, Nägerl UV, Cattaert D, Danglot L, Thierry M, Youssef I, Triller A, Duyckaerts C, El Hachimi KH, Dutar P, Delatour B, Marty S
Acta Neuropathol. 2018 Jun. 135(6):839-854.

Triheteromeric NMDA receptors : from structure to synaptic physiology.
Stroebel D, Casado M, Paoletti P
Curr Opin Physiol. 2018 Apr. 2:1-12.

Ranked tree shapes, non-random extinctions and the loss of phylogenetic diversity.
Maliet O, Gascuel F, Lambert A
Syst Biol. 2018 Apr 16.

Urbanization prolongs hantavirus epidemics in cities.
Tian H, Hu S, Cazelles B, Chowell G, Gao L, Laine M, Li Y, Yang H, Li Y, Yang Q, Tong X, Huang R, Bjornstad ON, Xiao H, Stenseth NC
Proc Natl Acad Sci U S A. 2018 May 1. 115(18):4707-4712.

Probing Ion Channel Structure and Function Using Light-Sensitive Amino Acids.
Klippenstein V, Mony L, Paoletti P
Trends Biochem Sci. 2018 Jun. 43(6):436-451.

Plastid Transcript Editing across Dinoflagellate Lineages Shows Lineage-Specific Application but Conserved Trends.
Klinger CM, Paoli L, Newby RJ, Wang MY, Carroll HD, Leblond JD, Howe CJ, Dacks JB, Bowler C, Cahoon AB, Dorrell RG, Richardson E
Genome Biol Evol. 2018 Apr 1. 10(4):1019-1038.

Connexin 43 Controls the Astrocyte Immunoregulatory Phenotype.
Boulay AC, Gilbert A, Oliveira Moreira V, Blugeon C, Perrin S, Pouch J, Le Crom S, Ducos B, Cohen‑Salmon M
Brain Sci. 2018 Mar 22. 8(4).

Integrative analysis of large scale transcriptome data draws a comprehensive landscape of Phaeodactylum tricornutum genome and evolutionary origin of diatoms.
Rastogi A, Maheswari U, Dorrell RG, Vieira FRJ, Maumus F, Kustka A, McCarthy J, Allen AE, Kersey P, Bowler C, Tirichine L
Sci Rep. 2018 Mar 19. 8(1):4834.

Asymmetric adhesion of rod-shaped bacteria controls microcolony morphogenesis.
Duvernoy MC, Mora T, Ardré M, Croquette V, Bensimon D, Quilliet C, Ghigo JM, Balland M, Beloin C, Lecuyer S, Desprat N
Nat Commun. 2018 Mar 16. 9(1):1120.

High-throughput fecundity measurements in Drosophila.
Nouhaud P, Mallard F, Poupardin R, Barghi N, Schlötterer C
Sci Rep. 2018 Mar 13. 8(1):4469.

Chemical regulation of body feather microbiota in a wild bird.
Jacob S, Sallé L, Zinger L, Chaine AS, Ducamp C, Boutault L, Russell AF, Heeb P
Mol Ecol. 2018 Apr. 27(7):1727-1738.

Müller glia-derived PRSS56 is required to sustain ocular axial growth and prevent refractive error.
Paylakhi S, Labelle‑Dumais C, Tolman NG, Sellarole MA, Seymens Y, Saunders J, Lakosha H, deVries WN, Orr AC, Topilko P, John SW, Nair KS
PLoS Genet. 2018 Mar. 14(3):e1007244.

A screen for deeply conserved non-coding GWAS SNPs uncovers a MIR-9-2 functional mutation associated to retinal vasculature defects in human.
Madelaine R, Notwell JH, Skariah G, Halluin C, Chen CC, Bejerano G, Mourrain P
Nucleic Acids Res. 2018 Mar 6.

Nanoplanktonic diatoms are globally overlooked but play a role in spring blooms and carbon export.
Leblanc K, Quéguiner B, Diaz F, Cornet V, Michel‑Rodriguez M, Durrieu de Madron X, Bowler C, Malviya S, Thyssen M, Grégori G, Rembauville M, Grosso O, Poulain J, de Vargas C, Pujo‑Pay M, Conan P
Nat Commun. 2018 Mar 5. 9(1):953.

Sequences Flanking the Gephyrin-Binding Site of GlyRβ Tune Receptor Stabilization at Synapses.
Grünewald N, Jan A, Salvatico C, Kress V, Renner M, Triller A, Specht CG, Schwarz G
eNeuro. 2018 Jan-Feb. 5(1).

Optogenetic Tractography for anatomo-functional characterization of cortico-subcortical neural circuits in non-human primates.
Senova S, Poupon C, Dauguet J, Stewart HJ, Dugué GP, Jan C, Hosomi K, Ralph GS, Barnes L, Drouot X, Pouzat C, Mangin JF, Pain F, Doignon I, Aron‑Badin R, Brouillet E, Boyden ES, Mitrophanous KA, Hantraye P, Palfi S
Sci Rep. 2018 Feb 20. 8(1):3362.

Deconvolution of Voltage Sensor Time Series and Electro-diffusion Modeling Reveal the Role of Spine Geometry in Controlling Synaptic Strength.
Cartailler J, Kwon T, Yuste R, Holcman D
Neuron. 2018 Mar 7. 97(5):1126-1136.e10.

Handedness in gestural and manipulative actions in male hunter-gatherer Aka pygmies from Central African Republic.
Robira B, Pouydebat E, San‑Galli A, Meulman EJM, Aubaile F, Breuer T, Masi S
Am J Phys Anthropol. 2018 Jun. 166(2):481-491.

FRET Image Correlation Spectroscopy Reveals RNAPII-Independent P-TEFb Recruitment on Chromatin.
Bidaux G, Le Nézet C, Pisfil MG, Henry M, Furlan A, Bensaude O, Vandenbunder B, Héliot L
Biophys J. 2018 Feb 6. 114(3):522-533.

Differential influences of allometry, phylogeny and environment on the rostral shape diversity of extinct South American notoungulates.
Gomes Rodrigues H, Cornette R, Clavel J, Cassini G, Bhullar BS, Fernández‑Monescillo M, Moreno K, Herrel A, Billet G
R Soc Open Sci. 2018 Jan. 5(1):171816.

Natural Infection of C. elegans by an Oomycete Reveals a New Pathogen-Specific Immune Response.
Osman GA, Fasseas MK, Koneru SL, Essmann CL, Kyrou K, Srinivasan MA, Zhang G, Sarkies P, Félix MA, Barkoulas M
Curr Biol. 2018 Feb 19. 28(4):640-648.e5.

Increased Potency and Selectivity for Group III Metabotropic Glutamate Receptor Agonists Binding at Dual sites.
Selvam C, Lemasson IA, Brabet I, Oueslati N, Karaman B, Cabaye A, Tora AS, Commare B, Courtiol T, Cesarini S, McCort‑Tranchepain I, Rigault D, Mony L, Bessiron T, McLean H, Leroux FR, Colobert F, Daniel H, Goupil‑Lamy A, Bertrand HO, Goudet C, Pin JP, Acher FC
J Med Chem. 2018 Mar 8. 61(5):1969-1989.

Contrasting impacts of competition on ecological and social trait evolution in songbirds.
Drury JP, Tobias JA, Burns KJ, Mason NA, Shultz AJ, Morlon H
PLoS Biol. 2018 Jan. 16(1):e2003563.

HTLV-1 Tax plugs and freezes UPF1 helicase leading to nonsense-mediated mRNA decay inhibition.
Fiorini F, Robin JP, Kanaan J, Borowiak M, Croquette V, Le Hir H, Jalinot P, Mocquet V
Nat Commun. 2018 Jan 30. 9(1):431.

A conserved structural element in the RNA helicase UPF1 regulates its catalytic activity in an isoform-specific manner.
Gowravaram M, Bonneau F, Kanaan J, Maciej VD, Fiorini F, Raj S, Croquette V, Le Hir H, Chakrabarti S
Nucleic Acids Res. 2018 Mar 16. 46(5):2648-2659.

A global ocean atlas of eukaryotic genes.
Carradec Q, Pelletier E, Da Silva C, Alberti A, Seeleuthner Y, Blanc‑Mathieu R, Lima‑Mendez G, Rocha F, Tirichine L, Labadie K, Kirilovsky A, Bertrand A, Engelen S, Madoui MA, Méheust R, Poulain J, Romac S, Richter DJ, Yoshikawa G, Dimier C, Kandels‑Lewis S, Picheral M, Searson S, Jaillon O, Aury JM, Karsenti E, Sullivan MB, Sunagawa S, Bork P, Not F, Hingamp P, Raes J, Guidi L, Ogata H, de Vargas C, Iudicone D, Bowler C, Wincker P
Nat Commun. 2018 Jan 25. 9(1):373.

Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans.
Seeleuthner Y, Mondy S, Lombard V, Carradec Q, Pelletier E, Wessner M, Leconte J, Mangot JF, Poulain J, Labadie K, Logares R, Sunagawa S, de Berardinis V, Salanoubat M, Dimier C, Kandels‑Lewis S, Picheral M, Searson S, Pesant S, Poulton N, Stepanauskas R, Bork P, Bowler C, Hingamp P, Sullivan MB, Iudicone D, Massana R, Aury JM, Henrissat B, Karsenti E, Jaillon O, Sieracki M, de Vargas C, Wincker P
Nat Commun. 2018 Jan 22. 9(1):310.

The epibiotic life of the cosmopolitan diatom Fragilariopsis doliolus on heterotrophic ciliates in the open ocean.
Vincent FJ, Colin S, Romac S, Scalco E, Bittner L, Garcia Y, Lopes RM, Dolan JR, Zingone A, de Vargas C, Bowler C
ISME J. 2018 Apr. 12(4):1094-1108.

Functional Principles of Posterior Septal Inputs to the Medial Habenula.
Otsu Y, Lecca S, Pietrajtis K, Rousseau CV, Marcaggi P, Dugué GP, Mailhes‑Hamon C, Mameli M, Diana MA
Cell Rep. 2018 Jan 16. 22(3):693-705.

Hexim1, an RNA-controlled protein hub.
Michels AA, Bensaude O
Transcription. 2018 Feb 23.

Control of Protein Activity and Gene Expression by Cyclofen-OH Uncaging.
Zhang W, Hamouri F, Feng Z, Aujard I, Ducos B, Ye S, Weiss S, Volovitch M, Vriz S, Jullien L, Bensimon D
Chembiochem. 2018 Jan 16.

Transcription factors orchestrate dynamic interplay between genome topology and gene regulation during cell reprogramming.
Stadhouders R, Vidal E, Serra F, Di Stefano B, Le Dily F, Quilez J, Gomez A, Collombet S, Berenguer C, Cuartero Y, Hecht J, Filion GJ, Beato M, Marti‑Renom MA, Graf T
Nat Genet. 2018 Feb. 50(2):238-249.

Spatial patterns generated by simultaneous cooperation and exploitation favour the evolution of altruism.
Yamauchi A, van Baalen M, Sabelis MW
J Theor Biol. 2018 Mar 14. 441:58-67.

Microbiome Influences Prenatal and Adult Microglia in a Sex-Specific Manner.
Thion MS, Low D, Silvin A, Chen J, Grisel P, Schulte‑Schrepping J, Blecher R, Ulas T, Squarzoni P, Hoeffel G, Coulpier F, Siopi E, David FS, Scholz C, Shihui F, Lum J, Amoyo AA, Larbi A, Poidinger M, Buttgereit A, Lledo PM, Greter M, Chan JKY, Amit I, Beyer M, Schultze JL, Schlitzer A, Pettersson S, Ginhoux F, Garel S
Cell. 2018 Jan 25. 172(3):500-516.e16.

Neobodonids are dominant kinetoplastids in the global ocean.
Flegontova O, Flegontov P, Malviya S, Poulain J, de Vargas C, Bowler C, Lukeš J, Horák A
Environ Microbiol. 2018 Feb. 20(2):878-889.

FANCD2 binding identifies conserved fragile sites at large transcribed genes in avian cells.
Pentzold C, Shah SA, Hansen NR, Le Tallec B, Seguin‑Orlando A, Debatisse M, Lisby M, Oestergaard VH
Nucleic Acids Res. 2018 Feb 16. 46(3):1280-1294.

TopA, the Sulfolobus solfataricus topoisomerase III, is a decatenase.
Bizard AH, Yang X, Débat H, Fogg JM, Zechiedrich L, Strick TR, Garnier F, Nadal M
Nucleic Acids Res. 2018 Jan 25. 46(2):861-872.

The Local Coexistence Pattern of Selfing Genotypes in Caenorhabditis elegans Natural Metapopulations.
Richaud A, Zhang G, Lee D, Lee J, Félix MA
Genetics. 2018 Feb. 208(2):807-821.

Greater pollination generalization is not associated with reduced constraints on corolla shape in Antillean plants.
Joly S, Lambert F, Alexandre H, Clavel J, Léveillé‑Bourret É, Clark JL
Evolution. 2018 Feb. 72(2):244-260.

The SlCBL10 Calcineurin B-Like Protein Ensures Plant Growth under Salt Stress by Regulating Na+ and Ca2+ Homeostasis.
Egea I, Pineda B, Ortíz‑Atienza A, Plasencia FA, Drevensek S, García‑Sogo B, Yuste‑Lisbona FJ, Barrero‑Gil J, Atarés A, Flores FB, Barneche F, Angosto T, Capel C, Salinas J, Vriezen W, Esch E, Bowler C, Bolarín MC, Moreno V, Lozano R
Plant Physiol. 2018 Feb. 176(2):1676-1693.

Pan-arthropod analysis reveals somatic piRNAs as an ancestral defence against transposable elements.
Lewis SH, Quarles KA, Yang Y, Tanguy M, Frézal L, Smith SA, Sharma PP, Cordaux R, Gilbert C, Giraud I, Collins DH, Zamore PD, Miska EA, Sarkies P, Jiggins FM
Nat Ecol Evol. 2018 Jan. 2(1):174-181.

Complexity and conservation of regulatory landscapes underlie evolutionary resilience of mammalian gene expression.
Berthelot C, Villar D, Horvath JE, Odom DT, Flicek P
Nat Ecol Evol. 2018 Jan. 2(1):152-163.

Transcriptome profiling of sorted endoreduplicated nuclei from tomato fruits : how the global shift in expression ascribed to DNA ploidy influences RNA-Seq data normalization and interpretation.
Pirrello J, Deluche C, Frangne N, Gévaudant F, Maza E, Djari A, Bourge M, Renaudin JP, Brown S, Bowler C, Zouine M, Chevalier C, Gonzalez N
Plant J. 2018 Jan. 93(2):387-398.

Krox20 defines a subpopulation of cardiac neural crest cells contributing to arterial valves and bicuspid aortic valve.
Odelin G, Faure E, Coulpier F, Di Bonito M, Bajolle F, Studer M, Avierinos JF, Charnay P, Topilko P, Zaffran S
Development. 2018 Jan 3. 145(1).

ANISEED 2017 : extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets.
Brozovic M, Dantec C, Dardaillon J, Dauga D, Faure E, Gineste M, Louis A, Naville M, Nitta KR, Piette J, Reeves W, Scornavacca C, Simion P, Vincentelli R, Bellec M, Aicha SB, Fagotto M, Guéroult‑Bellone M, Haeussler M, Jacox E, Lowe EK, Mendez M, Roberge A, Stolfi A, Yokomori R, Brown CT, Cambillau C, Christiaen L, Delsuc F, Douzery E, Dumollard R, Kusakabe T, Nakai K, Nishida H, Satou Y, Swalla B, Veeman M, Volff JN, Lemaire P
Nucleic Acids Res. 2018 Jan 4. 46(D1):D718-D725.

The "sacral parasympathetic" : ontogeny and anatomy of a myth.
Espinosa‑Medina I, Saha O, Boismoreau F, Brunet JF
Clin Auton Res. 2018 Feb. 28(1):13-21.

Compound Functional Prediction Using Multiple Unrelated Morphological Profiling Assays.
Rose F, Basu S, Rexhepaj E, Chauchereau A, Del Nery E, Genovesio A
SLAS Technol. 2018 Jun. 23(3):243-251.

Genomicus 2018 : karyotype evolutionary trees and on-the-fly synteny computing.
Nguyen NTT, Vincens P, Roest Crollius H, Louis A
Nucleic Acids Res. 2018 Jan 4. 46(D1):D816-D822.

Cell Type-Specific Profiling of Chromatin Modifications and Associated Proteins.
Morao AK, Caillieux E, Colot V, Roudier F
Methods Mol Biol. 2018. 1675:111-130.

Profiling Developmentally and Environmentally Controlled Chromatin Reprogramming.
Bourbousse C, Benhamed M, Barneche F
Methods Mol Biol. 2018. 1675:3-30.

An Assessment of Phylogenetic Tools for Analyzing the Interplay Between Interspecific Interactions and Phenotypic Evolution.
Drury JP, Grether GF, Garland T Jr, Morlon H
Syst Biol. 2018 May 1. 67(3):413-427.

Laser microdissection : A powerful tool for genomics at cell level.
Bevilacqua C, Ducos B
Mol Aspects Med. 2018 Feb. 59:5-27.

Tangential migration of corridor guidepost neurons contributes to anxiety circuits.
Tinterri A, Deck M, Keita M, Mailhes C, Rubin AN, Kessaris N, Lokmane L, Bielle F, Garel S
J Comp Neurol. 2018 Feb 15. 526(3):397-411.


Microglia Under the Spotlight : Activity and Complement-Dependent Engulfment of Synapses.->https://doi.org/10.1016/j.tins.2018.03.017
Thion MS et al.
Trends Neurosci. 2018 Jun. 41(6):332-334.



2017


2017

Statistics of randomly cross-linked polymer models to interpret chromatin conformation capture data.
Shukron O, Holcman D
Phys Rev E. 2017 Jul. 96(1-1):012503.

Modelling interaction dynamics between two foliar pathogens in wheat : a multi-scale approach.
Garin G, Pradal C, Fournier C, Claessen D, Houlès V, Robert C
Ann Bot. 2017 Dec 29.

Detecting environment-dependent diversi_cation from phylogenies : a simulation study and some empirical illustrations.
Lewitus E, Morlon H
Syst Biol. 2017 Dec 20.

Trouble bipolaire : nouvelles pistes diagnostiques et thérapeutiques fondées sur la reprogrammation cellulaire.
Santos R, Charnay P
Med Sci (Paris). 2017 Dec. 33(12):1048-1050.

Automatized image processing of bovine blastocysts produced in vitro for quantitative variable determination.
Rocha JC, Passalia FJ, Matos FD, Takahashi MB, Maserati MP Jr, Alves MF, de Almeida TG, Cardoso BL, Basso AC, Nogueira MFG
Sci Data. 2017 Dec 19. 4:170192.

Author Correction : Resonant out-of-phase fluorescence microscopy and remote imaging overcome spectral limitations.
Quérard J, Zhang R, Kelemen Z, Plamont MA, Xie X, Chouket R, Roemgens I, Korepina Y, Albright S, Ipendey E, Volovitch M, Sladitschek HL, Neveu P, Gissot L, Gautier A, Faure JD, Croquette V, Le Saux T, Jullien L
Nat Commun. 2017 Dec 14. 8(1):2173.

A Simple and Powerful Analysis of Lateral Subdiffusion Using Single Particle Tracking.
Renner M, Wang L, Levi S, Hennekinne L, Triller A
Biophys J. 2017 Dec 5. 113(11):2452-2463.

Inhibition of group-I metabotropic glutamate receptors protects against prion toxicity.
Goniotaki D, Lakkaraju AKK, Shrivastava AN, Bakirci P, Sorce S, Senatore A, Marpakwar R, Hornemann S, Gasparini F, Triller A, Aguzzi A
PLoS Pathog. 2017 Nov. 13(11):e1006733.

Boundary cap cells in development and disease.
Radomska KJ, Topilko P
Curr Opin Neurobiol. 2017 Dec. 47:209-215.

Constitutively Active SMAD2/3 Are Broad-Scope Potentiators of Transcription-Factor-Mediated Cellular Reprogramming.
Ruetz T, Pfisterer U, Di Stefano B, Ashmore J, Beniazza M, Tian TV, Kaemena DF, Tosti L, Tan W, Manning JR, Chantzoura E, Ottosson DR, Collombet S, Johnsson A, Cohen E, Yusa K, Linnarsson S, Graf T, Parmar M, Kaji K
Cell Stem Cell. 2017 Dec 7. 21(6):791-805.e9.

Egr1 deficiency induces browning of inguinal subcutaneous white adipose tissue in mice.
Milet C, Bléher M, Allbright K, Orgeur M, Coulpier F, Duprez D, Havis E
Sci Rep. 2017 Nov 23. 7(1):16153.

The mechanism of variability in transcription start site selection.
Yu L, Winkelman JT, Pukhrambam C, Strick TR, Nickels BE, Ebright RH
Elife. 2017 Nov 23. 6.

Emerging Mechanisms Underlying Dynamics of GABAergic Synapses.
Maffei A, Charrier C, Caiati MD, Barberis A, Mahadevan V, Woodin MA, Tyagarajan SK
J Neurosci. 2017 Nov 8. 37(45):10792-10799.

Compound Functional Prediction Using Multiple Unrelated Morphological Profiling Assays.
Rose F, Basu S, Rexhepaj E, Chauchereau A, Del Nery E, Genovesio A
SLAS Technol. 2017 Nov 1:2472630317740831.

Quantitative 3D-imaging for cell biology and ecology of environmental microbial eukaryotes.
Colin S, Coelho LP, Sunagawa S, Bowler C, Karsenti E, Bork P, Pepperkok R, de Vargas C
Elife. 2017 Oct 31. 6.

Comparative epigenomics in the Brassicaceae reveals two evolutionarily conserved modes of PRC2-mediated gene regulation.
Chica C, Louis A, Roest Crollius H, Colot V, Roudier F
Genome Biol. 2017 Oct 31. 18(1):207.

The fitness cost of mis-splicing is the main determinant of alternative splicing patterns.
Saudemont B, Popa A, Parmley JL, Rocher V, Blugeon C, Necsulea A, Meyer E, Duret L
Genome Biol. 2017 Oct 30. 18(1):208.

On place and time : microglia in embryonic and perinatal brain development.
Thion MS, Garel S
Curr Opin Neurobiol. 2017 Dec. 47:121-130.

Dual origin of enteric neurons in vagal Schwann cell precursors and the sympathetic neural crest.
Espinosa‑Medina I, Jevans B, Boismoreau F, Chettouh Z, Enomoto H, Müller T, Birchmeier C, Burns AJ, Brunet JF
Proc Natl Acad Sci U S A. 2017 Nov 7. 114(45):11980-11985.

Estradiol modulates the efficacy of synaptic inhibition by decreasing the dwell time of GABAA receptors at inhibitory synapses.
Mukherjee J, Cardarelli RA, Cantaut‑Belarif Y, Deeb TZ, Srivastava DP, Tyagarajan SK, Pangalos MN, Triller A, Maguire J, Brandon NJ, Moss SJ
Proc Natl Acad Sci U S A. 2017 Oct 31. 114(44):11763-11768.

René Thomas (1928-2017) : From DNA denaturation to positive gene regulation, kinetic logic and complex dynamical systems.
Thieffry D, Toussaint A
Bioessays. 2017 Dec. 39(12).

Polygenicity and Epistasis Underlie Fitness-Proximal Traits in the Caenorhabditis elegans Multiparental Experimental Evolution (CeMEE) Panel.
Noble LM, Chelo I, Guzella T, Afonso B, Riccardi DD, Ammerman P, Dayarian A, Carvalho S, Crist A, Pino‑Querido A, Shraiman B, Rockman MV, Teotónio H
Genetics. 2017 Dec. 207(4):1663-1685.

Resonant out-of-phase fluorescence microscopy and remote imaging overcome spectral limitations.
Quérard J, Zhang R, Kelemen Z, Plamont MA, Xie X, Chouket R, Roemgens I, Korepina Y, Albright S, Ipendey E, Volovitch M, Sladitschek HL, Neveu P, Gissot L, Gautier A, Faure JD, Croquette V, Le Saux T, Jullien L
Nat Commun. 2017 Oct 17. 8(1):969.

Design of Light-Sensitive NMDARs by Genetically Encoded Photo-Cross-Linkers.
Tian M, Ye S
Methods Mol Biol. 2017. 1677:185-197.

Calibrated mitotic oscillator drives motile ciliogenesis.
Al Jord A, Shihavuddin A, Servignat d’Aout R, Faucourt M, Genovesio A, Karaiskou A, Sobczak‑Thépot J, Spassky N, Meunier A
Science. 2017 Nov 10. 358(6364):803-806.

Analysis of Claims that the Brain Extracellular Impedance Is High and Non-resistive.
Barbour B
Biophys J. 2017 Oct 3. 113(7):1636-1638.

P-Body Purification Reveals the Condensation of Repressed mRNA Regulons.
Hubstenberger A, Courel M, Bénard M, Souquere S, Ernoult‑Lange M, Chouaib R, Yi Z, Morlot JB, Munier A, Fradet M, Daunesse M, Bertrand E, Pierron G, Mozziconacci J, Kress M, Weil D
Mol Cell. 2017 Oct 5. 68(1):144-157.e5.

Evolution of gene expression after whole-genome duplication : New insights from the spotted gar genome.
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
J Exp Zool B Mol Dev Evol. 2017 Nov. 328(7):709-721.

DNA methylation dynamics during early plant life.
Bouyer D, Kramdi A, Kassam M, Heese M, Schnittger A, Roudier F, Colot V
Genome Biol. 2017 Sep 25. 18(1):179.

Genome sequencing and transcriptome analysis of Trichoderma reesei QM9978 strain reveals a distal chromosome translocation to be responsible for loss of vib1 expression and loss of cellulase induction.
Ivanova C, Ramoni J, Aouam T, Frischmann A, Seiboth B, Baker SE, Le Crom S, Lemoine S, Margeot A, Bidard F
Biotechnol Biofuels. 2017. 10:209.

Differential cellular responses associated with oxidative stress and cell fate decision under nitrate and phosphate limitations in Thalassiosira pseudonana : Comparative proteomics.
Lin Q, Liang JR, Huang QQ, Luo CS, Anderson DM, Bowler C, Chen CP, Li XS, Gao YH
PLoS One. 2017. 12(9):e0184849.

Electrostatics of non-neutral biological microdomains.
Cartailler J, Schuss Z, Holcman D
Sci Rep. 2017 Sep 12. 7(1):11269.

Alpha subunit-dependent glycine receptor clustering and regulation of synaptic receptor numbers.
Patrizio A, Renner M, Pizzarelli R, Triller A, Specht CG
Sci Rep. 2017 Sep 7. 7(1):10899.

Endodermal germ-layer formation through active actin-driven migration triggered by N-cadherin.
Giger FA, David NB
Proc Natl Acad Sci U S A. 2017 Sep 19. 114(38):10143-10148.

Two loci single particle trajectories analysis : constructing a first passage time statistics of local chromatin exploration.
Shukron O, Hauer M, Holcman D
Sci Rep. 2017 Sep 4. 7(1):10346.

Mutations in ACTRT1 and its enhancer RNA elements lead to aberrant activation of Hedgehog signaling in inherited and sporadic basal cell carcinomas.
Bal E, Park HS, Belaid‑Choucair Z, Kayserili H, Naville M, Madrange M, Chiticariu E, Hadj‑Rabia S, Cagnard N, Kuonen F, Bachmann D, Huber M, Le Gall C, Côté F, Hanein S, Rosti RÖ, Aslanger AD, Waisfisz Q, Bodemer C, Hermine O, Morice‑Picard F, Labeille B, Caux F, Mazereeuw‑Hautier J, Philip N, Levy N, Taieb A, Avril MF, Headon DJ, Gyapay G, Magnaldo T, Fraitag S, Crollius HR, Vabres P, Hohl D, Munnich A, Smahi A
Nat Med. 2017 Oct. 23(10):1226-1233.

Quaking RNA-Binding Proteins Control Early Myofibril Formation by Modulating Tropomyosin.
Bonnet A, Lambert G, Ernest S, Dutrieux FX, Coulpier F, Lemoine S, Lobbardi R, Rosa FM
Dev Cell. 2017 Sep 11. 42(5):527-541.e4.

Optical Control of Tumor Induction in the Zebrafish.
Feng Z, Nam S, Hamouri F, Aujard I, Ducos B, Vriz S, Volovitch M, Jullien L, Lin S, Weiss S, Bensimon D
Sci Rep. 2017 Aug 23. 7(1):9195.

Single molecule high-throughput footprinting of small and large DNA ligands.
Manosas M, Camunas‑Soler J, Croquette V, Ritort F
Nat Commun. 2017 Aug 21. 8(1):304.

Climate warming reduces gut microbiota diversity in a vertebrate ectotherm.
Bestion E, Jacob S, Zinger L, Di Gesu L, Richard M, White J, Cote J
Nat Ecol Evol. 2017 May 8. 1(6):161.

An RNAi Screen in a Novel Model of Oriented Divisions Identifies the Actin-Capping Protein Z β as an Essential Regulator of Spindle Orientation.
di Pietro F, Valon L, Li Y, Goïame R, Genovesio A, Morin X
Curr Biol. 2017 Aug 21. 27(16):2452-2464.e8.

Nerves, H2O2 and Shh : Three players in the game of regeneration.
Meda F, Rampon C, Dupont E, Gauron C, Mourton A, Queguiner I, Thauvin M, Volovitch M, Joliot A, Vriz S
Semin Cell Dev Biol. 2017 Aug 8.

A Method Based on Artificial Intelligence To Fully Automatize The Evaluation of Bovine Blastocyst Images.
Rocha JC, Passalia FJ, Matos FD, Takahashi MB, Ciniciato DS, Maserati MP, Alves MF, de Almeida TG, Cardoso BL, Basso AC, Nogueira MFG
Sci Rep. 2017 Aug 9. 7(1):7659.

Multi-scale tracking reveals scale-dependent chromatin dynamics after DNA damage.
Miné‑Hattab J, Recamier V, Izeddin I, Rothstein R, Darzacq X
Mol Biol Cell. 2017 Aug 9.

HEXIM1 Has Different Functions within Different RNA-Protein Complexes.
Bensaude O
Mol Cell. 2017 Aug 3. 67(3):357-359.

Nitrate Reductase Knockout Uncouples Nitrate Transport from Nitrate Assimilation and Drives Repartitioning of Carbon Flux in a Model Pennate Diatom.
McCarthy JK, Smith SR, McCrow JP, Tan M, Zheng H, Beeri K, Roth R, Lichtle C, Goodenough U, Bowler CP, Dupont CL, Allen AE
Plant Cell. 2017 Aug. 29(8):2047-2070.

Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition.
Alberti A, Poulain J, Engelen S, Labadie K, Romac S, Ferrera I, Albini G, Aury JM, Belser C, Bertrand A, Cruaud C, Da Silva C, Dossat C, Gavory F, Gas S, Guy J, Haquelle M, Jacoby E, Jaillon O, Lemainque A, Pelletier E, Samson G, Wessner M, Acinas SG, Royo‑Llonch M, Cornejo‑Castillo FM, Logares R, Fernández‑Gómez B, Bowler C, Cochrane G, Amid C, Hoopen PT, De Vargas C, Grimsley N, Desgranges E, Kandels‑Lewis S, Ogata H, Poulton N, Sieracki ME, Stepanauskas R, Sullivan MB, Brum JR, Duhaime MB, Poulos BT, Hurwitz BL, Pesant S, Karsenti E, Wincker P
Sci Data. 2017 Aug 1. 4:170093.

Krox20 hindbrain regulation incorporates multiple modes of cooperation between cis-acting elements.
Thierion E, Le Men J, Collombet S, Hernandez C, Coulpier F, Torbey P, Thomas‑Chollier M, Noordermeer D, Charnay P, Gilardi‑Hebenstreit P
PLoS Genet. 2017 Jul. 13(7):e1006903.

Heterogeneity of neuroblastoma cell identity defined by transcriptional circuitries.
Boeva V, Louis‑Brennetot C, Peltier A, Durand S, Pierre‑Eugène C, Raynal V, Etchevers HC, Thomas S, Lermine A, Daudigeos‑Dubus E, Geoerger B, Orth MF, Grünewald TGP, Diaz E, Ducos B, Surdez D, Carcaboso AM, Medvedeva I, Deller T, Combaret V, Lapouble E, Pierron G, Grossetête‑Lalami S, Baulande S, Schleiermacher G, Barillot E, Rohrer H, Delattre O, Janoueix‑Lerosey I
Nat Genet. 2017 Sep. 49(9):1408-1413.

An ecological and digital epidemiology analysis on the role of human behavior on the 2014 Chikungunya outbreak in Martinique.
Roche B, Gaillard B, Léger L, Pélagie‑Moutenda R, Sochacki T, Cazelles B, Ledrans M, Blateau A, Fontenille D, Etienne M, Simard F, Salathé M, Yébakima A
Sci Rep. 2017 Jul 20. 7(1):5967.

Induced-Pluripotent-Stem-Cell-Derived Primitive Macrophages Provide a Platform for Modeling Tissue-Resident Macrophage Differentiation and Function.
Takata K, Kozaki T, Lee CZW, Thion MS, Otsuka M, Lim S, Utami KH, Fidan K, Park DS, Malleret B, Chakarov S, See P, Low D, Low G, Garcia‑Miralles M, Zeng R, Zhang J, Goh CC, Gul A, Hubert S, Lee B, Chen J, Low I, Shadan NB, Lum J, Wei TS, Mok E, Kawanishi S, Kitamura Y, Larbi A, Poidinger M, Renia L, Ng LG, Wolf Y, Jung S, Önder T, Newell E, Huber T, Ashihara E, Garel S, Pouladi MA, Ginhoux F
Immunity. 2017 Jul 18. 47(1):183-198.e6.

The evolution of diatoms and their biogeochemical functions.
Benoiston AS, Ibarbalz FM, Bittner L, Guidi L, Jahn O, Dutkiewicz S, Bowler C
Philos Trans R Soc Lond B Biol Sci. 2017 Sep 5. 372(1728).

Genetics and Epigenetics of Mating Type Determination in Paramecium and Tetrahymena.
Orias E, Singh DP, Meyer E
Annu Rev Microbiol. 2017 Sep 8. 71:133-156.

Climate warming : a loss of variation in populations can accompany reproductive shifts.
Massot M, Legendre S, Fédérici P, Clobert J
Ecol Lett. 2017 Sep. 20(9):1140-1147.

Genetic identification of a hindbrain nucleus essential for innate vocalization.
Hernandez‑Miranda LR, Ruffault PL, Bouvier JC, Murray AJ, Morin‑Surun MP, Zampieri N, Cholewa‑Waclaw JB, Ey E, Brunet JF, Champagnat J, Fortin G, Birchmeier C
Proc Natl Acad Sci U S A. 2017 Jul 25. 114(30):8095-8100.

Interannual cycles of Hantaan virus outbreaks at the human-animal interface in Central China are controlled by temperature and rainfall.
Tian H, Yu P, Cazelles B, Xu L, Tan H, Yang J, Huang S, Xu B, Cai J, Ma C, Wei J, Li S, Qu J, Laine M, Wang J, Tong S, Stenseth NC, Xu B
Proc Natl Acad Sci U S A. 2017 Jul 25. 114(30):8041-8046.

Multipotent peripheral glial cells generate neuroendocrine cells of the adrenal medulla.
Furlan A, Dyachuk V, Kastriti ME, Calvo‑Enrique L, Abdo H, Hadjab S, Chontorotzea T, Akkuratova N, Usoskin D, Kamenev D, Petersen J, Sunadome K, Memic F, Marklund U, Fried K, Topilko P, Lallemend F, Kharchenko PV, Ernfors P, Adameyko I
Science. 2017 Jul 7. 357(6346).

Loss of the canonical spindle orientation function in the Pins/LGN homolog AGS3.
Saadaoui M, Konno D, Loulier K, Goiame R, Jadhav V, Mapelli M, Matsuzaki F, Morin X
EMBO Rep. 2017 Sep. 18(9):1509-1520.

Physico-Pathologic Mechanisms Involved in Neurodegeneration : Misfolded Protein-Plasma Membrane Interactions.
Shrivastava AN, Aperia A, Melki R, Triller A
Neuron. 2017 Jul 5. 95(1):33-50.

High precision detection of conserved segments from synteny blocks.
Lucas JM, Roest Crollius H
PLoS One. 2017. 12(7):e0180198.

Myosin 7 and its adaptors link cadherins to actin.
Yu IM, Planelles‑Herrero VJ, Sourigues Y, Moussaoui D, Sirkia H, Kikuti C, Stroebel D, Titus MA, Houdusse A
Nat Commun. 2017 Jun 29. 8:15864.

Toward Universal Forward Genetics : Using a Draft Genome Sequence of the Nematode Oscheius tipulae To Identify Mutations Affecting Vulva Development.
Besnard F, Koutsovoulos G, Dieudonné S, Blaxter M, Félix MA
Genetics. 2017 Aug. 206(4):1747-1761.

The Arabidopsis SWI/SNF protein BAF60 mediates seedling growth control by modulating DNA accessibility.
Jégu T, Veluchamy A, Ramirez‑Prado JS, Rizzi‑Paillet C, Perez M, Lhomme A, Latrasse D, Coleno E, Vicaire S, Legras S, Jost B, Rougée M, Barneche F, Bergounioux C, Crespi M, Mahfouz MM, Hirt H, Raynaud C, Benhamed M
Genome Biol. 2017 Jun 15. 18(1):114.

Cerebellar re-encoding of self-generated head movements.
Dugué GP, Tihy M, Gourévitch B, Léna C
Elife. 2017 Jun 13. 6.

Co-agonists differentially tune GluN2B-NMDA receptor trafficking at hippocampal synapses.
Ferreira JS, Papouin T, Ladépêche L, Yao A, Langlais VC, Bouchet D, Dulong J, Mothet JP, Sacchi S, Pollegioni L, Paoletti P, Oliet SHR, Groc L
Elife. 2017 Jun 9. 6.

Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana.
Snoek BL, Pavlova P, Tessadori F, Peeters AJM, Bourbousse C, Barneche F, de Jong H, Fransz PF, van Zanten M
G3 (Bethesda). 2017 Aug 7. 7(8):2519-2531.

Experimental Evolution with Caenorhabditis Nematodes.
Teotónio H, Estes S, Phillips PC, Baer CF
Genetics. 2017 Jun. 206(2):691-716.

RSAT matrix-clustering : dynamic exploration and redundancy reduction of transcription factor binding motif collections.
Castro‑Mondragon JA, Jaeger S, Thieffry D, Thomas‑Chollier M, van Helden J
Nucleic Acids Res. 2017 Jul 27. 45(13):e119.

Differentiation of Inflammation-Responsive Astrocytes from Glial Progenitors Generated from Human Induced Pluripotent Stem Cells.
Santos R, Vadodaria KC, Jaeger BN, Mei A, Lefcochilos‑Fogelquist S, Mendes APD, Erikson G, Shokhirev M, Randolph‑Moore L, Fredlender C, Dave S, Oefner R, Fitzpatrick C, Pena M, Barron JJ, Ku M, Denli AM, Kerman BE, Charnay P, Kelsoe JR, Marchetto MC, Gage FH
Stem Cell Reports. 2017 Jun 6. 8(6):1757-1769.

An integrated calcium imaging processing toolbox for the analysis of neuronal population dynamics.
Romano SA, Pérez‑Schuster V, Jouary A, Boulanger‑Weill J, Candeo A, Pietri T, Sumbre G
PLoS Comput Biol. 2017 Jun. 13(6):e1005526.

Logical modeling of lymphoid and myeloid cell specification and transdifferentiation.
Collombet S, van Oevelen C, Sardina Ortega JL, Abou‑Jaoudé W, Di Stefano B, Thomas‑Chollier M, Graf T, Thieffry D
Proc Natl Acad Sci U S A. 2017 Jun 6. 114(23):5792-5799.

Functional Interactions between Newborn and Mature Neurons Leading to Integration into Established Neuronal Circuits.
Boulanger‑Weill J, Candat V, Jouary A, Romano SA, Pérez‑Schuster V, Sumbre G
Curr Biol. 2017 Jun 19. 27(12):1707-1720.e5.

Smooth 2D manifold extraction from 3D image stack.
Shihavuddin A, Basu S, Rexhepaj E, Delestro F, Menezes N, Sigoillot SM, Del Nery E, Selimi F, Spassky N, Genovesio A
Nat Commun. 2017 May 31. 8:15554.

Epithelial cell behaviours during neurosensory organ formation.
Kapsimali M
Development. 2017 Jun 1. 144(11):1926-1936.

Heterozygous Gnal Mice Are a Novel Animal Model with Which to Study Dystonia Pathophysiology.
Pelosi A, Menardy F, Popa D, Girault JA, Hervé D
J Neurosci. 2017 Jun 28. 37(26):6253-6267.

Neuroglobin Can Prevent or Reverse Glaucomatous Progression in DBA/2J Mice.
Cwerman‑Thibault H, Lechauve C, Augustin S, Roussel D, Reboussin É, Mohammad A, Degardin‑Chicaud J, Simonutti M, Liang H, Brignole‑Baudouin F, Maron A, Debeir T, Corral‑Debrinski M
Mol Ther Methods Clin Dev. 2017 Jun 16. 5:200-220.

Unreeling the chromatin thread : a genomic perspective on organization around the periphery of the Arabidopsis nucleus.
Barneche F, Baroux C
Genome Biol. 2017 May 23. 18(1):97.

Optocontrol of glutamate receptor activity by single side-chain photoisomerization.
Klippenstein V, Hoppmann C, Ye S, Wang L, Paoletti P
Elife. 2017 May 23. 6.

Evolutionary forces affecting synonymous variations in plant genomes.
Clément Y, Sarah G, Holtz Y, Homa F, Pointet S, Contreras S, Nabholz B, Sabot F, Sauné L, Ardisson M, Bacilieri R, Besnard G, Berger A, Cardi C, De Bellis F, Fouet O, Jourda C, Khadari B, Lanaud C, Leroy T, Pot D, Sauvage C, Scarcelli N, Tregear J, Vigouroux Y, Yahiaoui N, Ruiz M, Santoni S, Labouisse JP, Pham JL, David J, Glémin S
PLoS Genet. 2017 May. 13(5):e1006799.

Chimeric origins of ochrophytes and haptophytes revealed through an ancient plastid proteome.
Dorrell RG, Gile G, McCallum G, Méheust R, Bapteste EP, Klinger CM, Brillet‑Guéguen L, Freeman KD, Richter DJ, Bowler C
Elife. 2017 May 12. 6.

vConTACT : an iVirus tool to classify double-stranded DNA viruses that infect Archaea and Bacteria.
Bolduc B, Jang HB, Doulcier G, You ZQ, Roux S, Sullivan MB
PeerJ. 2017. 5:e3243.

The Natural Biotic Environment of Caenorhabditis elegans.
Schulenburg H, Félix MA
Genetics. 2017 May. 206(1):55-86.

The genealogical decomposition of a matrix population model with applications to the aggregation of stages.
Bienvenu F, Akçay E, Legendre S, McCandlish DM
Theor Popul Biol. 2017 Jun. 115:69-80.

A mechanistic study of helicases with magnetic traps.
Hodeib S, Raj S, Manosas M, Zhang W, Bagchi D, Ducos B, Fiorini F, Kanaan J, Le Hir H, Allemand JF, Bensimon D, Croquette V
Protein Sci. 2017 Jul. 26(7):1314-1336.

The Emergence of the Spatial Structure of Tectal Spontaneous Activity Is Independent of Visual Inputs.
Pietri T, Romano SA, Pérez‑Schuster V, Boulanger‑Weill J, Candat V, Sumbre G
Cell Rep. 2017 May 2. 19(5):939-948.

High-Resolution RNA Maps Suggest Common Principles of Splicing and Polyadenylation Regulation by TDP-43.
Rot G, Wang Z, Huppertz I, Modic M, Lenče T, Hallegger M, Haberman N, Curk T, von Mering C, Ule J
Cell Rep. 2017 May 2. 19(5):1056-1067.

Crop Fertilization Impacts Epidemics and Optimal Latent Period of Biotrophic Fungal Pathogens.
Précigout PA, Claessen D, Robert C
Phytopathology. 2017 Oct. 107(10):1256-1267.

Flow cytometry sorting of nuclei enables the first global characterization of Paramecium germline DNA and transposable elements.
Guérin F, Arnaiz O, Boggetto N, Denby Wilkes C, Meyer E, Sperling L, Duharcourt S
BMC Genomics. 2017 Apr 26. 18(1):327.

An aggregation-removal model for the formation and size determination of post-synaptic scaffold domains.
Ranft J, Almeida LG, Rodriguez PC, Triller A, Hakim V
PLoS Comput Biol. 2017 Apr. 13(4):e1005516.

Study of gene expression alteration in male androgenetic alopecia : evidence of predominant molecular signalling pathways.
Michel L, Reygagne P, Benech P, Jean‑Louis F, Scalvino S, Ly Ka So S, Hamidou Z, Bianovici S, Pouch J, Ducos B, Bonnet M, Bensussan A, Patatian A, Lati E, Wdzieczak‑Bakala J, Choulot JC, Loing E, Hocquaux M
Br J Dermatol. 2017 Nov. 177(5):1322-1336.

The development and functions of multiciliated epithelia.
Spassky N, Meunier A
Nat Rev Mol Cell Biol. 2017 Jul. 18(7):423-436.

Caenorhabditis elegans as a Model for Microbiome Research.
Zhang F, Berg M, Dierking K, Félix MA, Shapira M, Samuel BS, Schulenburg H
Front Microbiol. 2017. 8:485.

Translation in astrocyte distal processes sets molecular heterogeneity at the gliovascular interface.
Boulay AC, Saubaméa B, Adam N, Chasseigneaux S, Mazaré N, Gilbert A, Bahin M, Bastianelli L, Blugeon C, Perrin S, Pouch J, Ducos B, Le Crom S, Genovesio A, Chrétien F, Declèves X, Laplanche JL, Cohen‑Salmon M
Cell Discov. 2017. 3:17005.

Accelerated body size evolution during cold climatic periods in the Cenozoic.
Clavel J, Morlon H
Proc Natl Acad Sci U S A. 2017 Apr 18. 114(16):4183-4188.

Aozan : an automated post-sequencing data-processing pipeline.
Perrin S, Firmo C, Lemoine S, Le Crom S, Jourdren L
Bioinformatics. 2017 Jul 15. 33(14):2212-2213.

Clustering coefficient and periodic orbits in flow networks.
Rodríguez‑Méndez V, Ser‑Giacomi E, Hernández‑García E
Chaos. 2017 Mar. 27(3):035803.

Introduction to Focus Issue : Complex network perspectives on flow systems.
Donner RV, Hernández‑García E, Ser‑Giacomi E
Chaos. 2017 Mar. 27(3):035601.

On the evolutionary origins of equity.
Debove S, Baumard N, André JB
PLoS One. 2017. 12(3):e0173636.

Activity patterns of serotonin neurons underlying cognitive flexibility.
Matias S, Lottem E, Dugué GP, Mainen ZF
Elife. 2017 Mar 21. 6.

The retinoblastoma homolog RBR1 mediates localization of the repair protein RAD51 to DNA lesions in Arabidopsis.
Biedermann S, Harashima H, Chen P, Heese M, Bouyer D, Sofroni K, Schnittger A
EMBO J. 2017 May 2. 36(9):1279-1297.

Epigenetic memory and cell fate reprogramming in plants.
Birnbaum KD, Roudier F
Regeneration (Oxf). 2017 Feb. 4(1):15-20.

Mutations in the Spliceosome Component CWC27 Cause Retinal Degeneration with or without Additional Developmental Anomalies.
Xu M, Xie YA, Abouzeid H, Gordon CT, Fiorentino A, Sun Z, Lehman A, Osman IS, Dharmat R, Riveiro‑Alvarez R, Bapst‑Wicht L, Babino D, Arno G, Busetto V, Zhao L, Li H, Lopez‑Martinez MA, Azevedo LF, Hubert L, Pontikos N, Eblimit A, Lorda‑Sanchez I, Kheir V, Plagnol V, Oufadem M, Soens ZT, Yang L, Bole‑Feysot C, Pfundt R, Allaman‑Pillet N, Nitschké P, Cheetham ME, Lyonnet S, Agrawal SA, Li H, Pinton G, Michaelides M, Besmond C, Li Y, Yuan Z, von Lintig J, Webster AR, Le Hir H, Stoilov P, Amiel J, Hardcastle AJ, Ayuso C, Sui R, Chen R, Allikmets R, Schorderet DF
Am J Hum Genet. 2017 Apr 6. 100(4):592-604.

Modelling plankton ecosystems in the meta-omics era. Are we ready ?
Stec KF, Caputi L, Buttigieg PL, D’Alelio D, Ibarbalz FM, Sullivan MB, Chaffron S, Bowler C, Ribera d’Alcalà M, Iudicone D
Mar Genomics. 2017 Apr. 32:1-17.

Understanding bias in DNA repair.
Strick TR, Savery NJ
Proc Natl Acad Sci U S A. 2017 Mar 14. 114(11):2791-2793.

Structural Alteration of OmpR as a Source of Ertapenem Resistance in a CTX-M-15-Producing Escherichia coli O25b:H4 Sequence Type 131 Clinical Isolate.
Dupont H, Choinier P, Roche D, Adiba S, Sookdeb M, Branger C, Denamur E, Mammeri H
Antimicrob Agents Chemother. 2017 May. 61(5).

Utilization of interferometric light microscopy for the rapid analysis of virus abundance in a river.
Roose‑Amsaleg C, Fedala Y, Vénien‑Bryan C, Garnier J, Boccara AC, Boccara M
Res Microbiol. 2017 Jun. 168(5):413-418.

Molecular Mechanisms of Bipolar Disorder : Progress Made and Future Challenges.
Kim Y, Santos R, Gage FH, Marchetto MC
Front Cell Neurosci. 2017. 11:30.

Neurons derived from patients with bipolar disorder divide into intrinsically different sub-populations of neurons, predicting the patients’ responsiveness to lithium.
Stern S, Santos R, Marchetto MC, Mendes AP, Rouleau GA, Biesmans S, Wang QW, Yao J, Charnay P, Bang AG, Alda M, Gage FH
Mol Psychiatry. 2017 Feb 28.

Oxidation of F-actin controls the terminal steps of cytokinesis.
Frémont S, Hammich H, Bai J, Wioland H, Klinkert K, Rocancourt M, Kikuti C, Stroebel D, Romet‑Lemonne G, Pylypenko O, Houdusse A, Echard A
Nat Commun. 2017 Feb 23. 8:14528.

Recent progress in diatom genomics and epigenomics.
Tirichine L, Rastogi A, Bowler C
Curr Opin Plant Biol. 2017 Apr. 36:46-55.

Direct conversion of root primordium into shoot meristem relies on timing of stem cell niche development.
Rosspopoff O, Chelysheva L, Saffar J, Lecorgne L, Gey D, Caillieux E, Colot V, Roudier F, Hilson P, Berthomé R, Da Costa M, Rech P
Development. 2017 Apr 1. 144(7):1187-1200.

Visualization of Chromatin Decompaction and Break Site Extrusion as Predicted by Statistical Polymer Modeling of Single-Locus Trajectories.
Amitai A, Seeber A, Gasser SM, Holcman D
Cell Rep. 2017 Jan 31. 18(5):1200-1214.

A noninvasive optical approach for assessing chloride extrusion activity of the K-Cl cotransporter KCC2 in neuronal cells.
Ludwig A, Rivera C, Uvarov P
BMC Neurosci. 2017 Jan 31. 18(1):23.

The hypothalamic NPVF circuit modulates ventral raphe activity during nociception.
Madelaine R, Lovett‑Barron M, Halluin C, Andalman AS, Liang J, Skariah GM, Leung LC, Burns VM, Mourrain P
Sci Rep. 2017 Jan 31. 7:41528.

Differential Routing of Mindbomb1 via Centriolar Satellites Regulates Asymmetric Divisions of Neural Progenitors.
Tozer S, Baek C, Fischer E, Goiame R, Morin X
Neuron. 2017 Feb 8. 93(3):542-551.e4.

Insights into the design and interpretation of iCLIP experiments.
Haberman N, Huppertz I, Attig J, König J, Wang Z, Hauer C, Hentze MW, Kulozik AE, Le Hir H, Curk T, Sibley CR, Zarnack K, Ule J
Genome Biol. 2017 Jan 16. 18(1):7.

Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus.
Mock T, Otillar RP, Strauss J, McMullan M, Paajanen P, Schmutz J, Salamov A, Sanges R, Toseland A, Ward BJ, Allen AE, Dupont CL, Frickenhaus S, Maumus F, Veluchamy A, Wu T, Barry KW, Falciatore A, Ferrante MI, Fortunato AE, Glöckner G, Gruber A, Hipkin R, Janech MG, Kroth PG, Leese F, Lindquist EA, Lyon BR, Martin J, Mayer C, Parker M, Quesneville H, Raymond JA, Uhlig C, Valas RE, Valentin KU, Worden AZ, Armbrust EV, Clark MD, Bowler C, Green BR, Moulton V, van Oosterhout C, Grigoriev IV
Nature. 2017 Jan 26. 541(7638):536-540.

The crystal structure of the 5΄ functional domain of the transcription riboregulator 7SK.
Martinez‑Zapien D, Legrand P, McEwen AG, Proux F, Cragnolini T, Pasquali S, Dock‑Bregeon AC
Nucleic Acids Res. 2017 Apr 7. 45(6):3568-3579.

IGF-1 Induces GHRH Neuronal Axon Elongation during Early Postnatal Life in Mice.
Decourtye L, Mire E, Clemessy M, Heurtier V, Ledent T, Robinson IC, Mollard P, Epelbaum J, Meaney MJ, Garel S, Le Bouc Y, Kappeler L
PLoS One. 2017. 12(1):e0170083.

Histone degradation in response to DNA damage enhances chromatin dynamics and recombination rates.
Hauer MH, Seeber A, Singh V, Thierry R, Sack R, Amitai A, Kryzhanovska M, Eglinger J, Holcman D, Owen‑Hughes T, Gasser SM
Nat Struct Mol Biol. 2017 Feb. 24(2):99-107.

Early Commissural Diencephalic Neurons Control Habenular Axon Extension and Targeting.
Beretta CA, Dross N, Guglielmi L, Bankhead P, Soulika M, Gutierrez‑Triana JA, Paolini A, Poggi L, Falk J, Ryu S, Kapsimali M, Engel U, Carl M
Curr Biol. 2017 Jan 23. 27(2):270-278.

Proteomic analysis of the Rett syndrome experimental model mecp2Q63X mutant zebrafish.
Cortelazzo A, Pietri T, De Felice C, Leoncini S, Guerranti R, Signorini C, Timperio AM, Zolla L, Ciccoli L, Hayek J
J Proteomics. 2017 Feb 10. 154:128-133.

Preparation of DNA Substrates and Functionalized Glass Surfaces for Correlative Nanomanipulation and Colocalization (NanoCOSM) of Single Molecules.
Duboc C, Fan J, Graves ET, Strick TR
Methods Enzymol. 2017. 582:275-296.

Early born neurons are abnormally positioned in the doublecortin knockout hippocampus.
Khalaf‑Nazzal R, Stouffer MA, Olaso R, Muresan L, Roumegous A, Lavilla V, Carpentier W, Moutkine I, Dumont S, Albaud B, Cagnard N, Roest Crollius H, Francis F
Hum Mol Genet. 2017 Jan 1. 26(1):90-108.

A Unifying Comparative Phylogenetic Framework Including Traits Coevolving Across Interacting Lineages.
Manceau M, Lambert A, Morlon H
Syst Biol. 2017 Jul 1. 66(4):551-568.

Uncovering Higher-Taxon Diversification Dynamics from Clade Age and Species-Richness Data.
Sánchez‑Reyes LL, Morlon H, Magallón S
Syst Biol. 2017 May 1. 66(3):367-378.

Whole-GUV patch-clamping.
Garten M, Mosgaard LD, Bornschlögl T, Dieudonné S, Bassereau P, Toombes GE
Proc Natl Acad Sci U S A. 2017 Jan 10. 114(2):328-333.

Physiology : Mechanosensor of lung inflation identified.
Goridis C
Nature. 2017 Jan 12. 541(7636):165-166.

mTORC1 signaling and primary cilia are required for brain ventricle morphogenesis.
Foerster P, Daclin M, Asm S, Faucourt M, Boletta A, Genovesio A, Spassky N
Development. 2017 Jan 15. 144(2):201-210.

Heritable expansion of the genetic code in mouse and zebrafish.
Chen Y, Ma J, Lu W, Tian M, Thauvin M, Yuan C, Volovitch M, Wang Q, Holst J, Liu M, Vriz S, Ye S, Wang L, Li D
Cell Res. 2017 Feb. 27(2):294-297.

Strain-specific impact of the high-pathogenicity island on virulence in extra-intestinal pathogenic Escherichia coli.
Smati M, Magistro G, Adiba S, Wieser A, Picard B, Schubert S, Denamur E
Int J Med Microbiol. 2017 Jan. 307(1):44-56.

A Transcription Factor Pulse Can Prime Chromatin for Heritable Transcriptional Memory.
Iberg‑Badeaux A, Collombet S, Laurent B, van Oevelen C, Chin KK, Thieffry D, Graf T, Shi Y
Mol Cell Biol. 2017 Feb 15. 37(4).

Role of the chromatin landscape and sequence in determining cell type-specific genomic glucocorticoid receptor binding and gene regulation.
Love MI, Huska MR, Jurk M, Schöpflin R, Starick SR, Schwahn K, Cooper SB, Yamamoto KR, Thomas‑Chollier M, Vingron M, Meijsing SH
Nucleic Acids Res. 2017 Feb 28. 45(4):1805-1819.

Whole genome DNA methylation : beyond genes silencing.
Tirado‑Magallanes R, Rebbani K, Lim R, Pradhan S, Benoukraf T
Oncotarget. 2017 Jan 17. 8(3):5629-5637.

A new sequence data set of SSU rRNA gene for Scleractinia and its phylogenetic and ecological applications.
Arrigoni R, Vacherie B, Benzoni F, Stefani F, Karsenti E, Jaillon O, Not F, Nunes F, Payri C, Wincker P, Barbe V
Mol Ecol Resour. 2017 Sep. 17(5):1054-1071.

Decreased Anxiety-Related Behaviour but Apparently Unperturbed NUMB Function in Ligand of NUMB Protein-X (LNX) 1/2 Double Knockout Mice.
Lenihan JA, Saha O, Heimer‑McGinn V, Cryan JF, Feng G, Young PW
Mol Neurobiol. 2017 Dec. 54(10):8090-8109.

Progressive and Biased Divergent Evolution Underpins the Origin and Diversification of Peridinin Dinoflagellate Plastids.
Dorrell RG, Klinger CM, Newby RJ, Butterfield ER, Richardson E, Dacks JB, Howe CJ, Nisbet ER, Bowler C
Mol Biol Evol. 2017 Feb 1. 34(2):361-379.

Analysis of Small RNA Populations Using Hybridization to DNA Tiling Arrays.
Boccara M, Sarazin A, Billoud B, Bulski A, Chapell L, Baulcombe D, Colot V
Methods Mol Biol. 2017. 1456:127-139.

Sleep-Dependent Structural Synaptic Plasticity of Inhibitory Synapses in the Dendrites of Hypocretin/Orexin Neurons.
Elbaz I, Zada D, Tovin A, Braun T, Lerer‑Goldshtein T, Wang G, Mourrain P, Appelbaum L
Mol Neurobiol. 2017 Oct. 54(8):6581-6597.

BRD4 localization to lineage-specific enhancers is associated with a distinct transcription factor repertoire.
Najafova Z, Tirado‑Magallanes R, Subramaniam M, Hossan T, Schmidt G, Nagarajan S, Baumgart SJ, Mishra VK, Bedi U, Hesse E, Knapp S, Hawse JR, Johnsen SA
Nucleic Acids Res. 2017 Jan 9. 45(1):127-141.

GABAergic Microcircuits in Alzheimer’s Disease Models.
Villette V, Dutar P
Curr Alzheimer Res. 2017. 14(1):30-39.

Mammalian microRNAs and long noncoding RNAs in the host-bacterial pathogen crosstalk.
Duval M, Cossart P, Lebreton A
Semin Cell Dev Biol. 2017 May. 65:11-19.

Physiological adjustments and transcriptome reprogramming are involved in the acclimation to salinity gradients in diatoms.
Bussard A, Corre E, Hubas C, Duvernois‑Berthet E, Le Corguillé G, Jourdren L, Coulpier F, Claquin P, Lopez PJ
Environ Microbiol. 2017 Mar. 19(3):909-925.

RNA- and protein-mediated control of Listeria monocytogenes virulence gene expression.
Lebreton A, Cossart P
RNA Biol. 2017 May 4. 14(5):460-470.

Microglia control the glycinergic but not the GABAergic synapses via prostaglandin E2 in the spinal cord.
Cantaut‑Belarif Y, Antri M, Pizzarelli R, Colasse S, Vaccari I, Soares S, Renner M, Dallel R, Triller A, Bessis A
J Cell Biol. 2017 Sep 4. 216(9):2979-2989.

History of research on C. elegans and other free-living nematodes as model organisms.
Nigon VM, Félix MA
WormBook. 2017 Sep 7:1-84.



2016


2016

IRF5 governs liver macrophage activation that promotes hepatic fibrosis in mice and humans.
Alzaid F, Lagadec F, Albuquerque M, Ballaire R, Orliaguet L, Hainault I, Blugeon C, Lemoine S, Lehuen A, Saliba DG, Udalova IA, Paradis V, Foufelle F, Venteclef N
JCI Insight. 2016 Dec 8. 1(20):e88689.

A Large Collection of Novel Nematode-Infecting Microsporidia and Their Diverse Interactions with Caenorhabditis elegans and Other Related Nematodes.
Zhang G, Sachse M, Prevost MC, Luallen RJ, Troemel ER, Félix MA
PLoS Pathog. 2016 Dec. 12(12):e1006093.

Structure in the variability of the basic reproductive number (R0) for Zika epidemics in the Pacific islands.
Champagne C, Salthouse DG, Paul R, Cao‑Lormeau VM, Roche B, Cazelles B
Elife. 2016 Nov 29. 5.

1926-2016 : 90 Years of listeriology.
Lebreton A, Stavru F, Brisse S, Cossart P
Microbes Infect. 2016 Dec. 18(12):711-723.

Extreme Diversity of Diplonemid Eukaryotes in the Ocean.
Flegontova O, Flegontov P, Malviya S, Audic S, Wincker P, de Vargas C, Bowler C, Lukeš J, Horák A
Curr Biol. 2016 Nov 21. 26(22):3060-3065.

A radial map of multi-whisker correlation selectivity in the rat barrel cortex.
Estebanez L, Bertherat J, Shulz DE, Bourdieu L, Léger JF
Nat Commun. 2016 Nov 21. 7:13528.

Splicing repression allows the gradual emergence of new Alu-exons in primate evolution.
Attig J, Ruiz de Los Mozos I, Haberman N, Wang Z, Emmett W, Zarnack K, König J, Ule J
Elife. 2016 Nov 18. 5.

The sacral autonomic outflow is sympathetic.
Espinosa‑Medina I, Saha O, Boismoreau F, Chettouh Z, Rossi F, Richardson WD, Brunet JF
Science. 2016 Nov 18. 354(6314):893-897.

Solution structure of the 5’-terminal hairpin of the 7SK small nuclear RNA.
Bourbigot S, Dock‑Bregeon AC, Eberling P, Coutant J, Kieffer B, Lebars I
RNA. 2016 Dec. 22(12):1844-1858.

Actin Is Crucial for All Kinetically Distinguishable Forms of Endocytosis at Synapses.
Wu XS, Lee SH, Sheng J, Zhang Z, Zhao WD, Wang D, Jin Y, Charnay P, Ervasti JM, Wu LG
Neuron. 2016 Dec 7. 92(5):1020-1035.

Live Monitoring of Blastemal Cell Contributions during Appendage Regeneration.
Tornini VA, Puliafito A, Slota LA, Thompson JD, Nachtrab G, Kaushik AL, Kapsimali M, Primo L, Di Talia S, Poss KD
Curr Biol. 2016 Nov 21. 26(22):2981-2991.

The effects of archipelago spatial structure on island diversity and endemism : predictions from a spatially-structured neutral model.
Gascuel F, Laroche F, Bonnet‑Lebrun AS, Rodrigues AS
Evolution. 2016 Nov. 70(11):2657-2666.

An evolutionary conserved Hexim1 peptide binds to the Cdk9 catalytic site to inhibit P-TEFb.
Kobbi L, Demey‑Thomas E, Braye F, Proux F, Kolesnikova O, Vinh J, Poterszman A, Bensaude O
Proc Natl Acad Sci U S A. 2016 Oct 25.

Backtracked and paused transcription initiation intermediate of Escherichia coli RNA polymerase.
Lerner E, Chung S, Allen BL, Wang S, Lee J, Lu SW, Grimaud LW, Ingargiola A, Michalet X, Alhadid Y, Borukhov S, Strick TR, Taatjes DJ, Weiss S
Proc Natl Acad Sci U S A. 2016 Oct 25. 113(43):E6562-E6571.

Sub-synaptic, multiplexed analysis of proteins reveals Fragile X related protein 2 is mislocalized in Fmr1 KO synapses.
Wang GX, Smith SJ, Mourrain P
Elife. 2016 Oct 22. 5.

Wireless inertial measurement of head kinematics in freely-moving rats.
Pasquet MO, Tihy M, Gourgeon A, Pompili MN, Godsil BP, Léna C, Dugué GP
Sci Rep. 2016 Oct 21. 6:35689.

Mechanisms and functional roles of glutamatergic synapse diversity in a cerebellar circuit.
Zampini V, Liu JK, Diana MA, Maldonado PP, Brunel N, Dieudonné S
Elife. 2016 Sep 19. 5.

Sustained Rhythmic Brain Activity Underlies Visual Motion Perception in Zebrafish.
Pérez‑Schuster V, Kulkarni A, Nouvian M, Romano SA, Lygdas K, Jouary A, Dipoppa M, Pietri T, Haudrechy M, Candat V, Boulanger‑Weill J, Hakim V, Sumbre G
Cell Rep. 2016 Oct 18. 17(4):1098-1112.

Reallocation of Olfactory Cajal-Retzius Cells Shapes Neocortex Architecture.
de Frutos CA, Bouvier G, Arai Y, Thion MS, Lokmane L, Keita M, Garcia‑Dominguez M, Charnay P, Hirata T, Riethmacher D, Grove EA, Tissir F, Casado M, Pierani A, Garel S
Neuron. 2016 Oct 19. 92(2):435-448.

Single-molecule, antibody-free fluorescent visualisation of replication tracts along barcoded DNA molecules.
De Carli F, Gaggioli V, Millot GA, Hyrien O
Int J Dev Biol. 2016. 60(7-8-9):297-304.

Plant Transgenerational Epigenetics.
Quadrana L, Colot V
Annu Rev Genet. 2016 Nov 23. 50:467-491.

Into the Andes : multiple independent colonizations drive montane diversity in the Neotropical clearwing butterflies Godyridina.
Chazot N, Willmott KR, Condamine FL, De‑Silva DL, Freitas AV, Lamas G, Morlon H, Giraldo CE, Jiggins CD, Joron M, Mallet J, Uribe S, Elias M
Mol Ecol. 2016 Nov. 25(22):5765-5784.

Allosteric regulation in NMDA receptors revealed by the genetically encoded photo-cross-linkers.
Tian M, Ye S
Sci Rep. 2016 Oct 7. 6:34751.

Full-field interferometry for counting and differentiating aquatic biotic nanoparticles : from laboratory to Tara Oceans.
Boccara M, Fedala Y, Bryan CV, Bailly‑Bechet M, Bowler C, Boccara AC
Biomed Opt Express. 2016 Sep 1. 7(9):3736-3746.

A 2D virtual reality system for visual goal-driven navigation in zebrafish larvae.
Jouary A, Haudrechy M, Candelier R, Sumbre G
Sci Rep. 2016 Sep 23. 6:34015.

Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses.
Roux S, Brum JR, Dutilh BE, Sunagawa S, Duhaime MB, Loy A, Poulos BT, Solonenko N, Lara E, Poulain J, Pesant S, Kandels‑Lewis S, Dimier C, Picheral M, Searson S, Cruaud C, Alberti A, Duarte CM, Gasol JM, Vaqué D, Bork P, Acinas SG, Wincker P, Sullivan MB
Nature. 2016 Sep 29. 537(7622):689-693.

Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
de Lucas M, Pu L, Turco G, Gaudinier A, Morao AK, Harashima H, Kim D, Ron M, Sugimoto K, Roudier F, Brady SM
Plant Cell. 2016 Oct. 28(10):2616-2631.

How MCM loading and spreading specify eukaryotic DNA replication initiation sites.
Hyrien O
F1000Res. 2016. 5.

Early-life sexual segregation : ontogeny of isotopic niche differentiation in the Antarctic fur seal.
Kernaléguen L, Arnould JP, Guinet C, Cazelles B, Richard P, Cherel Y
Sci Rep. 2016 Sep 13. 6:33211.

Formal derivation of qualitative dynamical models from biochemical networks.
Abou‑Jaoudé W, Thieffry D, Feret J
Biosystems. 2016 Nov. 149:70-112.

Au-delà du cerveau - La huntingtine dans les cancers du sein.
Thion MS, Humbert S
Med Sci (Paris). 2016 8-9. 32(8-9):674-7.

Biased Allostery.
Edelstein SJ, Changeux JP
Biophys J. 2016 Sep 6. 111(5):902-8.

Qualitative Dynamical Modelling Can Formally Explain Mesoderm Specification and Predict Novel Developmental Phenotypes.
Mbodj A, Gustafson EH, Ciglar L, Junion G, Gonzalez A, Girardot C, Perrin L, Furlong EE, Thieffry D
PLoS Comput Biol. 2016 Sep. 12(9):e1005073.

Evolution of New cis-Regulatory Motifs Required for Cell-Specific Gene Expression in Caenorhabditis.
Barkoulas M, Vargas Velazquez AM, Peluffo AE, Félix MA
PLoS Genet. 2016 Sep. 12(9):e1006278.

Logical model specification aided by model-checking techniques : application to the mammalian cell cycle regulation.
Traynard P, Fauré A, Fages F, Thieffry D
Bioinformatics. 2016 Sep 1. 32(17):i772-i780.

Sequences flanking the core-binding site modulate glucocorticoid receptor structure and activity.
Schöne S, Jurk M, Helabad MB, Dror I, Lebars I, Kieffer B, Imhof P, Rohs R, Vingron M, Thomas‑Chollier M, Meijsing SH
Nat Commun. 2016 Sep 1. 7:12621.

Multiciliated Cells in Animals.
Meunier A, Azimzadeh J
Cold Spring Harb Perspect Biol. 2016 Dec 1. 8(12).

DNA DAMAGE BINDING PROTEIN 2 (DDB2) Shapes the DNA Methylation Landscape.
Schalk C, Drevensek S, Kramdi A, Kassam M, Ahmed I, Cognat V, Graindorge S, Bergdoll M, Baumberger N, Heintz D, Bowler C, Genschik P, Barneche F, Colot V, Molinier J
Plant Cell. 2016 Aug 16.

Emerging concepts in chromatin-level regulation of plant cell differentiation : timing, counting, sensing and maintaining.
Morao AK, Bouyer D, Roudier F
Curr Opin Plant Biol. 2016 Dec. 34:27-34.

Complex heterochrony underlies the evolution of Caenorhabditis elegans hermaphrodite sex allocation.
Poullet N, Vielle A, Gimond C, Carvalho S, Teotónio H, Braendle C
Evolution. 2016 Oct. 70(10):2357-2369.

Phospho-dependent Accumulation of GABABRs at Presynaptic Terminals after NMDAR Activation.
Hannan S, Gerrow K, Triller A, Smart TG
Cell Rep. 2016 Aug 16. 16(7):1962-73.

DNA Methylation and Demethylation in Plant Immunity.
Deleris A, Halter T, Navarro L
Annu Rev Phytopathol. 2016 Aug 4. 54:579-603.

A single-molecule view of transcription reveals convoys of RNA polymerases and multi-scale bursting.
Tantale K, Mueller F, Kozulic‑Pirher A, Lesne A, Victor JM, Robert MC, Capozi S, Chouaib R, Bäcker V, Mateos‑Langerak J, Darzacq X, Zimmer C, Basyuk E, Bertrand E
Nat Commun. 2016 Jul 27. 7:12248.

Deciphering and modifying LAFL transcriptional regulatory network in seed for improving yield and quality of storage compounds.
Fatihi A, Boulard C, Bouyer D, Baud S, Dubreucq B, Lepiniec L
Plant Sci. 2016 Sep. 250:198-204.

The Genetic Basis of Natural Variation in Caenorhabditis elegans Telomere Length.
Cook DE, Zdraljevic S, Tanny RE, Seo B, Riccardi DD, Noble LM, Rockman MV, Alkema MJ, Braendle C, Kammenga JE, Wang J, Kruglyak L, Félix MA, Lee J, Andersen EC
Genetics. 2016 Sep. 204(1):371-83.

Regulation of mitotic spindle orientation : an integrated view.
di Pietro F, Echard A, Morin X
EMBO Rep. 2016 Aug. 17(8):1106-30.

Molecular signatures of neural connectivity in the olfactory cortex.
Diodato A, Ruinart de Brimont M, Yim YS, Derian N, Perrin S, Pouch J, Klatzmann D, Garel S, Choi GB, Fleischmann A
Nat Commun. 2016 Jul 18. 7:12238.

SRGAP2 and Its Human-Specific Paralog Co-Regulate the Development of Excitatory and Inhibitory Synapses.
Fossati M, Pizzarelli R, Schmidt ER, Kupferman JV, Stroebel D, Polleux F, Charrier C
Neuron. 2016 Jul 20. 91(2):356-69.

PhytoCRISP-Ex : a web-based and stand-alone application to find specific target sequences for CRISPR/CAS editing.
Rastogi A, Murik O, Bowler C, Tirichine L
BMC Bioinformatics. 2016 Jul 1. 17(1):261.

Discovery of a Natural Microsporidian Pathogen with a Broad Tissue Tropism in Caenorhabditis elegans.
Luallen RJ, Reinke AW, Tong L, Botts MR, Félix MA, Troemel ER
PLoS Pathog. 2016 Jun. 12(6):e1005724.

Cyanobacterial ultrastructure in light of genomic sequence data.
Gonzalez‑Esquer CR, Smarda J, Rippka R, Axen SD, Guglielmi G, Gugger M, Kerfeld CA
Photosynth Res. 2016 Aug. 129(2):147-57.

Surface water areas significantly impacted 2014 dengue outbreaks in Guangzhou, China.
Tian H, Huang S, Zhou S, Bi P, Yang Z, Li X, Chen L, Cazelles B, Yang J, Luo L, Jing Q, Yuan W, Pei Y, Sun Z, Yue T, Kwan MP, Liu Q, Wang M, Tong S, Brownstein JS, Xu B
Environ Res. 2016 Oct. 150:299-305.

Counting numbers of synaptic proteins : absolute quantification and single molecule imaging techniques.
Patrizio A, Specht CG
Neurophotonics. 2016 Oct. 3(4):041805.

Caenorhabditis elegans responses to bacteria from its natural habitats.
Samuel BS, Rowedder H, Braendle C, Félix MA, Ruvkun G
Proc Natl Acad Sci U S A. 2016 Jul 5. 113(27):E3941-9.

Logical Modeling and Dynamical Analysis of Cellular Networks.
Abou‑Jaoudé W, Traynard P, Monteiro PT, Saez‑Rodriguez J, Helikar T, Thieffry D, Chaouiya C
Front Genet. 2016. 7:94.

Anchor cell signaling and vulval precursor cell positioning establish a reproducible spatial context during C. elegans vulval induction.
Grimbert S, Tietze K, Barkoulas M, Sternberg PW, Félix MA, Braendle C
Dev Biol. 2016 Aug 1. 416(1):123-135.

Altered zinc sensitivity of NMDA receptors harboring clinically-relevant mutations.
Serraz B, Grand T, Paoletti P
Neuropharmacology. 2016 Oct. 109:196-204.

The Arabidopsis thaliana mobilome and its impact at the species level.
Quadrana L, Bortolini Silveira A, Mayhew GF, LeBlanc C, Martienssen RA, Jeddeloh JA, Colot V
Elife. 2016 Jun 3. 5.

A Network of Paralogous Stress Response Transcription Factors in the Human Pathogen Candida glabrata.
Merhej J, Thiebaut A, Blugeon C, Pouch J, Ali Chaouche Mel A, Camadro JM, Le Crom S, Lelandais G, Devaux F
Front Microbiol. 2016. 7:645.

Estimating planktonic diversity through spatial dominance patterns in a model ocean.
Soccodato A, d’Ovidio F, Lévy M, Jahn O, Follows MJ, De Monte S
Mar Genomics. 2016 Oct. 29:9-17.

Analyzing In Vivo Cell Migration using Cell Transplantations and Time-lapse Imaging in Zebrafish Embryos.
Giger FA, Dumortier JG, David NB
J Vis Exp. 2016 Apr 29. (110).

The native microbiome of the nematode Caenorhabditis elegans : gateway to a new host-microbiome model.
Dirksen P, Marsh SA, Braker I, Heitland N, Wagner S, Nakad R, Mader S, Petersen C, Kowallik V, Rosenstiel P, Félix MA, Schulenburg H
BMC Biol. 2016 May 9. 14:38.

Hydrogen peroxide (H2O2) controls axon pathfinding during zebrafish development.
Gauron C, Meda F, Dupont E, Albadri S, Quenech’Du N, Ipendey E, Volovitch M, Del Bene F, Joliot A, Rampon C, Vriz S
Dev Biol. 2016 Jun 15. 414(2):133-41.

Histone Chaperone SSRP1 is Essential for Wnt Signaling Pathway Activity During Osteoblast Differentiation.
Hossan T, Nagarajan S, Baumgart SJ, Xie W, Magallanes RT, Hernandez C, Chiaroni PM, Indenbirken D, Spitzner M, Thomas‑Chollier M, Grade M, Thieffry D, Grundhoff A, Wegwitz F, Johnsen SA
Stem Cells. 2016 May. 34(5):1369-76.

Ostreococcus tauri is a new model green alga for studying iron metabolism in eukaryotic phytoplankton.
Lelandais G, Scheiber I, Paz‑Yepes J, Lozano JC, Botebol H, Pilátová J, Žárský V, Léger T, Blaiseau PL, Bowler C, Bouget FY, Camadro JM, Sutak R, Lesuisse E
BMC Genomics. 2016 May 3. 17:319.

Coopération entre mutation somatique et variant génétique de susceptibilité dans le sarcome d’Ewing.
Grünewald TG, Gilardi‑Hebenstreit P, Charnay P, Delattre O
Med Sci (Paris). 2016 Apr. 32(4):323-6.

Diversity in cell motility reveals the dynamic nature of the formation of zebrafish taste sensory organs.
Soulika M, Kaushik AL, Mathieu B, Lourenço R, Komisarczuk AZ, Romano SA, Jouary A, Lardennois A, Tissot N, Okada S, Abe K, Becker TS, Kapsimali M
Development. 2016 Jun 1. 143(11):2012-24.

Detection and tracking of overlapping cell nuclei for large scale mitosis analyses.
Li Y, Rose F, di Pietro F, Morin X, Genovesio A
BMC Bioinformatics. 2016 Apr 26. 17(1):183.

CDK1 Prevents Unscheduled PLK4-STIL Complex Assembly in Centriole Biogenesis.
Zitouni S, Francia ME, Leal F, Montenegro Gouveia S, Nabais C, Duarte P, Gilberto S, Brito D, Moyer T, Kandels‑Lewis S, Ohta M, Kitagawa D, Holland AJ, Karsenti E, Lorca T, Lince‑Faria M, Bettencourt‑Dias M
Curr Biol. 2016 May 9. 26(9):1127-37.

Burst-Dependent Bidirectional Plasticity in the Cerebellum Is Driven by Presynaptic NMDA Receptors.
Bouvier G, Higgins D, Spolidoro M, Carrel D, Mathieu B, Léna C, Dieudonné S, Barbour B, Brunel N, Casado M
Cell Rep. 2016 Apr 5. 15(1):104-16.

Erratum to : Understanding Brassicaceae evolution through ancestral genome reconstruction.
Murat F, Louis A, Maumus F, Armero A, Cook R, Quesneville H, Roest Crollius H, Salse J
Genome Biol. 2016 Apr 4. 17:64.

Simple calibration of TIR field depth using the supercoiling response of DNA.
Duboc C, Graves ET, Strick TR
Methods. 2016 Aug 1. 105:56-61.

Structural Fluctuations of the Chromatin Fiber within Topologically Associating Domains.
Tiana G, Amitai A, Pollex T, Piolot T, Holcman D, Heard E, Giorgetti L
Biophys J. 2016 Mar 29. 110(6):1234-45.

Identification and characterization of DNA sequences that prevent glucocorticoid receptor binding to nearby response elements.
Telorac J, Prykhozhij SV, Schöne S, Meierhofer D, Sauer S, Thomas‑Chollier M, Meijsing SH
Nucleic Acids Res. 2016 Jul 27. 44(13):6142-56.

Cyanobacterial symbionts diverged in the late Cretaceous towards lineage-specific nitrogen fixation factories in single-celled phytoplankton.
Cornejo‑Castillo FM, Cabello AM, Salazar G, Sánchez‑Baracaldo P, Lima‑Mendez G, Hingamp P, Alberti A, Sunagawa S, Bork P, de Vargas C, Raes J, Bowler C, Wincker P, Zehr JP, Gasol JM, Massana R, Acinas SG
Nat Commun. 2016 Mar 22. 7:11071.

C/EBPα creates elite cells for iPSC reprogramming by upregulating Klf4 and increasing the levels of Lsd1 and Brd4.
Di Stefano B, Collombet S, Jakobsen JS, Wierer M, Sardina JL, Lackner A, Stadhouders R, Segura‑Morales C, Francesconi M, Limone F, Mann M, Porse B, Thieffry D, Graf T
Nat Cell Biol. 2016 Apr. 18(4):371-81.

Estimating the Effect of Competition on Trait Evolution Using Maximum Likelihood Inference.
Drury J, Clavel J, Manceau M, Morlon H
Syst Biol. 2016 Jul. 65(4):700-10.

Data in support of the identification of neuronal and astrocyte proteins interacting with extracellularly applied oligomeric and fibrillar α-synuclein assemblies by mass spectrometry.
Shrivastava AN, Redeker V, Fritz N, Pieri L, Almeida LG, Spolidoro M, Liebmann T, Bousset L, Renner M, Léna C, Aperia A, Melki R, Triller A
Data Brief. 2016 Jun. 7:221-8.

Neurodegeneration, Neurogenesis, and Oxidative Stress 2015.
Santos R, Bulteau AL, Gomes CM
Oxid Med Cell Longev. 2016. 2016:7632025.

Diatom Phytochromes Reveal the Existence of Far-Red-Light-Based Sensing in the Ocean.
Fortunato AE, Jaubert M, Enomoto G, Bouly JP, Raniello R, Thaler M, Malviya S, Bernardes JS, Rappaport F, Gentili B, Huysman MJ, Carbone A, Bowler C, d’Alcalà MR, Ikeuchi M, Falciatore A
Plant Cell. 2016 Mar. 28(3):616-28.

Deciphering DNA replication dynamics in eukaryotic cell populations in relation with their averaged chromatin conformations.
Goldar A, Arneodo A, Audit B, Argoul F, Rappailles A, Guilbaud G, Petryk N, Kahli M, Hyrien O
Sci Rep. 2016 Mar 3. 6:22469.

Insights into global diatom distribution and diversity in the world’s ocean.
Malviya S, Scalco E, Audic S, Vincent F, Veluchamy A, Poulain J, Wincker P, Iudicone D, de Vargas C, Bittner L, Zingone A, Bowler C
Proc Natl Acad Sci U S A. 2016 Mar 15. 113(11):E1516-25.

Centriole continuity : out with the new, in with the old.
Meunier A, Spassky N
Curr Opin Cell Biol. 2016 Feb. 38:60-7.

Time-invariant feed-forward inhibition of Purkinje cells in the cerebellar cortex in vivo.
Blot A, de Solages C, Ostojic S, Szapiro G, Hakim V, Léna C
J Physiol. 2016 May 15. 594(10):2729-49.

A Novel Binding Mode Reveals Two Distinct Classes of NMDA Receptor GluN2B-selective Antagonists.
Stroebel D, Buhl DL, Knafels JD, Chanda PK, Green M, Sciabola S, Mony L, Paoletti P, Pandit J
Mol Pharmacol. 2016 May. 89(5):541-51.

Pathogens trigger top-down climate forcing on ecosystem dynamics.
Edeline E, Groth A, Cazelles B, Claessen D, Winfield IJ, Ohlberger J, Asbjørn Vøllestad L, Stenseth NC, Ghil M
Oecologia. 2016 Jun. 181(2):519-32.

Adaptation to Temporally Fluctuating Environments by the Evolution of Maternal Effects.
Dey S, Proulx SR, Teotónio H
PLoS Biol. 2016 Feb. 14(2):e1002388.

Metals and Neuronal Metal Binding Proteins Implicated in Alzheimer’s Disease.
Cristóvão JS, Santos R, Gomes CM
Oxid Med Cell Longev. 2016. 2016:9812178.

Positive Allosteric Modulators of GluN2A-Containing NMDARs with Distinct Modes of Action and Impacts on Circuit Function.
Hackos DH, Lupardus PJ, Grand T, Chen Y, Wang TM, Reynen P, Gustafson A, Wallweber HJ, Volgraf M, Sellers BD, Schwarz JB, Paoletti P, Sheng M, Zhou Q, Hanson JE
Neuron. 2016 Mar 2. 89(5):983-99.

Plankton networks driving carbon export in the oligotrophic ocean.
Guidi L, Chaffron S, Bittner L, Eveillard D, Larhlimi A, Roux S, Darzi Y, Audic S, Berline L, Brum J, Coelho LP, Espinoza JCI, Malviya S, Sunagawa S, Dimier C, Kandels‑Lewis S, Picheral M, Poulain J, Searson S, Stemmann L, Not F, Hingamp P, Speich S, Follows M, Karp‑Boss L, Boss E, Ogata H, Pesant S, Weissenbach J, Wincker P, Acinas SG, Bork P, de Vargas C, Iudicone D, Sullivan MB, Raes J, Karsenti E, Bowler C, Gorsky G
Nature. 2016 Apr 28. 532(7600):465-470.

A CURLY LEAF homologue controls both vegetative and reproductive development of tomato plants.
Boureau L, How‑Kit A, Teyssier E, Drevensek S, Rainieri M, Joubès J, Stammitti L, Pribat A, Bowler C, Hong Y, Gallusci P
Plant Mol Biol. 2016 Mar. 90(4-5):485-501.

The Role of Synaptopodin in Membrane Protein Diffusion in the Dendritic Spine Neck.
Wang L, Dumoulin A, Renner M, Triller A, Specht CG
PLoS One. 2016. 11(2):e0148310.

Replication landscape of the human genome.
Petryk N, Kahli M, d’Aubenton‑Carafa Y, Jaszczyszyn Y, Shen Y, Silvain M, Thermes C, Chen CL, Hyrien O
Nat Commun. 2016 Jan 11. 7:10208.

Small fluorescence-activating and absorption-shifting tag for tunable protein imaging in vivo.
Plamont MA, Billon‑Denis E, Maurin S, Gauron C, Pimenta FM, Specht CG, Shi J, Quérard J, Pan B, Rossignol J, Moncoq K, Morellet N, Volovitch M, Lescop E, Chen Y, Triller A, Vriz S, Le Saux T, Jullien L, Gautier A
Proc Natl Acad Sci U S A. 2016 Jan 19. 113(3):497-502.

Search for a small egg by spermatozoa in restricted geometries.
Yang J, Kupka I, Schuss Z, Holcman D
J Math Biol. 2016 Aug. 73(2):423-46.

Prss56, a novel marker of adult neurogenesis in the mouse brain.
Jourdon A, Gresset A, Spassky N, Charnay P, Topilko P, Santos R
Brain Struct Funct. 2016 Dec. 221(9):4411-4427.

Noncoding and coding transcriptome responses of a marine diatom to phosphate fluctuations.
Cruz de Carvalho MH, Sun HX, Bowler C, Chua NH
New Phytol. 2016 Apr. 210(2):497-510.

The exon junction complex as a node of post-transcriptional networks.
Le Hir H, Saulière J, Wang Z
Nat Rev Mol Cell Biol. 2016 Jan. 17(1):41-54.

Master regulators in primary skin fibroblast fate reprogramming in a human ex vivo model of chronic wounds.
Noizet M, Lagoutte E, Gratigny M, Bouschbacher M, Lazareth I, Roest Crollius H, Darzacq X, Dugast‑Darzacq C
Wound Repair Regen. 2016 Mar. 24(2):247-62.

A versatile Multisite Gateway-compatible promoter and transgenic line collection for cell type-specific functional genomics in Arabidopsis.
Marquès‑Bueno MDM, Morao AK, Cayrel A, Platre MP, Barberon M, Caillieux E, Colot V, Jaillais Y, Roudier F, Vert G
Plant J. 2016 Jan. 85(2):320-333.

Characterizing and Comparing Phylogenies from their Laplacian Spectrum.
Lewitus E, Morlon H
Syst Biol. 2016 May. 65(3):495-507.

Contribution of postsynaptic T-type calcium channels to parallel fibre-Purkinje cell synaptic responses.
Ly R, Bouvier G, Szapiro G, Prosser HM, Randall AD, Kano M, Sakimura K, Isope P, Barbour B, Feltz A
J Physiol. 2016 Feb 15. 594(4):915-36.

Computer-aided Therapeutics in Treating Autoimmune Encephalitis—Reply.
Joubert B, Paoletti P, Honnorat J
JAMA Neurol. 2016 Jan. 73(1):128.

Reverse transcriptase genes are highly abundant and transcriptionally active in marine plankton assemblages.
Lescot M, Hingamp P, Kojima KK, Villar E, Romac S, Veluchamy A, Boccara M, Jaillon O, Iudicone D, Bowler C, Wincker P, Claverie JM, Ogata H
ISME J. 2016 May. 10(5):1134-46.

Eco-evolutionary feedbacks between private and public goods : evidence from toxic algal blooms.
Driscoll WW, Hackett JD, Ferrière R
Ecol Lett. 2016 Jan. 19(1):81-97.

ChIPseq in Yeast Species : From Chromatin Immunoprecipitation to High-Throughput Sequencing and Bioinformatics Data Analyses.
Lelandais G, Blugeon C, Merhej J
Methods Mol Biol. 2016. 1361:185-202.

Siderophore production and the evolution of investment in a public good : An adaptive dynamics approach to kin selection.
Lee W, van Baalen M, Jansen VA
J Theor Biol. 2016 Jan 7. 388:61-71.

Nerves Control Redox Levels in Mature Tissues Through Schwann Cells and Hedgehog Signaling.
Meda F, Gauron C, Rampon C, Teillon J, Volovitch M, Vriz S
Antioxid Redox Signal. 2016 Feb 20. 24(6):299-311.

The Heterogeneity of Ly6Chi Monocytes Controls Their Differentiation into iNOS+ Macrophages or Monocyte-Derived Dendritic Cells.
Menezes S, Melandri D, Anselmi G, Perchet T, Loschko J, Dubrot J, Patel R, Gautier EL, Hugues S, Longhi MP, Henry JY, Quezada SA, Lauvau G, Lennon‑Duménil AM, Gutiérrez‑Martínez E, Bessis A, Gomez‑Perdiguero E, Jacome‑Galarza CE, Garner H, Geissmann F, Golub R, Nussenzweig MC, Guermonprez P
Immunity. 2016 Dec 20. 45(6):1205-1218.

Phenotypic Evolution With and Beyond Genome Evolution.
Félix MA
Curr Top Dev Biol. 2016. 119:291-347.

Up and down the slope : replication timing and fork directionality gradients in eukaryotic genomes
Hyrien O
The Initiation of DNA Replication in Eukaryotes, (Ed. D. Kaplan), Springer. 2016.



2015


2015

Methyl-CpG Binding Protein 2 (Mecp2) Regulates Sensory Function Through Sema5b and Robo2.
Leong WY, Lim ZH, Korzh V, Pietri T, Goh EL
Front Cell Neurosci. 2015. 9:481.

Bidirectional Control of Synaptic GABAAR Clustering by Glutamate and Calcium.
Bannai H, Niwa F, Sherwood MW, Shrivastava AN, Arizono M, Miyamoto A, Sugiura K, Lévi S, Triller A, Mikoshiba K
Cell Rep. 2015 Dec 29. 13(12):2768-80.

Quasi-planktonic behavior of foraging top marine predators.
Della Penna A, De Monte S, Kestenare E, Guinet C, d’Ovidio F
Sci Rep. 2015 Dec 15. 5:18063.

Impaired PRC2 activity promotes transcriptional instability and favors breast tumorigenesis.
Wassef M, Rodilla V, Teissandier A, Zeitouni B, Gruel N, Sadacca B, Irondelle M, Charruel M, Ducos B, Michaud A, Caron M, Marangoni E, Chavrier P, Le Tourneau C, Kamal M, Pasmant E, Vidaud M, Servant N, Reyal F, Meseure D, Vincent‑Salomon A, Fre S, Margueron R
Genes Dev. 2015 Dec 15. 29(24):2547-62.

The evolution of adhesiveness as a social adaptation.
Garcia T, Doulcier G, De Monte S
Elife. 2015 Nov 27. 4.

Presynaptic NMDA receptors : Roles and rules.
Bouvier G, Bidoret C, Casado M, Paoletti P
Neuroscience. 2015 Dec 17. 311:322-40.

Central role for ferritin in the day/night regulation of iron homeostasis in marine phytoplankton.
Botebol H, Lesuisse E, Šuták R, Six C, Lozano JC, Schatt P, Vergé V, Kirilovsky A, Morrissey J, Léger T, Camadro JM, Gueneugues A, Bowler C, Blain S, Bouget FY
Proc Natl Acad Sci U S A. 2015 Nov 24. 112(47):14652-7.

Predictive Spatiotemporal Manipulation of Signaling Perturbations Using Optogenetics.
Valon L, Etoc F, Remorino A, di Pietro F, Morin X, Dahan M, Coppey M
Biophys J. 2015 Nov 3. 109(9):1785-97.

Analysis and Interpretation of Superresolution Single-Particle Trajectories.
Holcman D, Hoze N, Schuss Z
Biophys J. 2015 Nov 3. 109(9):1761-71.

Plants Release Precursors of Histone Deacetylase Inhibitors to Suppress Growth of Competitors.
Venturelli S, Belz RG, Kämper A, Berger A, von Horn K, Wegner A, Böcker A, Zabulon G, Langenecker T, Kohlbacher O, Barneche F, Weigel D, Lauer UM, Bitzer M, Becker C
Plant Cell. 2015 Nov. 27(11):3175-89.

Why so many sperm cells ?
Reynaud K, Schuss Z, Rouach N, Holcman D
Commun Integr Biol. 2015 May-Jun. 8(3):e1017156.

Self-assembly and plasticity of synaptic domains through a reaction-diffusion mechanism.
Haselwandter CA, Kardar M, Triller A, da Silveira RA
Phys Rev E Stat Nonlin Soft Matter Phys. 2015 Sep. 92(3):032705.

The new nanophysiology : regulation of ionic flow in neuronal subcompartments.
Holcman D, Yuste R
Nat Rev Neurosci. 2015 Nov. 16(11):685-92.

Workshop report : Caenorhabditis nematodes as model organisms to study trait variation and its evolution.
Braendle C, Teotonio H
Worm. 2015 Apr-Jun. 4(2):e1021109.

FRET-Based Nanobiosensors for Imaging Intracellular Ca²⁺ and H⁺ Microdomains.
Zamaleeva AI, Despras G, Luccardini C, Collot M, de Waard M, Oheim M, Mallet JM, Feltz A
Sensors (Basel). 2015 Sep 23. 15(9):24662-80.

Ultrastructure and Membrane Traffic During Cell Division in the Marine Pennate Diatom Phaeodactylum tricornutum.
Tanaka A, De Martino A, Amato A, Montsant A, Mathieu B, Rostaing P, Tirichine L, Bowler C
Protist. 2015 Nov. 166(5):506-21.

How rods respond to single photons : Key adaptations of a G-protein cascade that enable vision at the physical limit of perception.
Reingruber J, Holcman D, Fain GL
Bioessays. 2015 Nov. 37(11):1243-52.

α-synuclein assemblies sequester neuronal α3-Na+/K+-ATPase and impair Na+ gradient.
Shrivastava AN, Redeker V, Fritz N, Pieri L, Almeida LG, Spolidoro M, Liebmann T, Bousset L, Renner M, Léna C, Aperia A, Melki R, Triller A
EMBO J. 2015 Oct 1. 34(19):2408-23.

Analysis of Single Locus Trajectories for Extracting In Vivo Chromatin Tethering Interactions.
Amitai A, Toulouze M, Dubrana K, Holcman D
PLoS Comput Biol. 2015 Aug. 11(8):e1004433.

Discovery of Drug Synergies in Gastric Cancer Cells Predicted by Logical Modeling.
Flobak Å, Baudot A, Remy E, Thommesen L, Thieffry D, Kuiper M, Lægreid A
PLoS Comput Biol. 2015 Aug. 11(8):e1004426.

Synaptic dynamics and neuronal network connectivity are reflected in the distribution of times in Up states.
Dao Duc K, Parutto P, Chen X, Epsztein J, Konnerth A, Holcman D
Front Comput Neurosci. 2015. 9:96.

Syncytial apoptosis signaling network induced by the HIV-1 envelope glycoprotein complex : an overview.
Nardacci R, Perfettini JL, Grieco L, Thieffry D, Kroemer G, Piacentini M
Cell Death Dis. 2015 Aug 6. 6:e1846.

Are the SSB-Interacting Proteins RecO, RecG, PriA and the DnaB-Interacting Protein Rep Bound to Progressing Replication Forks in Escherichia coli ?
Bentchikou E, Chagneau C, Long E, Matelot M, Allemand JF, Michel B
PLoS One. 2015. 10(8):e0134892.

Neuronal and microglial regulators of cortical wiring : usual and novel guideposts.
Squarzoni P, Thion MS, Garel S
Front Neurosci. 2015. 9:248.

C/EBPα Activates Pre-existing and De Novo Macrophage Enhancers during Induced Pre-B Cell Transdifferentiation and Myelopoiesis.
van Oevelen C, Collombet S, Vicent G, Hoogenkamp M, Lepoivre C, Badeaux A, Bussmann L, Sardina JL, Thieffry D, Beato M, Shi Y, Bonifer C, Graf T
Stem Cell Reports. 2015 Aug 11. 5(2):232-47.

Chimeric EWSR1-FLI1 regulates the Ewing sarcoma susceptibility gene EGR2 via a GGAA microsatellite.
Grünewald TG, Bernard V, Gilardi‑Hebenstreit P, Raynal V, Surdez D, Aynaud MM, Mirabeau O, Cidre‑Aranaz F, Tirode F, Zaidi S, Perot G, Jonker AH, Lucchesi C, Le Deley MC, Oberlin O, Marec‑Bérard P, Véron AS, Reynaud S, Lapouble E, Boeva V, Rio Frio T, Alonso J, Bhatia S, Pierron G, Cancel‑Tassin G, Cussenot O, Cox DG, Morton LM, Machiela MJ, Chanock SJ, Charnay P, Delattre O
Nat Genet. 2015 Sep. 47(9):1073-8.

Combined transcriptome studies identify AFF3 as a mediator of the oncogenic effects of β-catenin in adrenocortical carcinoma.
Lefèvre L, Omeiri H, Drougat L, Hantel C, Giraud M, Val P, Rodriguez S, Perlemoine K, Blugeon C, Beuschlein F, de Reyniès A, Rizk‑Rabin M, Bertherat J, Ragazzon B
Oncogenesis. 2015 Jul 27. 4:e161.

Boundary Caps Give Rise to Neurogenic Stem Cells and Terminal Glia in the Skin.
Gresset A, Coulpier F, Gerschenfeld G, Jourdon A, Matesic G, Richard L, Vallat JM, Charnay P, Topilko P
Stem Cell Reports. 2015 Aug 11. 5(2):278-90.

Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards.
Ten Hoopen P, Pesant S, Kottmann R, Kopf A, Bicak M, Claus S, Deneudt K, Borremans C, Thijsse P, Dekeyzer S, Schaap DM, Bowler C, Glöckner FO, Cochrane G
Stand Genomic Sci. 2015. 10:20.

Multilayer and interconnected post-transcriptional and co-transcriptional control of plant NLRs.
Halter T, Navarro L
Curr Opin Plant Biol. 2015 Aug. 26:127-34.

Robust network oscillations during mammalian respiratory rhythm generation driven by synaptic dynamics.
Guerrier C, Hayes JA, Fortin G, Holcman D
Proc Natl Acad Sci U S A. 2015 Aug 4. 112(31):9728-33.

A microfluidic device to study neuronal and motor responses to acute chemical stimuli in zebrafish.
Candelier R, Murmu MS, Romano SA, Jouary A, Debrégeas G, Sumbre G
Sci Rep. 2015 Jul 21. 5:12196.

Atlas of Cancer Signalling Network : a systems biology resource for integrative analysis of cancer data with Google Maps.
Kuperstein I, Bonnet E, Nguyen HA, Cohen D, Viara E, Grieco L, Fourquet S, Calzone L, Russo C, Kondratova M, Dutreix M, Barillot E, Zinovyev A
Oncogenesis. 2015 Jul 20. 4:e160.

Pervasive robustness in biological systems.
Félix MA, Barkoulas M
Nat Rev Genet. 2015 Aug. 16(8):483-96.

Chromerid genomes reveal the evolutionary path from photosynthetic algae to obligate intracellular parasites.
Woo YH, Ansari H, Otto TD, Klinger CM, Kolisko M, Michálek J, Saxena A, Shanmugam D, Tayyrov A, Veluchamy A, Ali S, Bernal A, del Campo J, Cihlář J, Flegontov P, Gornik SG, Hajdušková E, Horák A, Janouškovec J, Katris NJ, Mast FD, Miranda‑Saavedra D, Mourier T, Naeem R, Nair M, Panigrahi AK, Rawlings ND, Padron‑Regalado E, Ramaprasad A, Samad N, Tomčala A, Wilkes J, Neafsey DE, Doerig C, Bowler C, Keeling PJ, Roos DS, Dacks JB, Templeton TJ, Waller RF, Lukeš J, Oborník M, Pain A
Elife. 2015 Jul 15. 4:e06974.

Energetic coupling between plastids and mitochondria drives CO2 assimilation in diatoms.
Bailleul B, Berne N, Murik O, Petroutsos D, Prihoda J, Tanaka A, Villanova V, Bligny R, Flori S, Falconet D, Krieger‑Liszkay A, Santabarbara S, Rappaport F, Joliot P, Tirichine L, Falkowski PG, Cardol P, Bowler C, Finazzi G
Nature. 2015 Aug 20. 524(7565):366-9.

Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcher.
Normanno D, Boudarène L, Dugast‑Darzacq C, Chen J, Richter C, Proux F, Bénichou O, Voituriez R, Darzacq X, Dahan M
Nat Commun. 2015 Jul 7. 6:7357.

Human Upf1 is a highly processive RNA helicase and translocase with RNP remodelling activities.
Fiorini F, Bagchi D, Le Hir H, Croquette V
Nat Commun. 2015 Jul 3. 6:7581.

Route to genetically targeted optical electrophysiology : development and applications of voltage-sensitive fluorescent proteins.
Akemann W, Song C, Mutoh H, Knöpfel T
Neurophotonics. 2015 Apr-Jun. 2(2).

Open science resources for the discovery and analysis of Tara Oceans data.
Pesant S, Not F, Picheral M, Kandels‑Lewis S, Le Bescot N, Gorsky G, Iudicone D, Karsenti E, Speich S, Troublé R, Dimier C, Searson S
Sci Data. 2015. 2:150023.

Bursting reverberation as a multiscale neuronal network process driven by synaptic depression-facilitation.
Dao Duc K, Lee CY, Parutto P, Cohen D, Segal M, Rouach N, Holcman D
PLoS One. 2015. 10(5):e0124694.

Ocean plankton. Determinants of community structure in the global plankton interactome.
Lima‑Mendez G, Faust K, Henry N, Decelle J, Colin S, Carcillo F, Chaffron S, Ignacio‑Espinosa JC, Roux S, Vincent F, Bittner L, Darzi Y, Wang J, Audic S, Berline L, Bontempi G, Cabello AM, Coppola L, Cornejo‑Castillo FM, d’Ovidio F, De Meester L, Ferrera I, Garet‑Delmas MJ, Guidi L, Lara E, Pesant S, Royo‑Llonch M, Salazar G, Sánchez P, Sebastian M, Souffreau C, Dimier C, Picheral M, Searson S, Kandels‑Lewis S, Gorsky G, Not F, Ogata H, Speich S, Stemmann L, Weissenbach J, Wincker P, Acinas SG, Sunagawa S, Bork P, Sullivan MB, Karsenti E, Bowler C, de Vargas C, Raes J
Science. 2015 May 22. 348(6237):1262073.

Ocean plankton. Eukaryotic plankton diversity in the sunlit ocean.
de Vargas C, Audic S, Henry N, Decelle J, Mahé F, Logares R, Lara E, Berney C, Le Bescot N, Probert I, Carmichael M, Poulain J, Romac S, Colin S, Aury JM, Bittner L, Chaffron S, Dunthorn M, Engelen S, Flegontova O, Guidi L, Horák A, Jaillon O, Lima‑Mendez G, Lukeš J, Malviya S, Morard R, Mulot M, Scalco E, Siano R, Vincent F, Zingone A, Dimier C, Picheral M, Searson S, Kandels‑Lewis S, Acinas SG, Bork P, Bowler C, Gorsky G, Grimsley N, Hingamp P, Iudicone D, Not F, Ogata H, Pesant S, Raes J, Sieracki ME, Speich S, Stemmann L, Sunagawa S, Weissenbach J, Wincker P, Karsenti E
Science. 2015 May 22. 348(6237):1261605.

Ocean plankton. Patterns and ecological drivers of ocean viral communities.
Brum JR, Ignacio‑Espinoza JC, Roux S, Doulcier G, Acinas SG, Alberti A, Chaffron S, Cruaud C, de Vargas C, Gasol JM, Gorsky G, Gregory AC, Guidi L, Hingamp P, Iudicone D, Not F, Ogata H, Pesant S, Poulos BT, Schwenck SM, Speich S, Dimier C, Kandels‑Lewis S, Picheral M, Searson S, Bork P, Bowler C, Sunagawa S, Wincker P, Karsenti E, Sullivan MB
Science. 2015 May 22. 348(6237):1261498.

Ocean plankton. Environmental characteristics of Agulhas rings affect interocean plankton transport.
Villar E, Farrant GK, Follows M, Garczarek L, Speich S, Audic S, Bittner L, Blanke B, Brum JR, Brunet C, Casotti R, Chase A, Dolan JR, d’Ortenzio F, Gattuso JP, Grima N, Guidi L, Hill CN, Jahn O, Jamet JL, Le Goff H, Lepoivre C, Malviya S, Pelletier E, Romagnan JB, Roux S, Santini S, Scalco E, Schwenck SM, Tanaka A, Testor P, Vannier T, Vincent F, Zingone A, Dimier C, Picheral M, Searson S, Kandels‑Lewis S, Acinas SG, Bork P, Boss E, de Vargas C, Gorsky G, Ogata H, Pesant S, Sullivan MB, Sunagawa S, Wincker P, Karsenti E, Bowler C, Not F, Hingamp P, Iudicone D
Science. 2015 May 22. 348(6237):1261447.

Ocean plankton. Structure and function of the global ocean microbiome.
Sunagawa S, Coelho LP, Chaffron S, Kultima JR, Labadie K, Salazar G, Djahanschiri B, Zeller G, Mende DR, Alberti A, Cornejo‑Castillo FM, Costea PI, Cruaud C, d’Ovidio F, Engelen S, Ferrera I, Gasol JM, Guidi L, Hildebrand F, Kokoszka F, Lepoivre C, Lima‑Mendez G, Poulain J, Poulos BT, Royo‑Llonch M, Sarmento H, Vieira‑Silva S, Dimier C, Picheral M, Searson S, Kandels‑Lewis S, Bowler C, de Vargas C, Gorsky G, Grimsley N, Hingamp P, Iudicone D, Jaillon O, Not F, Ogata H, Pesant S, Speich S, Stemmann L, Sullivan MB, Weissenbach J, Wincker P, Karsenti E, Raes J, Acinas SG, Bork P
Science. 2015 May 22. 348(6237):1261359.

Tara Oceans. Tara Oceans studies plankton at planetary scale. Introduction.
Bork P, Bowler C, de Vargas C, Gorsky G, Karsenti E, Wincker P
Science. 2015 May 22. 348(6237):873.

Computational eco-systems biology in Tara Oceans : translating data into knowledge.
Sunagawa S, Karsenti E, Bowler C, Bork P
Mol Syst Biol. 2015 May 21. 11(5):809.

A new approach to the generation time in matrix population models.
Bienvenu F, Legendre S
Am Nat. 2015 Jun. 185(6):834-43.

An integrative analysis of post-translational histone modifications in the marine diatom Phaeodactylum tricornutum.
Veluchamy A, Rastogi A, Lin X, Lombard B, Murik O, Thomas Y, Dingli F, Rivarola M, Ott S, Liu X, Sun Y, Rabinowicz PD, McCarthy J, Allen AE, Loew D, Bowler C, Tirichine L
Genome Biol. 2015 May 20. 16:102.

Partner choice creates fairness in humans.
Debove S, André JB, Baumard N
Proc Biol Sci. 2015 Jun 7. 282(1808):20150392.

A novel inhibitory nucleo-cortical circuit controls cerebellar Golgi cell activity.
Ankri L, Husson Z, Pietrajtis K, Proville R, Léna C, Yarom Y, Dieudonné S, Uusisaari MY
Elife. 2015 May 12. 4.

Light signaling controls nuclear architecture reorganization during seedling establishment.
Bourbousse C, Mestiri I, Zabulon G, Bourge M, Formiggini F, Koini MA, Brown SC, Fransz P, Bowler C, Barneche F
Proc Natl Acad Sci U S A. 2015 May 26. 112(21):E2836-44.

Potentiel thérapeutique de la neuromodulation optogénétique.
Vandecasteele M, Senova YS, Palfi S, Dugué GP
Med Sci (Paris). 2015 Apr. 31(4):404-16.

Les approches écologiques et évolutives incontournables pour mieux comprendre les épidémies de grippe aviaire.
Cazelles B, Tian H, Roche B
Med Sci (Paris). 2015 Apr. 31(4):372-3.

Neuronal morphology generates high-frequency firing resonance.
Ostojic S, Szapiro G, Schwartz E, Barbour B, Brunel N, Hakim V
J Neurosci. 2015 May 6. 35(18):7056-68.

Zeb family members and boundary cap cells underlie developmental plasticity of sensory nociceptive neurons.
Ohayon D, Ventéo S, Sonrier C, Lafon PA, Garcès A, Valmier J, Rivat C, Topilko P, Carroll P, Pattyn A
Dev Cell. 2015 May 4. 33(3):343-50.

Control of brain patterning by Engrailed paracrine transfer : a new function of the Pbx interaction domain.
Rampon C, Gauron C, Lin T, Meda F, Dupont E, Cosson A, Ipendey E, Frerot A, Aujard I, Le Saux T, Bensimon D, Jullien L, Volovitch M, Vriz S, Joliot A
Development. 2015 May 15. 142(10):1840-9.

Out-of-focus background subtraction for fast structured illumination super-resolution microscopy of optically thick samples.
Vermeulen P, Zhan H, Orieux F, Olivo‑Marin JC, Lenkei Z, Loriette V, Fragola A
J Microsc. 2015 Sep. 259(3):257-68.

Long-range evolutionary constraints reveal cis-regulatory interactions on the human X chromosome.
Naville M, Ishibashi M, Ferg M, Bengani H, Rinkwitz S, Krecsmarik M, Hawkins TA, Wilson SW, Manning E, Chilamakuri CS, Wilson DI, Louis A, Lucy Raymond F, Rastegar S, Strähle U, Lenhard B, Bally‑Cuif L, van Heyningen V, FitzPatrick DR, Becker TS, Roest Crollius H
Nat Commun. 2015 Apr 24. 6:6904.

RSAT 2015 : Regulatory Sequence Analysis Tools.
Medina‑Rivera A, Defrance M, Sand O, Herrmann C, Castro‑Mondragon JA, Delerce J, Jaeger S, Blanchet C, Vincens P, Caron C, Staines DM, Contreras‑Moreira B, Artufel M, Charbonnier‑Khamvongsa L, Hernandez C, Thieffry D, Thomas‑Chollier M, van Helden J
Nucleic Acids Res. 2015 Jul 1. 43(W1):W50-6.

Inferring epigenetic dynamics from kin correlations.
Hormoz S, Desprat N, Shraiman BI
Proc Natl Acad Sci U S A. 2015 May 5. 112(18):E2281-9.

Genome-wide negative feedback drives transgenerational DNA methylation dynamics in Arabidopsis.
Ito T, Tarutani Y, To TK, Kassam M, Duvernois‑Berthet E, Cortijo S, Takashima K, Saze H, Toyoda A, Fujiyama A, Colot V, Kakutani T
PLoS Genet. 2015 Apr. 11(4):e1005154.

Radixin regulates synaptic GABAA receptor density and is essential for reversal learning and short-term memory.
Hausrat TJ, Muhia M, Gerrow K, Thomas P, Hirdes W, Tsukita S, Heisler FF, Herich L, Dubroqua S, Breiden P, Feldon J, Schwarz JR, Yee BK, Smart TG, Triller A, Kneussel M
Nat Commun. 2015 Apr 20. 6:6872.

Subrepellent doses of Slit1 promote Netrin-1 chemotactic responses in subsets of axons.
Dupin I, Lokmane L, Dahan M, Garel S, Studer V
Neural Dev. 2015 Mar 20. 10:5.

Functional characterization of the diatom cyclin-dependent kinase A2 as a mitotic regulator reveals plant-like properties in a non-green lineage.
Huysman MJ, Tanaka A, Bowler C, Vyverman W, De Veylder L
BMC Plant Biol. 2015 Mar 14. 15:86.

Origin and diversification of living cycads : a cautionary tale on the impact of the branching process prior in Bayesian molecular dating.
Condamine FL, Nagalingum NS, Marshall CR, Morlon H
BMC Evol Biol. 2015 Apr 17. 15:65.

Trophic groups and modules : two levels of group detection in food webs.
Gauzens B, Thébault E, Lacroix G, Legendre S
J R Soc Interface. 2015 May 6. 12(106).

The retrotrapezoid nucleus neurons expressing Atoh1 and Phox2b are essential for the respiratory response to CO₂.
Ruffault PL, D’Autréaux F, Hayes JA, Nomaksteinsky M, Autran S, Fujiyama T, Hoshino M, Hägglund M, Kiehn O, Brunet JF, Fortin G, Goridis C
Elife. 2015 Apr 13. 4.

Intermolecular recognition of the non-coding RNA 7SK and HEXIM protein in perspective.
Martinez‑Zapien D, Saliou JM, Han X, Atmanene C, Proux F, Cianférani S, Dock‑Bregeon AC
Biochimie. 2015 Oct. 117:63-71.

Principes et applications de l’optogénétique en neuroscience.
Dugué GP, Tricoire L
Med Sci (Paris). 2015 Mar. 31(3):291-303.

Amplification des centrioles - Quand le centriole fils du centrosome prend le contrôle.
Al Jord A, Spassky N, Meunier A
Med Sci (Paris). 2015 Mar. 31(3):250-3.

When everything is not everywhere but species evolve : an alternative method to model adaptive properties of marine ecosystems.
Sauterey B, Ward BA, Follows MJ, Bowler C, Claessen D
J Plankton Res. 2015 Jan. 37(1):28-47.

Ependymal cell differentiation, from monociliated to multiciliated cells.
Delgehyr N, Meunier A, Faucourt M, Bosch Grau M, Strehl L, Janke C, Spassky N
Methods Cell Biol. 2015. 127:19-35.

The neuroglial potassium cycle during neurotransmission : role of Kir4.1 channels.
Sibille J, Dao Duc K, Holcman D, Rouach N
PLoS Comput Biol. 2015 Mar. 11(3):e1004137.

CaRuby-Nano : a novel high affinity calcium probe for dual color imaging.
Collot M, Wilms CD, Bentkhayet A, Marcaggi P, Couchman K, Charpak S, Dieudonné S, Häusser M, Feltz A, Mallet JM
Elife. 2015 Mar 31. 4.

Changes in rodent abundance and weather conditions potentially drive hemorrhagic fever with renal syndrome outbreaks in Xi’an, China, 2005-2012.
Tian HY, Yu PB, Luis AD, Bi P, Cazelles B, Laine M, Huang SQ, Ma CF, Zhou S, Wei J, Li S, Lu XL, Qu JH, Dong JH, Tong SL, Wang JJ, Grenfell B, Xu B
PLoS Negl Trop Dis. 2015 Mar. 9(3):e0003530.

CLIP-seq to discover transcriptome-wide imprinting of RNA binding proteins in living cells.
Saulière J, Le Hir H
Methods Mol Biol. 2015. 1296:151-60.

Effect of dopaminergic D1 receptors on plasticity is dependent of serotoninergic 5-HT1A receptors in L5-pyramidal neurons of the prefrontal cortex.
Meunier CN, Callebert J, Cancela JM, Fossier P
PLoS One. 2015. 10(3):e0120286.

How Ecology and Landscape Dynamics Shape Phylogenetic Trees.
Gascuel F, Ferrière R, Aguilée R, Lambert A
Syst Biol. 2015 Jul. 64(4):590-607.

How environmental conditions impact mosquito ecology and Japanese encephalitis : an eco-epidemiological approach.
Tian HY, Bi P, Cazelles B, Zhou S, Huang SQ, Yang J, Pei Y, Wu XX, Fu SH, Tong SL, Wang HY, Xu B
Environ Int. 2015 Jun. 79:17-24.

Bistability in a metabolic network underpins the de novo evolution of colony switching in Pseudomonas fluorescens.
Gallie J, Libby E, Bertels F, Remigi P, Jendresen CB, Ferguson GC, Desprat N, Buffing MF, Sauer U, Beaumont HJ, Martinussen J, Kilstrup M, Rainey PB
PLoS Biol. 2015 Mar. 13(3):e1002109.

Immune quiescence of the brain is set by astroglial connexin 43.
Boulay AC, Mazeraud A, Cisternino S, Saubaméa B, Mailly P, Jourdren L, Blugeon C, Mignon V, Smirnova M, Cavallo A, Ezan P, Avé P, Dingli F, Loew D, Vieira P, Chrétien F, Cohen‑Salmon M
J Neurosci. 2015 Mar 11. 35(10):4427-39.

Structural insight into the mechanism of stabilization of the 7SK small nuclear RNA by LARP7.
Uchikawa E, Natchiar KS, Han X, Proux F, Roblin P, Zhang E, Durand A, Klaholz BP, Dock‑Bregeon AC
Nucleic Acids Res. 2015 Mar 31. 43(6):3373-88.

Properties and molecular identity of NMDA receptors at synaptic and non-synaptic inputs in cerebellar molecular layer interneurons.
Bidoret C, Bouvier G, Ayon A, Szapiro G, Casado M
Front Synaptic Neurosci. 2015. 7:1.

Control of Plasma Membrane Permeability by ABC Transporters.
Khakhina S, Johnson SS, Manoharlal R, Russo SB, Blugeon C, Lemoine S, Sunshine AB, Dunham MJ, Cowart LA, Devaux F, Moye‑Rowley WS
Eukaryot Cell. 2015 May. 14(5):442-53.

The Susd2 protein regulates neurite growth and excitatory synaptic density in hippocampal cultures.
Nadjar Y, Triller A, Bessereau JL, Dumoulin A
Mol Cell Neurosci. 2015 Mar. 65:82-91.

ChIP-exo signal associated with DNA-binding motifs provides insight into the genomic binding of the glucocorticoid receptor and cooperating transcription factors.
Starick SR, Ibn‑Salem J, Jurk M, Hernandez C, Love MI, Chung HR, Vingron M, Thomas‑Chollier M, Meijsing SH
Genome Res. 2015 Jun. 25(6):825-35.

Phylogenies support out-of-equilibrium models of biodiversity.
Manceau M, Lambert A, Morlon H
Ecol Lett. 2015 Apr. 18(4):347-56.

The TORC2 component, Sin1, controls migration of anterior mesendoderm during zebrafish gastrulation.
Dumortier JG, David NB
PLoS One. 2015. 10(2):e0118474.

A subcortical inhibitory signal for behavioral arrest in the thalamus.
Giber K, Diana MA, Plattner V, Dugué GP, Bokor H, Rousseau CV, Maglóczky Z, Havas L, Hangya B, Wildner H, Zeilhofer HU, Dieudonné S, Acsády L
Nat Neurosci. 2015 Apr. 18(4):562-568.

Spontaneous neuronal network dynamics reveal circuit’s functional adaptations for behavior.
Romano SA, Pietri T, Pérez‑Schuster V, Jouary A, Haudrechy M, Sumbre G
Neuron. 2015 Mar 4. 85(5):1070-85.

The Sarcoglycan complex is expressed in the cerebrovascular system and is specifically regulated by astroglial Cx30 channels.
Boulay AC, Saubaméa B, Cisternino S, Mignon V, Mazeraud A, Jourdren L, Blugeon C, Cohen‑Salmon M
Front Cell Neurosci. 2015. 9:9.

The shortest path is not the one you know : application of biological network resources in precision oncology research.
Kuperstein I, Grieco L, Cohen DP, Thieffry D, Zinovyev A, Barillot E
Mutagenesis. 2015 Mar. 30(2):191-204.

Contingency in the evolutionary emergence of reciprocal cooperation.
André JB
Am Nat. 2015 Mar. 185(3):303-16.

Epigenetic basis of morphological variation and phenotypic plasticity in Arabidopsis thaliana.
Kooke R, Johannes F, Wardenaar R, Becker F, Etcheverry M, Colot V, Vreugdenhil D, Keurentjes JJ
Plant Cell. 2015 Feb. 27(2):337-48.

Oil accumulation by the oleaginous diatom Fistulifera solaris as revealed by the genome and transcriptome.
Tanaka T, Maeda Y, Veluchamy A, Tanaka M, Abida H, Maréchal E, Bowler C, Muto M, Sunaga Y, Tanaka M, Yoshino T, Taniguchi T, Fukuda Y, Nemoto M, Matsumoto M, Wong PS, Aburatani S, Fujibuchi W
Plant Cell. 2015 Jan. 27(1):162-76.

Cooperative development of logical modelling standards and tools with CoLoMoTo.
Naldi A, Monteiro PT, Müssel C, Kestler HA, Thieffry D, Xenarios I, Saez‑Rodriguez J, Helikar T, Chaouiya C
Bioinformatics. 2015 Apr 1. 31(7):1154-9.

Editorial overview : neurosciences : targeting glutamatergic signaling in CNS diseases : new hopes ?
Paoletti P, Pin JP
Curr Opin Pharmacol. 2015 Feb. 20:iv-vi.

Peaks cloaked in the mist : the landscape of mammalian replication origins.
Hyrien O
J Cell Biol. 2015 Jan 19. 208(2):147-60.

Primary and secondary siRNA synthesis triggered by RNAs from food bacteria in the ciliate Paramecium tetraurelia.
Carradec Q, Götz U, Arnaiz O, Pouch J, Simon M, Meyer E, Marker S
Nucleic Acids Res. 2015 Feb 18. 43(3):1818-33.

A novel protein, ubiquitous in marine phytoplankton, concentrates iron at the cell surface and facilitates uptake.
Morrissey J, Sutak R, Paz‑Yepes J, Tanaka A, Moustafa A, Veluchamy A, Thomas Y, Botebol H, Bouget FY, McQuaid JB, Tirichine L, Allen AE, Lesuisse E, Bowler C
Curr Biol. 2015 Feb 2. 25(3):364-71.

A genomic region encompassing a newly identified exon provides enhancing activity sufficient for normal myo7aa expression in zebrafish sensory hair cells.
Ernest S, Rosa FM
Dev Neurobiol. 2015 Sep. 75(9):961-83.

PRC2 represses dedifferentiation of mature somatic cells in Arabidopsis.
Ikeuchi M, Iwase A, Rymen B, Harashima H, Shibata M, Ohnuma M, Breuer C, Morao AK, de Lucas M, De Veylder L, Goodrich J, Brady SM, Roudier F, Sugimoto K
Nat Plants. 2015 Jun 29. 1:15089.

Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation.
Willing EM, Rawat V, Mandáková T, Maumus F, James GV, Nordström KJ, Becker C, Warthmann N, Chica C, Szarzynska B, Zytnicki M, Albani MC, Kiefer C, Bergonzi S, Castaings L, Mateos JL, Berns MC, Bujdoso N, Piofczyk T, de Lorenzo L, Barrero‑Sicilia C, Mateos I, Piednoël M, Hagmann J, Chen‑Min‑Tao R, Iglesias‑Fernández R, Schuster SC, Alonso‑Blanco C, Roudier F, Carbonero P, Paz‑Ares J, Davis SJ, Pecinka A, Quesneville H, Colot V, Lysak MA, Weigel D, Coupland G, Schneeberger K
Nat Plants. 2015 Feb 2. 1:14023.

Stochastic dynamics of adaptive trait and neutral marker driven by eco-evolutionary feedbacks.
Billiard S, Ferrière R, Méléard S, Tran VC
J Math Biol. 2015 Nov. 71(5):1211-42.

Presence in Mediterranean hotspots and floral symmetry affect speciation and extinction rates in Proteaceae.
Reyes E, Morlon H, Sauquet H
New Phytol. 2015 Jul. 207(2):401-10.

Evolution of equal division among unequal partners.
Debove S, Baumard N, André JB
Evolution. 2015 Feb. 69(2):561-9.

Molecular dissection of segment formation in the developing hindbrain.
Labalette C, Wassef MA, Desmarquet‑Trin Dinh C, Bouchoucha YX, Le Men J, Charnay P, Gilardi‑Hebenstreit P
Development. 2015 Jan 1. 142(1):185-95.

Membrane glycerolipid remodeling triggered by nitrogen and phosphorus starvation in Phaeodactylum tricornutum.
Abida H, Dolch LJ, Meï C, Villanova V, Conte M, Block MA, Finazzi G, Bastien O, Tirichine L, Bowler C, Rébeillé F, Petroutsos D, Jouhet J, Maréchal E
Plant Physiol. 2015 Jan. 167(1):118-36.

Allosteric modulators of NMDA receptors : multiple sites and mechanisms.
Zhu S, Paoletti P
Curr Opin Pharmacol. 2015 Feb. 20:14-23.

GenomicusPlants : a web resource to study genome evolution in flowering plants.
Louis A, Murat F, Salse J, Crollius HR
Plant Cell Physiol. 2015 Jan. 56(1):e4.

Genomicus update 2015 : KaryoView and MatrixView provide a genome-wide perspective to multispecies comparative genomics.
Louis A, Nguyen NT, Muffato M, Roest Crollius H
Nucleic Acids Res. 2015 Jan. 43(Database issue):D682-9.

Synaptic receptor dynamics : from theoretical concepts to deep quantification and chemistry in cellulo.
Salvatico C, Specht CG, Triller A
Neuropharmacology. 2015 Jan. 88:2-9.

Kinetics of aggregation with a finite number of particles and application to viral capsid assembly.
Hoze N, Holcman D
J Math Biol. 2015 Jun. 70(7):1685-705.

Post-transcriptional regulation in the nucleus and cytoplasm : study of mean time to threshold (MTT) and narrow escape problem.
Holcman D, Dao Duc K, Jones A, Byrne H, Burrage K
J Math Biol. 2015 Mar. 70(4):805-28.

The 3D organization of chromatin explains evolutionary fragile genomic regions.
Berthelot C, Muffato M, Abecassis J, Roest Crollius H
Cell Rep. 2015 Mar 24. 10(11):1913-24.

Anhydrobiosis and freezing-tolerance : adaptations that facilitate the establishment of Panagrolaimus nematodes in polar habitats.
McGill LM, Shannon AJ, Pisani D, Félix MA, Ramløv H, Dix I, Wharton DA, Burnell AM
PLoS One. 2015. 10(3):e0116084.

C. elegans outside the Petri dish.
Frézal L, Félix MA
Elife. 2015 Mar 30. 4.

The ß-importin KAP8 (Pse1/Kap121) is required for nuclear import of the cellulase transcriptional regulator XYR1, asexual sporulation and stress resistance in Trichoderma reesei.
Ghassemi S, Lichius A, Bidard F, Lemoine S, Rossignol MN, Herold S, Seidl‑Seiboth V, Seiboth B, Espeso EA, Margeot A, Kubicek CP
Mol Microbiol. 2015 Apr. 96(2):405-18.

Fast spatial beam shaping by acousto-optic diffraction for 3D non-linear microscopy.
Akemann W, Léger JF, Ventalon C, Mathieu B, Dieudonné S, Bourdieu L
Opt Express. 2015 Nov 2. 23(22):28191-205.

Characterization of the angular memory effect of scattered light in biological tissues.
Schott S, Bertolotti J, Léger JF, Bourdieu L, Gigan S
Opt Express. 2015 May 18. 23(10):13505-16.



2014


2011

Evidence for sequential and increasing activation of replication origins along replication timing gradients in the human genome.
Guilbaud G, Rappailles A, Baker A, Chen CL, Arneodo A, Goldar A, d’Aubenton‑Carafa Y, Thermes C, Audit B, Hyrien O
PLoS Comput Biol. 2011 Dec. 7(12):e1002322.

Syntaxin1A lateral diffusion reveals transient and local SNARE interactions.
Ribrault C, Reingruber J, Petković M, Galli T, Ziv NE, Holcman D, Triller A
J Neurosci. 2011 Nov 30. 31(48):17590-602.

Homeoprotein Phox2b commands a somatic-to-visceral switch in cranial sensory pathways.
D’Autréaux F, Coppola E, Hirsch MR, Birchmeier C, Brunet JF
Proc Natl Acad Sci U S A. 2011 Dec 13. 108(50):20018-23.

C. elegans : la puissance de la simplicité.
Bessereau JL
Ann Pathol. 2011 Nov. 31(5 Suppl):S60-2.

Genome engineering by transgene-instructed gene conversion in C. elegans.
Robert VJ, Bessereau JL
Methods Cell Biol. 2011. 106:65-88.

Single myelin fiber imaging in living rodents without labeling by deep optical coherence microscopy.
Ben Arous J, Binding J, Léger JF, Casado M, Topilko P, Gigan S, Boccara AC, Bourdieu L
J Biomed Opt. 2011 Nov. 16(11):116012.

The residence time of GABA(A)Rs at inhibitory synapses is determined by direct binding of the receptor α1 subunit to gephyrin.
Mukherjee J, Kretschmannova K, Gouzer G, Maric HM, Ramsden S, Tretter V, Harvey K, Davies PA, Triller A, Schindelin H, Moss SJ
J Neurosci. 2011 Oct 12. 31(41):14677-87.

Lateral diffusion on tubular membranes : quantification of measurements bias.
Renner M, Domanov Y, Sandrin F, Izeddin I, Bassereau P, Triller A
PLoS One. 2011. 6(9):e25731.

Physiological roles of microglia during development.
Pont‑Lezica L, Béchade C, Belarif‑Cantaut Y, Pascual O, Bessis A
J Neurochem. 2011 Dec. 119(5):901-8.

Transcription factor search for a DNA promoter in a three-state model.
Reingruber J, Holcman D
Phys Rev E Stat Nonlin Soft Matter Phys. 2011 Aug. 84(2 Pt 1):020901.

Inhibiting eukaryotic transcription : Which compound to choose ? How to evaluate its activity ?
Bensaude O
Transcription. 2011 May. 2(3):103-108.

Identification of the sites of action of SrmB, a DEAD-box RNA helicase involved in Escherichia coli ribosome assembly.
Proux F, Dreyfus M, Iost I
Mol Microbiol. 2011 Oct. 82(2):300-11.

Regulation of glycine receptor diffusion properties and gephyrin interactions by protein kinase C.
Specht CG, Grünewald N, Pascual O, Rostgaard N, Schwarz G, Triller A
EMBO J. 2011 Aug 9. 30(18):3842-53.

Late emergence of the vibrissa direction selectivity map in the rat barrel cortex.
Kremer Y, Léger JF, Goodman D, Brette R, Bourdieu L
J Neurosci. 2011 Jul 20. 31(29):10689-700.

Mitotic spindle orientation in asymmetric and symmetric cell divisions during animal development.
Morin X, Bellaïche Y
Dev Cell. 2011 Jul 19. 21(1):102-19.

Molecular basis of positive allosteric modulation of GluN2B NMDA receptors by polyamines.
Mony L, Zhu S, Carvalho S, Paoletti P
EMBO J. 2011 Jun 17. 30(15):3134-46.

Microscopies cellulaires à l’échelle de la molécule individuelle.
Izeddin I, Darzacq X, Dahan M
Med Sci (Paris). 2011 May. 27(5):547-52.

Physiological and molecular evidence that environmental changes elicit morphological interconversion in the model diatom Phaeodactylum tricornutum.
De Martino A, Bartual A, Willis A, Meichenin A, Villazán B, Maheswari U, Bowler C
Protist. 2011 Jul. 162(3):462-81.

Genome-wide evidence for local DNA methylation spreading from small RNA-targeted sequences in Arabidopsis.
Ahmed I, Sarazin A, Bowler C, Colot V, Quesneville H
Nucleic Acids Res. 2011 Sep 1. 39(16):6919-31.

Replication-fork stalling and processing at a single psoralen interstrand crosslink in Xenopus egg extracts.
Le Breton C, Hennion M, Arimondo PB, Hyrien O
PLoS One. 2011 Apr 15. 6(4):e18554.

Integrative epigenomic mapping defines four main chromatin states in Arabidopsis.
Roudier F, Ahmed I, Bérard C, Sarazin A, Mary‑Huard T, Cortijo S, Bouyer D, Caillieux E, Duvernois‑Berthet E, Al‑Shikhley L, Giraut L, Després B, Drevensek S, Barneche F, Dèrozier S, Brunaud V, Aubourg S, Schnittger A, Bowler C, Martin‑Magniette ML, Robin S, Caboche M, Colot V
EMBO J. 2011 May 18. 30(10):1928-38.

Functional reconstitution of Haemonchus contortus acetylcholine receptors in Xenopus oocytes provides mechanistic insights into levamisole resistance.
Boulin T, Fauvin A, Charvet CL, Cortet J, Cabaret J, Bessereau JL, Neveu C
Br J Pharmacol. 2011 Nov. 164(5):1421-32.

Brain refractive index measured in vivo with high-NA defocus-corrected full-field OCT and consequences for two-photon microscopy.
Binding J, Ben Arous J, Léger JF, Gigan S, Boccara C, Bourdieu L
Opt Express. 2011 Mar 14. 19(6):4833-47.

Decoding algal genomes : tracing back the history of photosynthetic life on Earth.
Tirichine L, Bowler C
Plant J. 2011 Apr. 66(1):45-57.

The presynaptic dense projection of the Caenorhabditis elegans cholinergic neuromuscular junction localizes synaptic vesicles at the active zone through SYD-2/liprin and UNC-10/RIM-dependent interactions.
Stigloher C, Zhan H, Zhen M, Richmond J, Bessereau JL
J Neurosci. 2011 Mar 23. 31(12):4388-96.

Molecular basis of NMDA receptor functional diversity.
Paoletti P
Eur J Neurosci. 2011 Apr. 33(8):1351-65.

Nitric oxide regulates astrocyte maturation in the hippocampus : involvement of NOS2.
Béchade C, Pascual O, Triller A, Bessis A
Mol Cell Neurosci. 2011 Apr. 46(4):762-9.

The conserved factor DE-ETIOLATED 1 cooperates with CUL4-DDB1DDB2 to maintain genome integrity upon UV stress.
Castells E, Molinier J, Benvenuto G, Bourbousse C, Zabulon G, Zalc A, Cazzaniga S, Genschik P, Barneche F, Bowler C
EMBO J. 2011 Mar 16. 30(6):1162-72.

Dok4 is involved in Schwann cell myelination and axonal interaction in vitro.
Blugeon C, Le Crom S, Richard L, Vallat JM, Charnay P, Decker L
Glia. 2011 Mar. 59(3):351-62.

Barhl2 limits growth of the diencephalic primordium through Caspase3 inhibition of beta-catenin activation.
Juraver‑Geslin HA, Ausseil JJ, Wassef M, Durand BC
Proc Natl Acad Sci U S A. 2011 Feb 8. 108(6):2288-93.

A single immunoglobulin-domain protein required for clustering acetylcholine receptors in C. elegans.
Rapti G, Richmond J, Bessereau JL
EMBO J. 2011 Feb 16. 30(4):706-18.

Functional specialization of Piwi proteins in Paramecium tetraurelia from post-transcriptional gene silencing to genome remodelling.
Bouhouche K, Gout JF, Kapusta A, Bétermier M, Meyer E
Nucleic Acids Res. 2011 May. 39(10):4249-64.

Screening for genes that wire the cerebral cortex.
Lokmane L, Garel S
BMC Biol. 2011 Jan 7. 9:1.

Heat shock cognate protein 70 regulates gephyrin clustering.
Machado P, Rostaing P, Guigonis JM, Renner M, Dumoulin A, Samson M, Vannier C, Triller A
J Neurosci. 2011 Jan 5. 31(1):3-14.

Krox20 inactivation in the PNS leads to CNS/PNS boundary transgression by central glia.
Coulpier F, Decker L, Funalot B, Vallat JM, Garcia‑Bragado F, Charnay P, Topilko P
Rev Neurol (Paris). 2011 Jan. 167(1):51-6.

Diffusion laws in dendritic spines.
Holcman D, Schuss Z
J Math Neurosci. 2011 Oct 27. 1(1):10.

Hindbrain patterning requires fine-tuning of early krox20 transcription by Sprouty 4.
Labalette C, Bouchoucha YX, Wassef MA, Gongal PA, Le Men J, Becker T, Gilardi‑Hebenstreit P, Charnay P
Development. 2011 Jan. 138(2):317-26.

Stochastic modeling of gene activation and applications to cell regulation.
Malherbe G, Holcman D
J Theor Biol. 2011 Feb 21. 271(1):51-63.

Functional evidence for a twisted conformation of the NMDA receptor GluN2A subunit N-terminal domain.
Stroebel D, Carvalho S, Paoletti P
Neuropharmacology. 2011 Jan. 60(1):151-8.

Evolution and metabolic significance of the urea cycle in photosynthetic diatoms.
Allen AE, Dupont CL, Oborník M, Horák A, Nunes‑Nesi A, McCrow JP, Zheng H, Johnson DA, Hu H, Fernie AR, Bowler C
Nature. 2011 May 12. 473(7346):203-7.

Mobility in geometrically confined membranes.
Domanov YA, Aimon S, Toombes GE, Renner M, Quemeneur F, Triller A, Turner MS, Bassereau P
Proc Natl Acad Sci U S A. 2011 Aug 2. 108(31):12605-10.

Formation and stability of synaptic receptor domains.
Haselwandter CA, Calamai M, Kardar M, Triller A, da Silveira RA
Phys Rev Lett. 2011 Jun 10. 106(23):238104.

Super-resolution dynamic imaging of dendritic spines using a low-affinity photoconvertible actin probe.
Izeddin I, Specht CG, Lelek M, Darzacq X, Triller A, Zimmer C, Dahan M
PLoS One. 2011 Jan 17. 6(1):e15611.

Fgf signaling controls pharyngeal taste bud formation through miR-200 and Delta-Notch activity.
Kapsimali M, Kaushik AL, Gibon G, Dirian L, Ernest S, Rosa FM
Development. 2011 Aug. 138(16):3473-84.

A holistic approach to marine eco-systems biology.
Karsenti E, Acinas SG, Bork P, Bowler C, De Vargas C, Raes J, Sullivan M, Arendt D, Benzoni F, Claverie JM, Follows M, Gorsky G, Hingamp P, Iudicone D, Jaillon O, Kandels‑Lewis S, Krzic U, Not F, Ogata H, Pesant S, Reynaud EG, Sardet C, Sieracki ME, Speich S, Velayoudon D, Weissenbach J, Wincker P
PLoS Biol. 2011 Oct. 9(10):e1001177.

Labeling neuronal membrane receptors with quantum dots.
Lévi S, Dahan M, Triller A
Cold Spring Harb Protoc. 2011 Mar 1. 2011(3):prot5580.

Stemming epigenetics in marine stramenopiles.
Maumus F, Rabinowicz P, Bowler C, Rivarola M
Curr Genomics. 2011 Aug. 12(5):357-70.

Stage-specific biomass overcompensation by juveniles in response to increased adult mortality in a wild fish population.
Ohlberger J, Langangen Ø, Edeline E, Claessen D, Winfield IJ, Stenseth NC, Vøllestad LA
Ecology. 2011 Dec. 92(12):2175-82.

From the stochasticity of molecular processes to the variability of synaptic transmission.
Ribrault C, Sekimoto K, Triller A
Nat Rev Neurosci. 2011 Jun 20. 12(7):375-87.

GABA(A) Receptors : Post-Synaptic Co-Localization and Cross-Talk with Other Receptors.
Shrivastava AN, Triller A, Sieghart W
Front Cell Neurosci. 2011. 5:7.

Regulation of GABA(A) receptor dynamics by interaction with purinergic P2X(2) receptors.
Shrivastava AN, Triller A, Sieghart W, Sarto‑Jackson I
J Biol Chem. 2011 Apr 22. 286(16):14455-68.

Ultrastructural organization of presynaptic terminals.
Siksou L, Triller A, Marty S
Curr Opin Neurobiol. 2011 Apr. 21(2):261-8.

Assessing the localization of centrosomal proteins by PALM/STORM nanoscopy.
Sillibourne JE, Specht CG, Izeddin I, Hurbain I, Tran P, Triller A, Darzacq X, Dahan M, Bornens M
Cytoskeleton (Hoboken). 2011 Nov. 68(11):619-27.

A lateral belt of cortical LGN and NuMA guides mitotic spindle movements and planar division in neuroepithelial cells.
Peyre E, Jaouen F, Saadaoui M, Haren L, Merdes A, Durbec P, Morin X
J Cell Biol. 2011 Apr 4. 193(1):141-54.

Specific and integrated roles of Lmx1a, Lmx1b and Phox2a in ventral midbrain development.
Deng Q, Andersson E, Hedlund E, Alekseenko Z, Coppola E, Panman L, Millonig JH, Brunet JF, Ericson J, Perlmann T
Development. 2011 Aug. 138(16):3399-408.

Molecular mechanisms for the RNA-dependent ATPase activity of Upf1 and its regulation by Upf2.
Chakrabarti S, Jayachandran U, Bonneau F, Fiorini F, Basquin C, Domcke S, Le Hir H, Conti E
Mol Cell. 2011 Mar 18. 41(6):693-703.

Replication-associated mutational asymmetry in the human genome.
Chen CL, Duquenne L, Audit B, Guilbaud G, Rappailles A, Baker A, Huvet M, d’Aubenton‑Carafa Y, Hyrien O, Arneodo A, Thermes C
Mol Biol Evol. 2011 Aug. 28(8):2327-37.

Physiological and toxic effects of purine intermediate 5-amino-4-imidazolecarboxamide ribonucleotide (AICAR) in yeast.
Hürlimann HC, Laloo B, Simon‑Kayser B, Saint‑Marc C, Coulpier F, Lemoine S, Daignan‑Fornier B, Pinson B
J Biol Chem. 2011 Sep 2. 286(35):30994-1002.

Ploidy influences cellular responses to gross chromosomal rearrangements in Saccharomyces cerevisiae.
Jung PP, Fritsch ES, Blugeon C, Souciet JL, Potier S, Lemoine S, Schacherer J, de Montigny J
BMC Genomics. 2011 Jun 28. 12:331.

Boundary cap cells are peripheral nervous system stem cells that can be redirected into central nervous system lineages.
Zujovic V, Thibaud J, Bachelin C, Vidal M, Deboux C, Coulpier F, Stadler N, Charnay P, Topilko P, Baron‑Van Evercooren A
Proc Natl Acad Sci U S A. 2011 Jun 28. 108(26):10714-9.

The CRE1 carbon catabolite repressor of the fungus Trichoderma reesei : a master regulator of carbon assimilation.
Portnoy T, Margeot A, Linke R, Atanasova L, Fekete E, Sándor E, Hartl L, Karaffa L, Druzhinina IS, Seiboth B, Le Crom S, Kubicek CP
BMC Genomics. 2011 May 27. 12:269.

Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma.
Kubicek CP, Herrera‑Estrella A, Seidl‑Seiboth V, Martinez DA, Druzhinina IS, Thon M, Zeilinger S, Casas‑Flores S, Horwitz BA, Mukherjee PK, Mukherjee M, Kredics L, Alcaraz LD, Aerts A, Antal Z, Atanasova L, Cervantes‑Badillo MG, Challacombe J, Chertkov O, McCluskey K, Coulpier F, Deshpande N, von Döhren H, Ebbole DJ, Esquivel‑Naranjo EU, Fekete E, Flipphi M, Glaser F, Gómez‑Rodríguez EY, Gruber S, Han C, Henrissat B, Hermosa R, Hernández‑Oñate M, Karaffa L, Kosti I, Le Crom S, Lindquist E, Lucas S, Lübeck M, Lübeck PS, Margeot A, Metz B, Misra M, Nevalainen H, Omann M, Packer N, Perrone G, Uresti‑Rivera EE, Salamov A, Schmoll M, Seiboth B, Shapiro H, Sukno S, Tamayo‑Ramos JA, Tisch D, Wiest A, Wilkinson HH, Zhang M, Coutinho PM, Kenerley CM, Monte E, Baker SE, Grigoriev IV
Genome Biol. 2011. 12(4):R40.

Secreted amyloid precursor protein β and secreted amyloid precursor protein α induce axon outgrowth in vitro through Egr1 signaling pathway.
Chasseigneaux S, Dinc L, Rose C, Chabret C, Coulpier F, Topilko P, Mauger G, Allinquant B
PLoS One. 2011 Jan 27. 6(1):e16301.

Differential regulation of the cellulase transcription factors XYR1, ACE2, and ACE1 in Trichoderma reesei strains producing high and low levels of cellulase.
Portnoy T, Margeot A, Seidl‑Seiboth V, Le Crom S, Ben Chaabane F, Linke R, Seiboth B, Kubicek CP
Eukaryot Cell. 2011 Feb. 10(2):262-71.


2012

Encounter dynamics of a small target by a polymer diffusing in a confined domain.
Amitai A, Amoruso C, Ziskind A, Holcman D
J Chem Phys. 2012 Dec 28. 137(24):244906.

Protocol : Chromatin immunoprecipitation (ChIP) methodology to investigate histone modifications in two model diatom species.
Lin X, Tirichine L, Bowler C
Plant Methods. 2012 Dec 7. 8(1):48.

CLIP-seq of eIF4AIII reveals transcriptome-wide mapping of the human exon junction complex.
Saulière J, Murigneux V, Wang Z, Marquenet E, Barbosa I, Le Tonquèze O, Audic Y, Paillard L, Roest Crollius H, Le Hir H
Nat Struct Mol Biol. 2012 Nov. 19(11):1124-31.

Measuring aberrations in the rat brain by coherence-gated wavefront sensing using a Linnik interferometer.
Wang J, Léger JF, Binding J, Boccara AC, Gigan S, Bourdieu L
Biomed Opt Express. 2012 Oct 1. 3(10):2510-25.

Analysis of human samples reveals impaired SHH-dependent cerebellar development in Joubert syndrome/Meckel syndrome.
Aguilar A, Meunier A, Strehl L, Martinovic J, Bonniere M, Attie‑Bitach T, Encha‑Razavi F, Spassky N
Proc Natl Acad Sci U S A. 2012 Oct 16. 109(42):16951-6.

Human CWC22 escorts the helicase eIF4AIII to spliceosomes and promotes exon junction complex assembly.
Barbosa I, Haque N, Fiorini F, Barrandon C, Tomasetto C, Blanchette M, Le Hir H
Nat Struct Mol Biol. 2012 Oct. 19(10):983-90.

Evolution in developmental phenotype space.
Félix MA
Curr Opin Genet Dev. 2012 Dec. 22(6):593-9.

Positive modulation of a Cys-loop acetylcholine receptor by an auxiliary transmembrane subunit.
Boulin T, Rapti G, Briseño‑Roa L, Stigloher C, Richmond JE, Paoletti P, Bessereau JL
Nat Neurosci. 2012 Oct. 15(10):1374-81.

Diffusion barriers constrain receptors at synapses.
Renner M, Schweizer C, Bannai H, Triller A, Lévi S
PLoS One. 2012. 7(8):e43032.

Histone H2B monoubiquitination facilitates the rapid modulation of gene expression during Arabidopsis photomorphogenesis.
Bourbousse C, Ahmed I, Roudier F, Zabulon G, Blondet E, Balzergue S, Colot V, Bowler C, Barneche F
PLoS Genet. 2012. 8(7):e1002825.

Biochemical characterization of the RNA helicase UPF1 involved in nonsense-mediated mRNA decay.
Fiorini F, Bonneau F, Le Hir H
Methods Enzymol. 2012. 511:255-74.

Astrocyte-neuron communication : functional consequences.
Ben Achour S, Pascual O
Neurochem Res. 2012 Nov. 37(11):2464-73.

Integration of H-2Z1, a somatosensory cortex-expressed transgene, interferes with the expression of the Satb1 and Tbc1d5 flanking genes and affects the differentiation of a subset of cortical interneurons.
Narboux‑Nême N, Goïame R, Mattéi MG, Cohen‑Tannoudji M, Wassef M
J Neurosci. 2012 May 23. 32(21):7287-300.

NMDA receptors with incomplete Mg²⁺ block enable low-frequency transmission through the cerebellar cortex.
Schwartz EJ, Rothman JS, Dugué GP, Diana M, Rousseau C, Silver RA, Dieudonné S
J Neurosci. 2012 May 16. 32(20):6878-93.

An alternating GluN1-2-1-2 subunit arrangement in mature NMDA receptors.
Riou M, Stroebel D, Edwardson JM, Paoletti P
PLoS One. 2012. 7(4):e35134.

Eoulsan : a cloud computing-based framework facilitating high throughput sequencing analyses.
Jourdren L, Bernard M, Dillies MA, Le Crom S
Bioinformatics. 2012 Jun 1. 28(11):1542-3.

Phox2b expression in the taste centers of fish.
Coppola E, D’autréaux F, Nomaksteinsky M, Brunet JF
J Comp Neurol. 2012 Nov 1. 520(16):3633-49.

Mixed inhibitory synaptic balance correlates with glutamatergic synaptic phenotype in cerebellar unipolar brush cells.
Rousseau CV, Dugué GP, Dumoulin A, Mugnaini E, Dieudonné S, Diana MA
J Neurosci. 2012 Mar 28. 32(13):4632-44.

Iron utilization in marine cyanobacteria and eukaryotic algae.
Morrissey J, Bowler C
Front Microbiol. 2012. 3:43.

Modeling the step of endosomal escape during cell infection by a nonenveloped virus.
Lagache T, Danos O, Holcman D
Biophys J. 2012 Mar 7. 102(5):980-9.

Brownian needle in dire straits : stochastic motion of a rod in very confined narrow domains.
Holcman D, Schuss Z
Phys Rev E Stat Nonlin Soft Matter Phys. 2012 Jan. 85(1 Pt 1):010103.

Cthrc1 is a negative regulator of myelination in Schwann cells.
Apra C, Richard L, Coulpier F, Blugeon C, Gilardi‑Hebenstreit P, Vallat JM, Lindner V, Charnay P, Decker L
Glia. 2012 Mar. 60(3):393-403.

Intra-nuclear mobility and target search mechanisms of transcription factors : a single-molecule perspective on gene expression.
Normanno D, Dahan M, Darzacq X
Biochim Biophys Acta. 2012 Jun. 1819(6):482-93.

Robustness and flexibility in nematode vulva development.
Félix MA, Barkoulas M
Trends Genet. 2012 Apr. 28(4):185-95.

Chloroplast-mitochondria cross-talk in diatoms.
Prihoda J, Tanaka A, de Paula WB, Allen JF, Tirichine L, Bowler C
J Exp Bot. 2012 Feb. 63(4):1543-57.

Using default constraints of the spindle assembly checkpoint to estimate the associated chemical rates.
Dao Duc K, Holcman D
BMC Biophys. 2012 Jan 19. 5:1.

From genes to function : the C. elegans genetic toolbox.
Boulin T, Hobert O
Wiley Interdiscip Rev Dev Biol. 2012 Jan-Feb. 1(1):114-37.

Microglia activation triggers astrocyte-mediated modulation of excitatory neurotransmission.
Pascual O, Ben Achour S, Rostaing P, Triller A, Bessis A
Proc Natl Acad Sci U S A. 2012 Jan 24. 109(4):E197-205.

Tetrode recordings in the cerebellar cortex.
Gao H, Solages Cd, Lena C
J Physiol Paris. 2012 May-Aug. 106(3-4):128-36.

Evolution and functional diversification of fructose bisphosphate aldolase genes in photosynthetic marine diatoms.
Allen AE, Moustafa A, Montsant A, Eckert A, Kroth PG, Bowler C
Mol Biol Evol. 2012 Jan. 29(1):367-79.

In vitro effect of malachite green on Candida albicans involves multiple pathways and transcriptional regulators UPC2 and STP2.
Dhamgaye S, Devaux F, Manoharlal R, Vandeputte P, Shah AH, Singh A, Blugeon C, Sanglard D, Prasad R
Antimicrob Agents Chemother. 2012 Jan. 56(1):495-506.

Do replication forks control late origin firing in Saccharomyces cerevisiae ?
Ma E, Hyrien O, Goldar A
Nucleic Acids Res. 2012 Mar. 40(5):2010-9.

Detection and quantification through a lipid membrane using the molecularly controlled semiconductor resistor.
Bavli D, Tkachev M, Piwonski H, Capua E, de Albuquerque I, Bensimon D, Haran G, Naaman R
Langmuir. 2012 Jan 10. 28(1):1020-8.

Engrailed homeoprotein recruits the adenosine A1 receptor to potentiate ephrin A5 function in retinal growth cones.
Stettler O, Joshi RL, Wizenmann A, Reingruber J, Holcman D, Bouillot C, Castagner F, Prochiantz A, Moya KL
Development. 2012 Jan. 139(1):215-24.

Confocal microscopy imaging of NR2B-containing NMDA receptors based on fluorescent ifenprodil-like conjugates.
Marchand P, Becerril‑Ortega J, Mony L, Bouteiller C, Paoletti P, Nicole O, Barré L, Buisson A, Perrio C
Bioconjug Chem. 2012 Jan 18. 23(1):21-6.

RSAT peak-motifs : motif analysis in full-size ChIP-seq datasets.
Thomas‑Chollier M, Herrmann C, Defrance M, Sand O, Thieffry D, van Helden J
Nucleic Acids Res. 2012 Feb. 40(4):e31.

Evolution of host life-history traits in a spatially structured host-parasite system.
Débarre F, Lion S, van Baalen M, Gandon S
Am Nat. 2012 Jan. 179(1):52-63.

Single-molecule studies using magnetic traps.
Lionnet T, Allemand JF, Revyakin A, Strick TR, Saleh OA, Bensimon D, Croquette V
Cold Spring Harb Protoc. 2012 Jan 1. 2012(1):34-49.

Magnetic trap construction.
Lionnet T, Allemand JF, Revyakin A, Strick TR, Saleh OA, Bensimon D, Croquette V
Cold Spring Harb Protoc. 2012 Jan 1. 2012(1):133-8.

Proteins associated with the exon junction complex also control the alternative splicing of apoptotic regulators.
Michelle L, Cloutier A, Toutant J, Shkreta L, Thibault P, Durand M, Garneau D, Gendron D, Lapointe E, Couture S, Le Hir H, Klinck R, Elela SA, Prinos P, Chabot B
Mol Cell Biol. 2012 Mar. 32(5):954-67.

Mechanism of proton/substrate coupling in the heptahelical lysosomal transporter cystinosin.
Ruivo R, Bellenchi GC, Chen X, Zifarelli G, Sagné C, Debacker C, Pusch M, Supplisson S, Gasnier B
Proc Natl Acad Sci U S A. 2012 Jan 31. 109(5):E210-7.

Synaptic neurotransmitter-gated receptors.
Smart TG, Paoletti P
Cold Spring Harb Perspect Biol. 2012 Mar 1. 4(3).

Role of pleiotropy in the evolution of a cryptic developmental variation in Caenorhabditis elegans.
Duveau F, Félix MA
PLoS Biol. 2012 Jan. 10(1):e1001230.

Evolution of susceptibility to ingested double-stranded RNAs in Caenorhabditis nematodes.
Nuez I, Félix MA
PLoS One. 2012. 7(1):e29811.

Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity.
Andersen EC, Gerke JP, Shapiro JA, Crissman JR, Ghosh R, Bloom JS, Félix MA, Kruglyak L
Nat Genet. 2012 Jan 29. 44(3):285-90.

Life histories have a history : effects of past and present conditions on adult somatic growth rates in wild Trinidadian guppies.
Auer SK, Lopez‑Sepulcre A, Heatherly T 2nd, Kohler TJ, Bassar RD, Thomas SA, Reznick DN
J Anim Ecol. 2012 Jul. 81(4):818-26.

Wavelet analysis for single molecule localization microscopy.
Izeddin I, Boulanger J, Racine V, Specht CG, Kechkar A, Nair D, Triller A, Choquet D, Dahan M, Sibarita JB
Opt Express. 2012 Jan 30. 20(3):2081-95.

Establishment of myelinating Schwann cells and barrier integrity between central and peripheral nervous systems depend on Sox10.
Fröb F, Bremer M, Finzsch M, Kichko T, Reeh P, Tamm ER, Charnay P, Wegner M
Glia. 2012 May. 60(5):806-19.

ATP-independent cooperative binding of yeast Isw1a to bare and nucleosomal DNA.
De Cian A, Praly E, Ding F, Singh V, Lavelle C, Le Cam E, Croquette V, Piétrement O, Bensimon D
PLoS One. 2012. 7(2):e31845.

Phylogenetic reconstruction and shell evolution of the Diplommatinidae (Gastropoda : Caenogastropoda).
Webster NB, Van Dooren TJ, Schilthuizen M
Mol Phylogenet Evol. 2012 Jun. 63(3):625-38.

Adaptation of granule cell to Purkinje cell synapses to high-frequency transmission.
Valera AM, Doussau F, Poulain B, Barbour B, Isope P
J Neurosci. 2012 Feb 29. 32(9):3267-80.

Tye7 regulates yeast Ty1 retrotransposon sense and antisense transcription in response to adenylic nucleotides stress.
Servant G, Pinson B, Tchalikian‑Cosson A, Coulpier F, Lemoine S, Pennetier C, Bridier‑Nahmias A, Todeschini AL, Fayol H, Daignan‑Fornier B, Lesage P
Nucleic Acids Res. 2012 Jul. 40(12):5271-82.

Predation-associated differences in sex linkage of wild guppy coloration.
Gordon SP, López‑Sepulcre A, Reznick DN
Evolution. 2012 Mar. 66(3):912-8.

The structure of the ASAP core complex reveals the existence of a Pinin-containing PSAP complex.
Murachelli AG, Ebert J, Basquin C, Le Hir H, Conti E
Nat Struct Mol Biol. 2012 Mar 4. 19(4):378-86.

Single-molecule mechanical identification and sequencing.
Ding F, Manosas M, Spiering MM, Benkovic SJ, Bensimon D, Allemand JF, Croquette V
Nat Methods. 2012 Mar 11. 9(4):367-72.

PSF shaping using adaptive optics for three-dimensional single-molecule super-resolution imaging and tracking.
Izeddin I, El Beheiry M, Andilla J, Ciepielewski D, Darzacq X, Dahan M
Opt Express. 2012 Feb 27. 20(5):4957-67.

Perispeckles are major assembly sites for the exon junction core complex.
Daguenet E, Baguet A, Degot S, Schmidt U, Alpy F, Wendling C, Spiegelhalter C, Kessler P, Rio MC, Le Hir H, Bertrand E, Tomasetto C
Mol Biol Cell. 2012 May. 23(9):1765-82.

Long-term species, sexual and individual variations in foraging strategies of fur seals revealed by stable isotopes in whiskers.
Kernaléguen L, Cazelles B, Arnould JP, Richard P, Guinet C, Cherel Y
PLoS One. 2012. 7(3):e32916.

Mechanism of strand displacement synthesis by DNA replicative polymerases.
Manosas M, Spiering MM, Ding F, Bensimon D, Allemand JF, Benkovic SJ, Croquette V
Nucleic Acids Res. 2012 Jul. 40(13):6174-86.

Leveraging metabolomics for functional investigations in sequenced marine diatoms.
Fernie AR, Obata T, Allen AE, Araújo WL, Bowler C
Trends Plant Sci. 2012 Jul. 17(7):395-403.

Replication fork polarity gradients revealed by megabase-sized U-shaped replication timing domains in human cell lines.
Baker A, Audit B, Chen CL, Moindrot B, Leleu A, Guilbaud G, Rappailles A, Vaillant C, Goldar A, Mongelard F, d’Aubenton‑Carafa Y, Hyrien O, Thermes C, Arneodo A
PLoS Comput Biol. 2012. 8(4):e1002443.

Homozygous deletion of an EGR2 enhancer in congenital amyelinating neuropathy.
Funalot B, Topilko P, Arroyo MA, Sefiani A, Hedley‑Whyte ET, Yoldi ME, Richard L, Touraille E, Laurichesse M, Khalifa E, Chauzeix J, Ouedraogo A, Cros D, Magdelaine C, Sturtz FG, Urtizberea JA, Charnay P, Bragado FG, Vallat JM
Ann Neurol. 2012 May. 71(5):719-23.

The human T-lymphotropic virus type 1 tax protein inhibits nonsense-mediated mRNA decay by interacting with INT6/EIF3E and UPF1.
Mocquet V, Neusiedler J, Rende F, Cluet D, Robin JP, Terme JM, Duc Dodon M, Wittmann J, Morris C, Le Hir H, Ciminale V, Jalinot P
J Virol. 2012 Jul. 86(14):7530-43.

Synaptic structure and function.
Triller A, Sheng M
Curr Opin Neurobiol. 2012 Jun. 22(3):363-5.

Allosteric inhibition of individual enzyme molecules trapped in lipid vesicles.
Piwonski HM, Goomanovsky M, Bensimon D, Horovitz A, Haran G
Proc Natl Acad Sci U S A. 2012 May 29. 109(22):E1437-43.

Gephyrin-independent GABA(A)R mobility and clustering during plasticity.
Niwa F, Bannai H, Arizono M, Fukatsu K, Triller A, Mikoshiba K
PLoS One. 2012. 7(4):e36148.

Identification of Chinese plague foci from long-term epidemiological data.
Ben‑Ari T, Neerinckx S, Agier L, Cazelles B, Xu L, Zhang Z, Fang X, Wang S, Liu Q, Stenseth NC
Proc Natl Acad Sci U S A. 2012 May 22. 109(21):8196-201.

The fundamental role of competition in the ecology and evolution of mutualisms.
Jones EI, Bronstein JL, Ferrière R
Ann N Y Acad Sci. 2012 May. 1256:66-88.

Characterisation of alleles of tomato light signalling genes generated by TILLING.
Jones MO, Piron‑Prunier F, Marcel F, Piednoir‑Barbeau E, Alsadon AA, Wahb‑Allah MA, Al‑Doss AA, Bowler C, Bramley PM, Fraser PD, Bendahmane A
Phytochemistry. 2012 Jul. 79:78-86.

miR-9 controls the timing of neurogenesis through the direct inhibition of antagonistic factors.
Coolen M, Thieffry D, Drivenes Ø, Becker TS, Bally‑Cuif L
Dev Cell. 2012 May 15. 22(5):1052-64.

Evolution of neutral and flowering genes along pearl millet (Pennisetum glaucum) domestication.
Lakis G, Navascués M, Rekima S, Simon M, Remigereau MS, Leveugle M, Takvorian N, Lamy F, Depaulis F, Robert T
PLoS One. 2012. 7(5):e36642.

Mutations in the GlyT2 gene (SLC6A5) are a second major cause of startle disease.
Carta E, Chung SK, James VM, Robinson A, Gill JL, Remy N, Vanbellinghen JF, Drew CJ, Cagdas S, Cameron D, Cowan FM, Del Toro M, Graham GE, Manzur AY, Masri A, Rivera S, Scalais E, Shiang R, Sinclair K, Stuart CA, Tijssen MA, Wise G, Zuberi SM, Harvey K, Pearce BR, Topf M, Thomas RH, Supplisson S, Rees MI, Harvey RJ
J Biol Chem. 2012 Aug 17. 287(34):28975-85.

Central antihypertensive effects of orally active aminopeptidase A inhibitors in spontaneously hypertensive rats.
Marc Y, Gao J, Balavoine F, Michaud A, Roques BP, Llorens‑Cortes C
Hypertension. 2012 Aug. 60(2):411-8.

Apelin and vasopressin : two work better than one.
Llorens‑Cortes C, Moos F
J Neuroendocrinol. 2012 Jul. 24(7):1085-6.

Population dynamics and habitat sharing of natural populations of Caenorhabditis elegans and C. briggsae.
Félix MA, Duveau F
BMC Biol. 2012 Jun 25. 10:59.

Direct and indirect ecosystem effects of evolutionary adaptation in the Trinidadian guppy (Poecilia reticulata).
Bassar RD, Ferriere R, López‑Sepulcre A, Marshall MC, Travis J, Pringle CM, Reznick DN
Am Nat. 2012 Aug. 180(2):167-85.

Multicolor two-photon tissue imaging by wavelength mixing.
Mahou P, Zimmerley M, Loulier K, Matho KS, Labroille G, Morin X, Supatto W, Livet J, Débarre D, Beaurepaire E
Nat Methods. 2012 Jul 8. 9(8):815-8.

Transmission multigénérationnelle de l’interférence à l’ARN chez le nématode Caenorhabditis elegans.
Bélicard T, Félix MA
Med Sci (Paris). 2012 Jun-Jul. 28(6-7):574-7.

Calcium rubies : a family of red-emitting functionalizable indicators suitable for two-photon Ca2+ imaging.
Collot M, Loukou C, Yakovlev AV, Wilms CD, Li D, Evrard A, Zamaleeva A, Bourdieu L, Léger JF, Ropert N, Eilers J, Oheim M, Feltz A, Mallet JM
J Am Chem Soc. 2012 Sep 12. 134(36):14923-31.

Monogalactopyranosides of fluorescein and fluorescein methyl ester : synthesis, enzymatic hydrolysis by biotnylated β-galactosidase, and determination of translational diffusion coefficient.
Mandal PK, Cattiaux L, Bensimon D, Mallet JM
Carbohydr Res. 2012 Sep 1. 358:40-6.

A complete workflow for the analysis of full-size ChIP-seq (and similar) data sets using peak-motifs.
Thomas‑Chollier M, Darbo E, Herrmann C, Defrance M, Thieffry D, van Helden J
Nat Protoc. 2012 Jul 26. 7(8):1551-68.

Monitoring microbial population dynamics at low densities.
Julou T, Desprat N, Bensimon D, Croquette V
Rev Sci Instrum. 2012 Jul. 83(7):074301.

Spatiotemporal manipulation of retinoic acid activity in zebrafish hindbrain development via photo-isomerization.
Xu L, Feng Z, Sinha D, Ducos B, Ebenstein Y, Tadmor AD, Gauron C, Le Saux T, Lin S, Weiss S, Vriz S, Jullien L, Bensimon D
Development. 2012 Sep. 139(18):3355-62.

RNA sequencing revealed novel actors of the acquisition of drug resistance in Candida albicans.
Dhamgaye S, Bernard M, Lelandais G, Sismeiro O, Lemoine S, Coppée JY, Le Crom S, Prasad R, Devaux F
BMC Genomics. 2012 Aug 16. 13:396.

Autonomic neurocristopathy-associated mutations in PHOX2B dysregulate Sox10 expression.
Nagashimada M, Ohta H, Li C, Nakao K, Uesaka T, Brunet JF, Amiel J, Trochet D, Wakayama T, Enomoto H
J Clin Invest. 2012 Sep. 122(9):3145-58.

NERD, a plant-specific GW protein, defines an additional RNAi-dependent chromatin-based pathway in Arabidopsis.
Pontier D, Picart C, Roudier F, Garcia D, Lahmy S, Azevedo J, Alart E, Laudié M, Karlowski WM, Cooke R, Colot V, Voinnet O, Lagrange T
Mol Cell. 2012 Oct 12. 48(1):121-32.

Eco-evolutionary community dynamics : covariation between diversity and invasibility across temperature gradients.
Stegen JC, Enquist BJ, Ferrière R
Am Nat. 2012 Oct. 180(4):E110-26.

MeDIP-HMM : genome-wide identification of distinct DNA methylation states from high-density tiling arrays.
Seifert M, Cortijo S, Colomé‑Tatché M, Johannes F, Roudier F, Colot V
Bioinformatics. 2012 Nov 15. 28(22):2930-9.

Computation of the mean first-encounter time between the ends of a polymer chain.
Amitai A, Kupka I, Holcman D
Phys Rev Lett. 2012 Sep 7. 109(10):108302.

Collective mesendoderm migration relies on an intrinsic directionality signal transmitted through cell contacts.
Dumortier JG, Martin S, Meyer D, Rosa FM, David NB
Proc Natl Acad Sci U S A. 2012 Oct 16. 109(42):16945-50.

Heterogeneity of AMPA receptor trafficking and molecular interactions revealed by superresolution analysis of live cell imaging.
Hoze N, Nair D, Hosy E, Sieben C, Manley S, Herrmann A, Sibarita JB, Choquet D, Holcman D
Proc Natl Acad Sci U S A. 2012 Oct 16. 109(42):17052-7.

ncPRO-seq : a tool for annotation and profiling of ncRNAs in sRNA-seq data.
Chen CJ, Servant N, Toedling J, Sarazin A, Marchais A, Duvernois‑Berthet E, Cognat V, Colot V, Voinnet O, Heard E, Ciaudo C, Barillot E
Bioinformatics. 2012 Dec 1. 28(23):3147-9.

Epialleles in plant evolution.
Weigel D, Colot V
Genome Biol. 2012 Oct 11. 13(10):249.

The Paramecium germline genome provides a niche for intragenic parasitic DNA : evolutionary dynamics of internal eliminated sequences.
Arnaiz O, Mathy N, Baudry C, Malinsky S, Aury JM, Denby Wilkes C, Garnier O, Labadie K, Lauderdale BE, Le Mouël A, Marmignon A, Nowacki M, Poulain J, Prajer M, Wincker P, Meyer E, Duharcourt S, Duret L, Bétermier M, Sperling L
PLoS Genet. 2012. 8(10):e1002984.

New partners in regulation of gene expression : the enhancer of Trithorax and Polycomb Corto interacts with methylated ribosomal protein l12 via its chromodomain.
Coléno‑Costes A, Jang SM, de Vanssay A, Rougeot J, Bouceba T, Randsholt NB, Gibert JM, Le Crom S, Mouchel‑Vielh E, Bloyer S, Peronnet F
PLoS Genet. 2012. 8(10):e1003006.

Endoneurial fibroblast-like cells.
Richard L, Topilko P, Magy L, Decouvelaere AV, Charnay P, Funalot B, Vallat JM
J Neuropathol Exp Neurol. 2012 Nov. 71(11):938-47.

Synaptic transmission in neurological disorders dissected by a quantitative approach.
Freche D, Lee CY, Rouach N, Holcman D
Commun Integr Biol. 2012 Sep 1. 5(5):448-52.

Direct observation of stalled fork restart via fork regression in the T4 replication system.
Manosas M, Perumal SK, Croquette V, Benkovic SJ
Science. 2012 Nov 30. 338(6111):1217-20.

Caenorhabditis elegans vulval cell fate patterning.
Félix MA
Phys Biol. 2012 Aug. 9(4):045001.

An oblique view on the role of spindle orientation in vertebrate neurogenesis.
Peyre E, Morin X
Dev Growth Differ. 2012 Apr. 54(3):287-305.

Complete genome sequence of Le Blanc virus, a third Caenorhabditis nematode-infecting virus.
Franz CJ, Zhao G, Félix MA, Wang D
J Virol. 2012 Nov. 86(21):11940.

The human T-lymphotropic virus type 1 tax protein inhibits nonsense-mediated mRNA decay by interacting with INT6/EIF3E and UPF1.
Mocquet V, Neusiedler J, Rende F, Cluet D, Robin JP, Terme JM, Duc Dodon M, Wittmann J, Morris C, Le Hir H, Ciminale V, Jalinot P
J Virol. 2012 Jul. 86(14):7530-43.

Perispeckles are major assembly sites for the exon junction core complex.
Daguenet E, Baguet A, Degot S, Schmidt U, Alpy F, Wendling C, Spiegelhalter C, Kessler P, Rio MC, Le Hir H, Bertrand E, Tomasetto C
Mol Biol Cell. 2012 May. 23(9):1765-82.

The structure of the ASAP core complex reveals the existence of a Pinin-containing PSAP complex.
Murachelli AG, Ebert J, Basquin C, Le Hir H, Conti E
Nat Struct Mol Biol. 2012 Mar 4. 19(4):378-86.

Proteins associated with the exon junction complex also control the alternative splicing of apoptotic regulators.
Michelle L, Cloutier A, Toutant J, Shkreta L, Thibault P, Durand M, Garneau D, Gendron D, Lapointe E, Couture S, Le Hir H, Klinck R, Elela SA, Prinos P, Chabot B
Mol Cell Biol. 2012 Mar. 32(5):954-67.

The Transmission of Genes and Culture : A Questionable Analogy
Claidière N, André JB
Evolutionary Biology. 2012 Mar. 39(1):12-24.

Photoantenna in two cryptochrome–photolyase proteins from O. tauri : Presence, nature and ultrafast photoinduced dynamics
Brazard J, Ley C, Lacombat F, Plaza P, Mony L, Heijde M, Zabulon G, Bowler C,
Journal of Photochemistry and Photobiology A : Chemistry. 2012 Apr 15. 234:135-145.

Coagulation–fragmentation for a finite number of particles and application to telomere clustering in the yeast nucleus
Hozé N, Holcman D
Physics Letters A. 2012 Jan 30. 376(6-7):845-849.

Widespread intraspecific organismal stoichiometry among populations of the Trinidadian guppy
El‑Sabaawi RW, Zandonà E, Kohler TJ, Marshall MC, Moslemi JM, Travis J, López‑Sepulcre A, Ferriére R, Pringle CM, Thomas SA, Reznick DN, Flecker AS
Functional Ecology. 2012 Mar 12. 26(3):666-676.

Analysis of the Mean First Looping Time of a Rod-Polymer
Amitai A, Kupka I, Holcman D
Multiscale Modeling & Simulation. 2012 Jun 7. 10(2):612-632.

Brownian Motion in Dire Straits
Holcman D, Schuss Z
Multiscale Modeling & Simulation. 2012 Oct 18. 10(4):1204-1231.


2013

Neurodegeneration, neurogenesis, and oxidative stress.
Santos R, Ruiz de Almodóvar C, Bulteau AL, Gomes CM
Oxid Med Cell Longev. 2013. 2013:730581.

Computing the length of the shortest telomere in the nucleus.
Duc KD, Holcman D
Phys Rev Lett. 2013 Nov 27. 111(22):228104.

Dynamic micro-organization of P2X7 receptors revealed by PALM based single particle tracking.
Shrivastava AN, Rodriguez PC, Triller A, Renner M
Front Cell Neurosci. 2013. 7:232.

T-type channel blockade impairs long-term potentiation at the parallel fiber-Purkinje cell synapse and cerebellar learning.
Ly R, Bouvier G, Schonewille M, Arabo A, Rondi‑Reig L, Léna C, Casado M, De Zeeuw CI, Feltz A
Proc Natl Acad Sci U S A. 2013 Dec 10. 110(50):20302-7.

Integrative modelling of the influence of MAPK network on cancer cell fate decision.
Grieco L, Calzone L, Bernard‑Pierrot I, Radvanyi F, Kahn‑Perlès B, Thieffry D
PLoS Comput Biol. 2013 Oct. 9(10):e1003286.

Bioprospecting marine plankton.
Abida H, Ruchaud S, Rios L, Humeau A, Probert I, De Vargas C, Bach S, Bowler C
Mar Drugs. 2013 Nov 14. 11(11):4594-611.

Detection of single photons by toad and mouse rods.
Reingruber J, Pahlberg J, Woodruff ML, Sampath AP, Fain GL, Holcman D
Proc Natl Acad Sci U S A. 2013 Nov 26. 110(48):19378-83.

From simple bacterial and archaeal replicons to replication N/U-domains.
Hyrien O, Rappailles A, Guilbaud G, Baker A, Chen CL, Goldar A, Petryk N, Kahli M, Ma E, d’Aubenton‑Carafa Y, Audit B, Thermes C, Arneodo A
J Mol Biol. 2013 Nov 29. 425(23):4673-89.

Cytosolic transmitter concentration regulates vesicle cycling at hippocampal GABAergic terminals.
Wang L, Tu P, Bonet L, Aubrey KR, Supplisson S
Neuron. 2013 Oct 2. 80(1):143-58.

Activity-dependent regulation of the K/Cl transporter KCC2 membrane diffusion, clustering, and function in hippocampal neurons.
Chamma I, Heubl M, Chevy Q, Renner M, Moutkine I, Eugène E, Poncer JC, Lévi S
J Neurosci. 2013 Sep 25. 33(39):15488-503.

Dissection of a Krox20 positive feedback loop driving cell fate choices in hindbrain patterning.
Bouchoucha YX, Reingruber J, Labalette C, Wassef MA, Thierion E, Desmarquet‑Trin Dinh C, Holcman D, Gilardi‑Hebenstreit P, Charnay P
Mol Syst Biol. 2013. 9:690.

β-amyloid and ATP-induced diffusional trapping of astrocyte and neuronal metabotropic glutamate type-5 receptors.
Shrivastava AN, Kowalewski JM, Renner M, Bousset L, Koulakoff A, Melki R, Giaume C, Triller A
Glia. 2013 Oct. 61(10):1673-86.

Quantitative nanoscopy of inhibitory synapses : counting gephyrin molecules and receptor binding sites.
Specht CG, Izeddin I, Rodriguez PC, El Beheiry M, Rostaing P, Darzacq X, Dahan M, Triller A
Neuron. 2013 Jul 24. 79(2):308-21.

The first mecp2-null zebrafish model shows altered motor behaviors.
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Front Neural Circuits. 2013. 7:118.

DNA in motion during double-strand break repair.
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Trends Cell Biol. 2013 Nov. 23(11):529-36.

Differential control of thrombospondin over synaptic glycine and AMPA receptors in spinal cord neurons.
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J Neurosci. 2013 Jul 10. 33(28):11432-9.

Real-time dynamics of RNA polymerase II clustering in live human cells.
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Science. 2013 Aug 9. 341(6146):664-7.

Insights into the role of DNA methylation in diatoms by genome-wide profiling in Phaeodactylum tricornutum.
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Nat Commun. 2013. 4:2091.

Control of flux by narrow passages and hidden targets in cellular biology.
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Rep Prog Phys. 2013 Jul. 76(7):074601.

DNA topoisomerase IIα controls replication origin cluster licensing and firing time in Xenopus egg extracts.
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Nucleic Acids Res. 2013 Aug. 41(15):7313-31.

Egr-1 induction provides a genetic response to food aversion in zebrafish.
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Front Behav Neurosci. 2013. 7:51.

Unraveling novel features hidden in superresolution microscopy data.
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Commun Integr Biol. 2013 May 1. 6(3):e23893.

NMDA receptor subunit diversity : impact on receptor properties, synaptic plasticity and disease.
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Nat Rev Neurosci. 2013 Jun. 14(6):383-400.

Ancient origin of somatic and visceral neurons.
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BMC Biol. 2013 Apr 30. 11:53.

Sensory map transfer to the neocortex relies on pretarget ordering of thalamic axons.
Lokmane L, Proville R, Narboux‑Nême N, Györy I, Keita M, Mailhes C, Léna C, Gaspar P, Grosschedl R, Garel S
Curr Biol. 2013 May 6. 23(9):810-6.

A Phox2b ::FLPo transgenic mouse line suitable for intersectional genetics.
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Genesis. 2013 Jul. 51(7):506-14.

Functional role of the cerebellum in gamma-band synchronization of the sensory and motor cortices.
Popa D, Spolidoro M, Proville RD, Guyon N, Belliveau L, Léna C
J Neurosci. 2013 Apr 10. 33(15):6552-6.

Transcriptome-wide identification of RNA binding sites by CLIP-seq.
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Microglial control of neuronal activity.
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Front Cell Neurosci. 2013. 7:32.

EJC core component MLN51 interacts with eIF3 and activates translation.
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Proc Natl Acad Sci U S A. 2013 Apr 9. 110(15):5903-8.

Pathfinding of corticothalamic axons relies on a rendezvous with thalamic projections.
Deck M, Lokmane L, Chauvet S, Mailhes C, Keita M, Niquille M, Yoshida M, Yoshida Y, Lebrand C, Mann F, Grove EA, Garel S
Neuron. 2013 Feb 6. 77(3):472-84.

A spike of electrodiffusion reaches metabotropic receptors.
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Neuron. 2013 Feb 6. 77(3):381-4.

The transcription factor Vox represses endoderm development by interacting with Casanova and Pou2.
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Development. 2013 Mar. 140(5):1090-9.

Expanding the genetic code in Xenopus laevis oocytes.
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Chembiochem. 2013 Jan 21. 14(2):230-5.

Tight intramolecular regulation of the human Upf1 helicase by its N- and C-terminal domains.
Fiorini F, Boudvillain M, Le Hir H
Nucleic Acids Res. 2013 Feb 1. 41(4):2404-15.

CTD serine-2 plays a critical role in splicing and termination factor recruitment to RNA polymerase II in vivo.
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Nucleic Acids Res. 2013 Feb 1. 41(3):1591-603.

Genomicus : five genome browsers for comparative genomics in eukaryota.
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Nucleic Acids Res. 2013 Jan. 41(Database issue):D700-5.

Evolutionary entropy predicts the outcome of selection : Competition for resources that vary in abundance and diversity.
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Theor Popul Biol. 2013 Feb. 83:39-54.

Ablation of Egr2-positive cells in male mouse anterior pituitary leads to atypical isolated GH deficiency.
Bouchoucha YX, Charnay P, Gilardi‑Hebenstreit P
Endocrinology. 2013 Jan. 154(1):270-82.

Emerging role for RNA-based regulation in plant immunity.
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New Phytol. 2013 Jan. 197(2):394-404.

Developing a sense of taste.
Kapsimali M, Barlow LA
Semin Cell Dev Biol. 2013 Mar. 24(3):200-9.

Eco-evolutionary feedbacks, adaptive dynamics and evolutionary rescue theory.
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Philos Trans R Soc Lond B Biol Sci. 2013 Jan 19. 368(1610):20120081.

Evolutionary rescue : an emerging focus at the intersection between ecology and evolution.
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Philos Trans R Soc Lond B Biol Sci. 2013 Jan 19. 368(1610):20120404.

Fast multicolor 3D imaging using aberration-corrected multifocus microscopy.
Abrahamsson S, Chen J, Hajj B, Stallinga S, Katsov AY, Wisniewski J, Mizuguchi G, Soule P, Mueller F, Dugast Darzacq C, Darzacq X, Wu C, Bargmann CI, Agard DA, Dahan M, Gustafsson MG
Nat Methods. 2013 Jan. 10(1):60-3.

Visualization of structural changes accompanying activation of N-methyl-D-aspartate (NMDA) receptors using fast-scan atomic force microscopy imaging.
Suzuki Y, Goetze TA, Stroebel D, Balasuriya D, Yoshimura SH, Henderson RM, Paoletti P, Takeyasu K, Edwardson JM
J Biol Chem. 2013 Jan 11. 288(2):778-84.

Experimental evidence for density-dependent regulation and selection on Trinidadian guppy life histories.
Bassar RD, Lopez‑Sepulcre A, Reznick DN, Travis J
Am Nat. 2013 Jan. 181(1):25-38.

Multiscale analysis of genome-wide replication timing profiles using a wavelet-based signal-processing algorithm.
Audit B, Baker A, Chen CL, Rappailles A, Guilbaud G, Julienne H, Goldar A, d’Aubenton‑Carafa Y, Hyrien O, Thermes C, Arneodo A
Nat Protoc. 2013 Jan. 8(1):98-110.

AUREOCHROME1a-mediated induction of the diatom-specific cyclin dsCYC2 controls the onset of cell division in diatoms (Phaeodactylum tricornutum).
Huysman MJ, Fortunato AE, Matthijs M, Costa BS, Vanderhaeghen R, Van den Daele H, Sachse M, Inzé D, Bowler C, Kroth PG, Wilhelm C, Falciatore A, Vyverman W, De Veylder L
Plant Cell. 2013 Jan. 25(1):215-28.

Species richness, distribution and genetic diversity of Caenorhabditis nematodes in a remote tropical rainforest.
Félix MA, Jovelin R, Ferrari C, Han S, Cho YR, Andersen EC, Cutter AD, Braendle C
BMC Evol Biol. 2013 Jan 12. 13:10.

Robustness and epistasis in the C. elegans vulval signaling network revealed by pathway dosage modulation.
Barkoulas M, van Zon JS, Milloz J, van Oudenaarden A, Félix MA
Dev Cell. 2013 Jan 14. 24(1):64-75.

Egr-2 transcription factor is required for Blimp-1-mediated IL-10 production in IL-27-stimulated CD4+ T cells.
Iwasaki Y, Fujio K, Okamura T, Yanai A, Sumitomo S, Shoda H, Tamura T, Yoshida H, Charnay P, Yamamoto K
Eur J Immunol. 2013 Apr. 43(4):1063-73.

How to measure maturation : a comparison of probabilistic methods used to test for genotypic variation and plasticity in the decision to mature.
Harney E, Van Dooren TJ, Paterson S, Plaistow SJ
Evolution. 2013 Feb. 67(2):525-38.

Comparative transcriptomics reveals different strategies of Trichoderma mycoparasitism.
Atanasova L, Le Crom S, Gruber S, Coulpier F, Seidl‑Seiboth V, Kubicek CP, Druzhinina IS
BMC Genomics. 2013 Feb 22. 14:121.

A mutualistic approach to morality : the evolution of fairness by partner choice.
Baumard N, André JB, Sperber D
Behav Brain Sci. 2013 Feb. 36(1):59-78.

Allosteric signaling and dynamics of the clamshell-like NMDA receptor GluN1 N-terminal domain.
Zhu S, Stroebel D, Yao CA, Taly A, Paoletti P
Nat Struct Mol Biol. 2013 Apr. 20(4):477-85.

On circuit functionality in Boolean networks.
Comet JP, Noual M, Richard A, Aracena J, Calzone L, Demongeot J, Kaufman M, Naldi A, Snoussi el H, Thieffry D
Bull Math Biol. 2013 Jun. 75(6):906-19.

FISH-quant : automatic counting of transcripts in 3D FISH images.
Mueller F, Senecal A, Tantale K, Marie‑Nelly H, Ly N, Collin O, Basyuk E, Bertrand E, Darzacq X, Zimmer C
Nat Methods. 2013 Apr. 10(4):277-8.

Partner choice, fairness, and the extension of morality.
Baumard N, André JB, Sperber D
Behav Brain Sci. 2013 Feb. 36(1):102-13.

Transcriptional and epigenetic signatures of zygotic genome activation during early Drosophila embryogenesis.
Darbo E, Herrmann C, Lecuit T, Thieffry D, van Helden J
BMC Genomics. 2013 Apr 5. 14:226.

Spatial telomere organization and clustering in yeast Saccharomyces cerevisiae nucleus is generated by a random dynamics of aggregation-dissociation.
Hozé N, Ruault M, Amoruso C, Taddei A, Holcman D
Mol Biol Cell. 2013 Jun. 24(11):1791-800, S1-10.

Fast functional imaging of multiple brain regions in intact zebrafish larvae using selective plane illumination microscopy.
Panier T, Romano SA, Olive R, Pietri T, Sumbre G, Candelier R, Debrégeas G
Front Neural Circuits. 2013. 7:65.

A role for vesicular glutamate transporter 1 in synaptic vesicle clustering and mobility.
Siksou L, Silm K, Biesemann C, Nehring RB, Wojcik SM, Triller A, El Mestikawy S, Marty S, Herzog E
Eur J Neurosci. 2013 May. 37(10):1631-42.

Nuclear retention of the transcription factor NLP7 orchestrates the early response to nitrate in plants.
Marchive C, Roudier F, Castaings L, Bréhaut V, Blondet E, Colot V, Meyer C, Krapp A
Nat Commun. 2013. 4:1713.

Extensive natural epigenetic variation at a de novo originated gene.
Silveira AB, Trontin C, Cortijo S, Barau J, Del Bem LE, Loudet O, Colot V, Vincentz M
PLoS Genet. 2013 Apr. 9(4):e1003437.

The zebrafish reference genome sequence and its relationship to the human genome.
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, Threadgold G, Harden G, Ware D, Begum S, Mortimore 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, 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
Nature. 2013 Apr 25. 496(7446):498-503.

Adaptive radiation driven by the interplay of eco-evolutionary and landscape dynamics.
Aguilée R, Claessen D, Lambert A
Evolution. 2013 May. 67(5):1291-306.

Can we detect oceanic biodiversity hotspots from space ?
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ISME J. 2013 Oct. 7(10):2054-6.

Cdc45 is a critical effector of myc-dependent DNA replication stress.
Srinivasan SV, Dominguez‑Sola D, Wang LC, Hyrien O, Gautier J
Cell Rep. 2013 May 30. 3(5):1629-39.

A blue-absorbing photolabile protecting group for in vivo chromatically orthogonal photoactivation.
Fournier L, Gauron C, Xu L, Aujard I, Le Saux T, Gagey‑Eilstein N, Maurin S, Dubruille S, Baudin JB, Bensimon D, Volovitch M, Vriz S, Jullien L
ACS Chem Biol. 2013 Jul 19. 8(7):1528-36.

Gene expression is circular : factors for mRNA degradation also foster mRNA synthesis.
Haimovich G, Medina DA, Causse SZ, Garber M, Millán‑Zambrano G, Barkai O, Chávez S, Pérez‑Ortín JE, Darzacq X, Choder M
Cell. 2013 May 23. 153(5):1000-11.

Structure of an A-form RNA duplex obtained by degradation of 6S RNA in a crystallization droplet.
Kondo J, Dock‑Bregeon AC, Willkomm DK, Hartmann RK, Westhof E
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Jun. 69(Pt 6):634-9.

The length of the shortest telomere as the major determinant of the onset of replicative senescence.
Xu Z, Duc KD, Holcman D, Teixeira MT
Genetics. 2013 Aug. 194(4):847-57.

Beyond lifetime reproductive success : the posthumous reproductive dynamics of male Trinidadian guppies.
López‑Sepulcre A, Gordon SP, Paterson IG, Bentzen P, Reznick DN
Proc Biol Sci. 2013 Jul 22. 280(1763):20131116.

Atmospheric moisture variability and transmission of hemorrhagic fever with renal syndrome in Changsha City, Mainland China, 1991-2010.
Xiao H, Tian HY, Cazelles B, Li XJ, Tong SL, Gao LD, Qin JX, Lin XL, Liu HN, Zhang XX
PLoS Negl Trop Dis. 2013. 7(6):e2260.

Pan genome of the phytoplankton Emiliania underpins its global distribution.
Read BA, Kegel J, Klute MJ, Kuo A, Lefebvre SC, Maumus F, Mayer C, Miller J, Monier A, Salamov A, Young J, Aguilar M, Claverie JM, Frickenhaus S, Gonzalez K, Herman EK, Lin YC, Napier J, Ogata H, Sarno AF, Shmutz J, Schroeder D, de Vargas C, Verret F, von Dassow P, Valentin K, Van de Peer Y, Wheeler G, Dacks JB, Delwiche CF, Dyhrman ST, Glöckner G, John U, Richards T, Worden AZ, Zhang X, Grigoriev IV
Nature. 2013 Jul 11. 499(7457):209-13.

Optical control and study of biological processes at the single-cell level in a live organism.
Feng Z, Zhang W, Xu J, Gauron C, Ducos B, Vriz S, Volovitch M, Jullien L, Weiss S, Bensimon D
Rep Prog Phys. 2013 Jul. 76(7):072601.

Hyperosmotic priming of Arabidopsis seedlings establishes a long-term somatic memory accompanied by specific changes of the epigenome.
Sani E, Herzyk P, Perrella G, Colot V, Amtmann A
Genome Biol. 2013 Jun 14. 14(6):R59.

Ecological emergence of thermal clines in body size.
Edeline E, Lacroix G, Delire C, Poulet N, Legendre S
Glob Chang Biol. 2013 Oct. 19(10):3062-8.

Depletion of microglia from primary cellular cultures.
Pont‑Lezica L, Colasse S, Bessis A
Methods Mol Biol. 2013. 1041:55-61.

Proteomic analysis of the SH2 domain-containing leukocyte protein of 76 kDa (SLP76) interactome in resting and activated primary mast cells [corrected].
Bounab Y, Hesse AM, Iannascoli B, Grieco L, Couté Y, Niarakis A, Roncagalli R, Lie E, Lam KP, Demangel C, Thieffry D, Garin J, Malissen B, Daëron M
Mol Cell Proteomics. 2013 Oct. 12(10):2874-89.

Dynamical modeling and analysis of large cellular regulatory networks.
Bérenguier D, Chaouiya C, Monteiro PT, Naldi A, Remy E, Thieffry D, Tichit L
Chaos. 2013 Jun. 23(2):025114.

DAP12 and CD11b contribute to the microglial-induced death of dopaminergic neurons in vitro but not in vivo in the MPTP mouse model of Parkinson’s disease.
Kinugawa K, Monnet Y, Béchade C, Alvarez‑Fischer D, Hirsch EC, Bessis A, Hunot S
J Neuroinflammation. 2013 Jul 11. 10:82.

Reconstructing de novo silencing of an active plant retrotransposon.
Marí‑Ordóñez A, Marchais A, Etcheverry M, Martin A, Colot V, Voinnet O
Nat Genet. 2013 Sep. 45(9):1029-39.

Cell-cell contacts confine public goods diffusion inside Pseudomonas aeruginosa clonal microcolonies.
Julou T, Mora T, Guillon L, Croquette V, Schalk IJ, Bensimon D, Desprat N
Proc Natl Acad Sci U S A. 2013 Jul 30. 110(31):12577-82.

Density-dependent life history and the dynamics of small populations.
Mugabo M, Perret S, Legendre S, Le Galliard JF
J Anim Ecol. 2013 Nov. 82(6):1227-39.

Logical modelling of Drosophila signalling pathways.
Mbodj A, Junion G, Brun C, Furlong EE, Thieffry D
Mol Biosyst. 2013 Sep. 9(9):2248-58.

Granule cell ascending axon excitatory synapses onto Golgi cells implement a potent feedback circuit in the cerebellar granular layer.
Cesana E, Pietrajtis K, Bidoret C, Isope P, D’Angelo E, Dieudonné S, Forti L
J Neurosci. 2013 Jul 24. 33(30):12430-46.

Rapid and sustained autologous neutralizing response leading to early spontaneous recovery after HCV infection.
Esteban‑Riesco L, Depaulis F, Moreau A, Bacq Y, Dubois F, Goudeau A, Gaudy‑Graffin C
Virology. 2013 Sep. 444(1-2):90-9.

Tubulin glycylases and glutamylases have distinct functions in stabilization and motility of ependymal cilia.
Bosch Grau M, Gonzalez Curto G, Rocha C, Magiera MM, Marques Sousa P, Giordano T, Spassky N, Janke C
J Cell Biol. 2013 Aug 5. 202(3):441-51.

Mobilization of a plant transposon by expression of the transposon-encoded anti-silencing factor.
Fu Y, Kawabe A, Etcheverry M, Ito T, Toyoda A, Fujiyama A, Colot V, Tarutani Y, Kakutani T
EMBO J. 2013 Aug 28. 32(17):2407-17.

Evaluation of MeDIP-chip in the context of whole-genome bisulfite sequencing (WGBS-seq) in Arabidopsis.
Wardenaar R, Liu H, Colot V, Colomé‑Tatché M, Johannes F
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Monitoring tectal neuronal activities and motor behavior in zebrafish larvae.
Sumbre G, Poo MM
Cold Spring Harb Protoc. 2013 Sep 1. 2013(9):873-9.

RecG and UvsW catalyse robust DNA rewinding critical for stalled DNA replication fork rescue.
Manosas M, Perumal SK, Bianco PR, Ritort F, Benkovic SJ, Croquette V
Nat Commun. 2013. 4:2368.

Clusters of cerebellar Purkinje cells control their afferent climbing fiber discharge.
Chaumont J, Guyon N, Valera AM, Dugué GP, Popa D, Marcaggi P, Gautheron V, Reibel‑Foisset S, Dieudonné S, Stephan A, Barrot M, Cassel JC, Dupont JL, Doussau F, Poulain B, Selimi F, Léna C, Isope P
Proc Natl Acad Sci U S A. 2013 Oct 1. 110(40):16223-8.

A naturally occurring insertion of a single amino acid rewires transcriptional regulation by glucocorticoid receptor isoforms.
Thomas‑Chollier M, Watson LC, Cooper SB, Pufall MA, Liu JS, Borzym K, Vingron M, Yamamoto KR, Meijsing SH
Proc Natl Acad Sci U S A. 2013 Oct 29. 110(44):17826-31.

The dynamic synapse.
Choquet D, Triller A
Neuron. 2013 Oct 30. 80(3):691-703.

Two Leucobacter strains exert complementary virulence on Caenorhabditis including death by worm-star formation.
Hodgkin J, Félix MA, Clark LC, Stroud D, Gravato‑Nobre MJ
Curr Biol. 2013 Nov 4. 23(21):2157-61.

High-frequency promoter firing links THO complex function to heavy chromatin formation.
Mouaikel J, Causse SZ, Rougemaille M, Daubenton‑Carafa Y, Blugeon C, Lemoine S, Devaux F, Darzacq X, Libri D
Cell Rep. 2013 Nov 27. 5(4):1082-94.

Crystal structure of the human eIF4AIII-CWC22 complex shows how a DEAD-box protein is inhibited by a MIF4G domain.
Buchwald G, Schüssler S, Basquin C, Le Hir H, Conti E
Proc Natl Acad Sci U S A. 2013 Nov 26. 110(48):E4611-8.

Modeling the structure of RNA molecules with small-angle X-ray scattering data.
Gajda MJ, Martinez Zapien D, Uchikawa E, Dock‑Bregeon AC
PLoS One. 2013. 8(11):e78007.

Does homologous reinfection drive multiple-wave influenza outbreaks ? Accounting for immunodynamics in epidemiological models.
Camacho A, Cazelles B
Epidemics. 2013 Dec. 5(4):187-96.

Epigenetic diversity increases the productivity and stability of plant populations.
Latzel V, Allan E, Bortolini Silveira A, Colot V, Fischer M, Bossdorf O
Nat Commun. 2013. 4:2875.

Epigenetics of ciliates.
Chalker DL, Meyer E, Mochizuki K
Cold Spring Harb Perspect Biol. 2013 Dec 1. 5(12):a017764.

SBML qualitative models : a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools.
Chaouiya C, Bérenguier D, Keating SM, Naldi A, van Iersel MP, Rodriguez N, Dräger A, Büchel F, Cokelaer T, Kowal B, Wicks B, Gonçalves E, Dorier J, Page M, Monteiro PT, von Kamp A, Xenarios I, de Jong H, Hucka M, Klamt S, Thieffry D, Le Novère N, Saez‑Rodriguez J, Helikar T
BMC Syst Biol. 2013 Dec 10. 7:135.

Polymer model with long-range interactions : analysis and applications to the chromatin structure.
Amitai A, Holcman D
Phys Rev E Stat Nonlin Soft Matter Phys. 2013 Nov. 88(5):052604.

Biological information : why we need a good measure and the challenges ahead.
van Baalen M
Interface Focus. 2013 Dec 6. 3(6):20130030.

Diffusing polymers in confined microdomains and estimation of chromosomal territory sizes from chromosome capture data.
Amitai A, Holcman D
Phys Rev Lett. 2013 Jun 14. 110(24):248105.

Dynamics and biological relevance of DNA demethylation in Arabidopsis antibacterial defense.
Yu A, Lepère G, Jay F, Wang J, Bapaume L, Wang Y, Abraham AL, Penterman J, Fischer RL, Voinnet O, Navarro L
Proc Natl Acad Sci U S A. 2013 Feb 5. 110(6):2389-94.

Epigenetic variation creates potential for evolution of plant phenotypic plasticity.
Zhang YY, Fischer M, Colot V, Bossdorf O
New Phytol. 2013 Jan. 197(1):314-22.

A deletion polymorphism in the Caenorhabditis elegans RIG-I homolog disables viral RNA dicing and antiviral immunity.
Ashe A, Bélicard T, Le Pen J, Sarkies P, Frézal L, Lehrbach NJ, Félix MA, Miska EA
Elife. 2013 Oct 8. 2:e00994.

Crystal structure of the human eIF4AIII-CWC22 complex shows how a DEAD-box protein is inhibited by a MIF4G domain.
Buchwald G, Schüssler S, Basquin C, Le Hir H, Conti E
Proc Natl Acad Sci U S A. 2013 Nov 26. 110(48):E4611-8.

Kinetics of Diffusing Polymer Encounter in Confined Cellular Microdomains
AmitaiI A, Kupka I, Holcman D
Journal of Statistical Physics. 2013 Dec 13. 153(6):1107-1131.

Intermittent breeding and the dynamics of resource allocation to reproduction, growth and survival
Baron JP, Le Galliard JF, Ferrière R, Tully T
Functional Ecology. 2013 Jan 28. 27(1):173-183.

Physics of sinking and selection of plankton cell size
Sciascia R, De Monte S, Provenzale A
Physics Letters A. 2013 Feb 4. 377(6):467-472.

Ecological implications of eddy retention in the open ocean : a Lagrangian approach
D’Ovidio F, De Monte S, Della Penna A, Cotté C, Guinet C
Journal of Physics A : Mathematical and Theoretical. 2013 Jun 4. 46(25):254023.

Food-web aggregation, methodological and functional issues
Gauzens B, Legendre S, Lazzaro X, Lacroix G
OIKOS Synthesising Ecology. 2013 Apr 25. 122(11):1606-1615.

Reconstruction of Surface and Stochastic Dynamics from a Planar Projection of Trajectories
Hoze N, Schuss Z, Holcman D
SIAM Journal on Imaging Sciences. 2013 Dec 3. 6(4):2430-2449.


2014

Kinetic transcriptome analysis reveals an essentially intact induction system in a cellulase hyper-producer Trichoderma reesei strain.
Poggi‑Parodi D, Bidard F, Pirayre A, Portnoy T, Blugeon C, Seiboth B, Kubicek CP, Le Crom S, Margeot A
Biotechnol Biofuels. 2014. 7(1):173.

Residence times of receptors in dendritic spines analyzed by stochastic simulations in empirical domains.
Hoze N, Holcman D
Biophys J. 2014 Dec 16. 107(12):3008-17.

Controlling NMDA receptor subunit composition using ectopic retention signals.
Stroebel D, Carvalho S, Grand T, Zhu S, Paoletti P
J Neurosci. 2014 Dec 10. 34(50):16630-6.

Signaling switch of the axon guidance receptor Robo3 during vertebrate evolution.
Zelina P, Blockus H, Zagar Y, Péres A, Friocourt F, Wu Z, Rama N, Fouquet C, Hohenester E, Tessier‑Lavigne M, Schweitzer J, Roest Crollius H, Chédotal A
Neuron. 2014 Dec 17. 84(6):1258-72.

TE-Tracker : systematic identification of transposition events through whole-genome resequencing.
Gilly A, Etcheverry M, Madoui MA, Guy J, Quadrana L, Alberti A, Martin A, Heitkam T, Engelen S, Labadie K, Le Pen J, Wincker P, Colot V, Aury JM
BMC Bioinformatics. 2014 Nov 19. 15:377.

Cil primaire, cycle cellulaire et prolifération.
Delgehyr N, Spassky N
Med Sci (Paris). 2014 Nov. 30(11):976-9.

Junctional angle of a bihanded helix.
Yang J, Wolgemuth CW, Huber G
Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Oct. 90(4):042722.

Role of the DHH1 gene in the regulation of monocarboxylic acids transporters expression in Saccharomyces cerevisiae.
Mota S, Vieira N, Barbosa S, Delaveau T, Torchet C, Le Saux A, Garcia M, Pereira A, Lemoine S, Coulpier F, Darzacq X, Benard L, Casal M, Devaux F, Paiva S
PLoS One. 2014. 9(11):e111589.

Loss of Krox20 results in aortic valve regurgitation and impaired transcriptional activation of fibrillar collagen genes.
Odelin G, Faure E, Kober F, Maurel‑Zaffran C, Théron A, Coulpier F, Guillet B, Bernard M, Avierinos JF, Charnay P, Topilko P, Zaffran S
Cardiovasc Res. 2014 Dec 1. 104(3):443-55.

Interference versus exploitative competition in the regulation of size-structured populations.
Le Bourlot V, Tully T, Claessen D
Am Nat. 2014 Nov. 184(5):609-23.

Centriole amplification by mother and daughter centrioles differs in multiciliated cells.
Al Jord A, Lemaître AI, Delgehyr N, Faucourt M, Spassky N, Meunier A
Nature. 2014 Dec 4. 516(7529):104-7.

The conserved barH-like homeobox-2 gene barhl2 acts downstream of orthodentricle-2 and together with iroquois-3 in establishment of the caudal forebrain signaling center induced by Sonic Hedgehog.
Juraver‑Geslin HA, Gómez‑Skarmeta JL, Durand BC
Dev Biol. 2014 Dec 1. 396(1):107-20.

Memory maintenance in synapses with calcium-based plasticity in the presence of background activity.
Higgins D, Graupner M, Brunel N
PLoS Comput Biol. 2014 Oct. 10(10):e1003834.

Adhesion molecules from the diatom Phaeodactylum tricornutum (Bacillariophyceae) : genomic identification by amino-acid profiling and in vivo analysis.
Willis A, Eason‑Hubbard M, Hodson O, Maheswari U, Bowler C, Wetherbee R
J Phycol. 2014 Oct. 50(5):837-49.

Activity-dependent gating of calcium spikes by A-type K+ channels controls climbing fiber signaling in Purkinje cell dendrites.
Otsu Y, Marcaggi P, Feltz A, Isope P, Kollo M, Nusser Z, Mathieu B, Kano M, Tsujita M, Sakimura K, Dieudonné S
Neuron. 2014 Oct 1. 84(1):137-151.

Dlg1 controls planar spindle orientation in the neuroepithelium through direct interaction with LGN.
Saadaoui M, Machicoane M, di Pietro F, Etoc F, Echard A, Morin X
J Cell Biol. 2014 Sep 15. 206(6):707-17.

Computational and mathematical methods for morphogenetic gradient analysis, boundary formation and axonal targeting.
Reingruber J, Holcman D
Semin Cell Dev Biol. 2014 Nov. 35:189-202.

Migrations cellulaires collectives.
Theveneau E, David N
Med Sci (Paris). 2014 Aug-Sep. 30(8-9):751-7.

Ku-mediated coupling of DNA cleavage and repair during programmed genome rearrangements in the ciliate Paramecium tetraurelia.
Marmignon A, Bischerour J, Silve A, Fojcik C, Dubois E, Arnaiz O, Kapusta A, Malinsky S, Bétermier M
PLoS Genet. 2014 Aug. 10(8):e1004552.

Microglia modulate wiring of the embryonic forebrain.
Squarzoni P, Oller G, Hoeffel G, Pont‑Lezica L, Rostaing P, Low D, Bessis A, Ginhoux F, Garel S
Cell Rep. 2014 Sep 11. 8(5):1271-9.

Optogenetic recruitment of dorsal raphe serotonergic neurons acutely decreases mechanosensory responsivity in behaving mice.
Dugué GP, Lörincz ML, Lottem E, Audero E, Matias S, Correia PA, Léna C, Mainen ZF
PLoS One. 2014. 9(8):e105941.

The world according to zebrafish : how neural circuits generate behavior.
Sumbre G, de Polavieja GG
Front Neural Circuits. 2014. 8:91.

Microbial priming of plant and animal immunity : symbionts as developmental signals.
Selosse MA, Bessis A, Pozo MJ
Trends Microbiol. 2014 Nov. 22(11):607-13.

Computational modeling of the main signaling pathways involved in mast cell activation.
Niarakis A, Bounab Y, Grieco L, Roncagalli R, Hesse AM, Garin J, Malissen B, Daëron M, Thieffry D
Curr Top Microbiol Immunol. 2014. 382:69-93.

PhylDiag : identifying complex synteny blocks that include tandem duplications using phylogenetic gene trees.
Lucas JM, Muffato M, Roest Crollius H
BMC Bioinformatics. 2014 Aug 8. 15:268.

Broad-host-range vector system for synthetic biology and biotechnology in cyanobacteria.
Taton A, Unglaub F, Wright NE, Zeng WY, Paz‑Yepes J, Brahamsha B, Palenik B, Peterson TC, Haerizadeh F, Golden SS, Golden JW
Nucleic Acids Res. 2014. 42(17):e136.

Cerebellum involvement in cortical sensorimotor circuits for the control of voluntary movements.
Proville RD, Spolidoro M, Guyon N, Dugué GP, Selimi F, Isope P, Popa D, Léna C
Nat Neurosci. 2014 Sep. 17(9):1233-9.

The molecular life of diatoms.
Bowler C, Falciatore A
Mar Genomics. 2014 Aug. 16:1-3.

Map transfer from the thalamus to the neocortex : inputs from the barrel field.
Lokmane L, Garel S
Semin Cell Dev Biol. 2014 Nov. 35:147-55.

Differential GABAergic and glycinergic inputs of inhibitory interneurons and Purkinje cells to principal cells of the cerebellar nuclei.
Husson Z, Rousseau CV, Broll I, Zeilhofer HU, Dieudonné S
J Neurosci. 2014 Jul 9. 34(28):9418-31.

Neuroscience : A structure to remember.
Stroebel D, Paoletti P
Nature. 2014 Jul 10. 511(7508):162-3.

The plant RWP-RK transcription factors : key regulators of nitrogen responses and of gametophyte development.
Chardin C, Girin T, Roudier F, Meyer C, Krapp A
J Exp Bot. 2014 Oct. 65(19):5577-87.

A Cyclin T1 point mutation that abolishes positive transcription elongation factor (P-TEFb) binding to Hexim1 and HIV tat.
Verstraete N, Kuzmina A, Diribarne G, Nguyen VT, Kobbi L, Ludanyi M, Taube R, Bensaude O
Retrovirology. 2014 Jul 1. 11:50.

Transcription factors modulate c-Fos transcriptional bursts.
Senecal A, Munsky B, Proux F, Ly N, Braye FE, Zimmer C, Mueller F, Darzacq X
Cell Rep. 2014 Jul 10. 8(1):75-83.

Geometry of the nucleus : a perspective on gene expression regulation.
Woringer M, Darzacq X, Izeddin I
Curr Opin Chem Biol. 2014 Jun. 20:112-9.

Natural occurring epialleles determine vitamin E accumulation in tomato fruits.
Quadrana L, Almeida J, Asís R, Duffy T, Dominguez PG, Bermúdez L, Conti G, Corrêa da Silva JV, Peralta IE, Colot V, Asurmendi S, Fernie AR, Rossi M, Carrari F
Nat Commun. 2014 Jun 26. 5:3027.

Modélisation de réseaux biologiques et médecine de précision en oncologie.
Calzone L, Kuperstein I, Cohen D, Grieco L, Bonnet E, Servant N, Hupé P, Zinovyev A, Barillot E
Bull Cancer. 2014 Jun. 101 Suppl 1:S18-21.

SLK-dependent activation of ERMs controls LGN-NuMA localization and spindle orientation.
Machicoane M, de Frutos CA, Fink J, Rocancourt M, Lombardi Y, Garel S, Piel M, Echard A
J Cell Biol. 2014 Jun 23. 205(6):791-9.

SnapShot : receptor dynamics at plastic synapses.
Kneussel M, Triller A, Choquet D
Cell. 2014 Jun 19. 157(7):1738-1738.e1.

How to control proteins with light in living systems.
Gautier A, Gauron C, Volovitch M, Bensimon D, Jullien L, Vriz S
Nat Chem Biol. 2014 Jul. 10(7):533-41.

Neurodevelopment. Parasympathetic ganglia derive from Schwann cell precursors.
Espinosa‑Medina I, Outin E, Picard CA, Chettouh Z, Dymecki S, Consalez GG, Coppola E, Brunet JF
Science. 2014 Jul 4. 345(6192):87-90.

Single-molecule tracking in live cells reveals distinct target-search strategies of transcription factors in the nucleus.
Izeddin I, Récamier V, Bosanac L, Cissé II, Boudarene L, Dugast‑Darzacq C, Proux F, Bénichou O, Voituriez R, Bensaude O, Dahan M, Darzacq X
Elife. 2014 Jun 12. 3.

Zinc dynamics and action at excitatory synapses.
Vergnano AM, Rebola N, Savtchenko LP, Pinheiro PS, Casado M, Kieffer BL, Rusakov DA, Mulle C, Paoletti P
Neuron. 2014 Jun 4. 82(5):1101-14.

A forward genetic screen reveals essential and non-essential RNAi factors in Paramecium tetraurelia.
Marker S, Carradec Q, Tanty V, Arnaiz O, Meyer E
Nucleic Acids Res. 2014 Jun. 42(11):7268-80.

Re-print of "Histone extraction protocol from the two model diatoms Phaeodactylum tricornutum and Thalassiosira pseudonana".
Tirichine L, Lin X, Thomas Y, Lombard B, Loew D, Bowler C
Mar Genomics. 2014 Aug. 16:67-71.

The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest.
Kunze G, Gaillardin C, Czernicka M, Durrens P, Martin T, Böer E, Gabaldón T, Cruz JA, Talla E, Marck C, Goffeau A, Barbe V, Baret P, Baronian K, Beier S, Bleykasten C, Bode R, Casaregola S, Despons L, Fairhead C, Giersberg M, Gierski PP, Hähnel U, Hartmann A, Jankowska D, Jubin C, Jung P, Lafontaine I, Leh‑Louis V, Lemaire M, Marcet‑Houben M, Mascher M, Morel G, Richard GF, Riechen J, Sacerdot C, Sarkar A, Savel G, Schacherer J, Sherman DJ, Stein N, Straub ML, Thierry A, Trautwein‑Schult A, Vacherie B, Westhof E, Worch S, Dujon B, Souciet JL, Wincker P, Scholz U, Neuvéglise C
Biotechnol Biofuels. 2014. 7:66.

Genome-defence small RNAs exapted for epigenetic mating-type inheritance.
Singh DP, Saudemont B, Guglielmi G, Arnaiz O, Goût JF, Prajer M, Potekhin A, Przybòs E, Aubusson‑Fleury A, Bhullar S, Bouhouche K, Lhuillier‑Akakpo M, Tanty V, Blugeon C, Alberti A, Labadie K, Aury JM, Sperling L, Duharcourt S, Meyer E
Nature. 2014 May 22. 509(7501):447-52.

From dinosaurs to modern bird diversity : extending the time scale of adaptive radiation.
Moen D, Morlon H
PLoS Biol. 2014 May. 12(5):e1001854.

Methylcrotonyl-CoA Carboxylase Regulates Triacylglycerol Accumulation in the Model Diatom Phaeodactylum tricornutum.
Ge F, Huang W, Chen Z, Zhang C, Xiong Q, Bowler C, Yang J, Xu J, Hu H
Plant Cell. 2014 Apr. 26(4):1681-1697.

Genetics. Being selective in the Prochlorococcus collective.
Bowler C, Scanlan DJ
Science. 2014 Apr 25. 344(6182):366-7.

Settling down of seasonal migrants promotes bird diversification.
Rolland J, Jiguet F, Jønsson KA, Condamine FL, Morlon H
Proc Biol Sci. 2014 Jun 7. 281(1784):20140473.

The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates.
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
Nat Commun. 2014 Apr 22. 5:3657.

Cell-penetrating nanobiosensors for pointillistic intracellular Ca2+-transient detection.
Zamaleeva AI, Collot M, Bahembera E, Tisseyre C, Rostaing P, Yakovlev AV, Oheim M, de Waard M, Mallet JM, Feltz A
Nano Lett. 2014 Jun 11. 14(6):2994-3001.

Huntingtin regulates mammary stem cell division and differentiation.
Elias S, Thion MS, Yu H, Sousa CM, Lasgi C, Morin X, Humbert S
Stem Cell Reports. 2014 Apr 8. 2(4):491-506.

GABAA receptor subunit composition and competition at synapses are tuned by GABAB receptor activity.
Gerrow K, Triller A
Mol Cell Neurosci. 2014 May. 60:97-107.

Inputs from the thalamocortical system on axon pathfinding mechanisms.
Garel S, López‑Bendito G
Curr Opin Neurobiol. 2014 Aug. 27:143-50.

Nascent multicellular life and the emergence of individuality.
De Monte S, Rainey PB
J Biosci. 2014 Apr. 39(2):237-48.

Oscillatory decay of the survival probability of activated diffusion across a limit cycle.
Dao Duc K, Schuss Z, Holcman D
Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Mar. 89(3):030101.

A streamlined system for species diagnosis in Caenorhabditis (Nematoda : Rhabditidae) with name designations for 15 distinct biological species.
Félix MA, Braendle C, Cutter AD
PLoS One. 2014. 9(4):e94723.

The SNARE Sec22b has a non-fusogenic function in plasma membrane expansion.
Petkovic M, Jemaiel A, Daste F, Specht CG, Izeddin I, Vorkel D, Verbavatz JM, Darzacq X, Triller A, Pfenninger KH, Tareste D, Jackson CL, Galli T
Nat Cell Biol. 2014 May. 16(5):434-44.

Protein aggregation and prionopathies.
Renner M, Melki R
Pathol Biol (Paris). 2014 Jun. 62(3):162-8.

New red-fluorescent calcium indicators for optogenetics, photoactivation and multi-color imaging.
Oheim M, van ’t Hoff M, Feltz A, Zamaleeva A, Mallet JM, Collot M
Biochim Biophys Acta. 2014 Oct. 1843(10):2284-306.

Transgenerational epigenetic inheritance : myths and mechanisms.
Heard E, Martienssen RA
Cell. 2014 Mar 27. 157(1):95-109.

miRNAs trigger widespread epigenetically activated siRNAs from transposons in Arabidopsis.
Creasey KM, Zhai J, Borges F, Van Ex F, Regulski M, Meyers BC, Martienssen RA
Nature. 2014 Apr 17. 508(7496):411-5.

Single cell correlation fractal dimension of chromatin : a framework to interpret 3D single molecule super-resolution.
Récamier V, Izeddin I, Bosanac L, Dahan M, Proux F, Darzacq X
Nucleus. 2014 Jan-Feb. 5(1):75-84.

Mechanistic constraints and the unlikely evolution of reciprocal cooperation.
André JB
J Evol Biol. 2014 Apr. 27(4):784-95.

NOS2 expression is restricted to neurons in the healthy brain but is triggered in microglia upon inflammation.
Béchade C, Colasse S, Diana MA, Rouault M, Bessis A
Glia. 2014 Jun. 62(6):956-63.

Evolution of galactoglycerolipid biosynthetic pathways—from cyanobacteria to primary plastids and from primary to secondary plastids.
Petroutsos D, Amiar S, Abida H, Dolch LJ, Bastien O, Rébeillé F, Jouhet J, Falconet D, Block MA, McFadden GI, Bowler C, Botté C, Maréchal E
Prog Lipid Res. 2014 Apr. 54:68-85.

Microglia shape corpus callosum axon tract fasciculation : functional impact of prenatal inflammation.
Pont‑Lezica L, Beumer W, Colasse S, Drexhage H, Versnel M, Bessis A
Eur J Neurosci. 2014 May. 39(10):1551-7.

Differential adhesion between moving particles as a mechanism for the evolution of social groups.
Garcia T, Brunnet LG, De Monte S
PLoS Comput Biol. 2014 Feb. 10(2):e1003482.

Connexin 30 sets synaptic strength by controlling astroglial synapse invasion.
Pannasch U, Freche D, Dallérac G, Ghézali G, Escartin C, Ezan P, Cohen‑Salmon M, Benchenane K, Abudara V, Dufour A, Lübke JH, Déglon N, Knott G, Holcman D, Rouach N
Nat Neurosci. 2014 Apr. 17(4):549-58.

The impact of chromatin dynamics on plant light responses and circadian clock function.
Barneche F, Malapeira J, Mas P
J Exp Bot. 2014 Jun. 65(11):2895-913.

Multiplex cell and lineage tracking with combinatorial labels.
Loulier K, Barry R, Mahou P, Le Franc Y, Supatto W, Matho KS, Ieng S, Fouquet S, Dupin E, Benosman R, Chédotal A, Beaurepaire E, Morin X, Livet J
Neuron. 2014 Feb 5. 81(3):505-20.

Mapping the epigenetic basis of complex traits.
Cortijo S, Wardenaar R, Colomé‑Tatché M, Gilly A, Etcheverry M, Labadie K, Caillieux E, Hospital F, Aury JM, Wincker P, Roudier F, Jansen RC, Colot V, Johannes F
Science. 2014 Mar 7. 343(6175):1145-8.

Genome-wide analysis of DNA methylation in Arabidopsis using MeDIP-chip.
Cortijo S, Wardenaar R, Colomé‑Tatché M, Johannes F, Colot V
Methods Mol Biol. 2014. 1112:125-49.

Role of the plasticity-associated transcription factor zif268 in the early phase of instrumental learning.
Maroteaux M, Valjent E, Longueville S, Topilko P, Girault JA, Hervé D
PLoS One. 2014. 9(1):e81868.

The Arabidopsis miR472-RDR6 silencing pathway modulates PAMP- and effector-triggered immunity through the post-transcriptional control of disease resistance genes.
Boccara M, Sarazin A, Thiébeauld O, Jay F, Voinnet O, Navarro L, Colot V
PLoS Pathog. 2014 Jan. 10(1):e1003883.

Ultra-rapid axon-axon ephaptic inhibition of cerebellar Purkinje cells by the pinceau.
Blot A, Barbour B
Nat Neurosci. 2014 Feb. 17(2):289-95.

Mapping the energy and diffusion landscapes of membrane proteins at the cell surface using high-density single-molecule imaging and Bayesian inference : application to the multiscale dynamics of glycine receptors in the neuronal membrane.
Masson JB, Dionne P, Salvatico C, Renner M, Specht CG, Triller A, Dahan M
Biophys J. 2014 Jan 7. 106(1):74-83.

Neuroscience. Young neurons sever ties to the parental niche.
Tozer S, Morin X
Science. 2014 Jan 10. 343(6167):146-7.

Exposure to bloom-like concentrations of two marine Synechococcus cyanobacteria (strains CC9311 and CC9902) differentially alters fish behaviour.
Hamilton TJ, Paz‑Yepes J, Morrison RA, Palenik B, Tresguerres M
Conserv Physiol. 2014. 2(1):cou020.

Time-resolved gene expression profiling during reprogramming of C/EBPα-pulsed B cells into iPS cells.
Di Stefano B, Collombet S, Graf T
Sci Data. 2014. 1:140008.

Proceedings of the fourth international conference on central hypoventilation.
Trang H, Brunet JF, Rohrer H, Gallego J, Amiel J, Bachetti T, Fischbeck KH, Similowski T, Straus C, Ceccherini I, Weese‑Mayer DE, Frerick M, Bieganowska K, Middleton L, Morandi F, Ottonello G
Orphanet J Rare Dis. 2014 Dec 5. 9:194.

C/EBPα poises B cells for rapid reprogramming into induced pluripotent stem cells.
Di Stefano B, Sardina JL, van Oevelen C, Collombet S, Kallin EM, Vicent GP, Lu J, Thieffry D, Beato M, Graf T
Nature. 2014 Feb 13. 506(7487):235-9.

Cytokinin signalling inhibitory fields provide robustness to phyllotaxis.
Besnard F, Refahi Y, Morin V, Marteaux B, Brunoud G, Chambrier P, Rozier F, Mirabet V, Legrand J, Lainé S, Thévenon E, Farcot E, Cellier C, Das P, Bishopp A, Dumas R, Parcy F, Helariutta Y, Boudaoud A, Godin C, Traas J, Guédon Y, Vernoux T
Nature. 2014 Jan 16. 505(7483):417-21.

Histone extraction protocol from the two model diatoms Phaeodactylum tricornutum and Thalassiosira pseudonana.
Tirichine L, Lin X, Thomas Y, Lombard B, Loew D, Bowler C
Mar Genomics. 2014 Feb. 13:21-5.

Links between topology of the transition graph and limit cycles in a two-dimensional piecewise affine biological model.
Abou‑Jaoudé W, Chaves M, Gouzé JL
J Math Biol. 2014 Dec. 69(6-7):1461-95.

Quantification of the density of cooperative neighboring synapses required to evoke endocannabinoid signaling.
Pachoud B, Sharma P, Bergerot A, Knöpfel T, Marcaggi P
Neuroscience. 2014 Jan 3. 256:412-25.

Adaptive and non-adaptive changes in activity-deprived presynaptic terminals.
Horellou S, Pascual O, Triller A, Marty S
Eur J Neurosci. 2014 Jan. 39(1):61-71.

An RNAi screen for Aire cofactors reveals a role for Hnrnpl in polymerase release and Aire-activated ectopic transcription.
Giraud M, Jmari N, Du L, Carallis F, Nieland TJ, Perez‑Campo FM, Bensaude O, Root DE, Hacohen N, Mathis D, Benoist C
Proc Natl Acad Sci U S A. 2014 Jan 28. 111(4):1491-6.

Ebf factors and MyoD cooperate to regulate muscle relaxation via Atp2a1.
Jin S, Kim J, Willert T, Klein‑Rodewald T, Garcia‑Dominguez M, Mosqueira M, Fink R, Esposito I, Hofbauer LC, Charnay P, Kieslinger M
Nat Commun. 2014 May 2. 5:3793.

Relationship between genome and epigenome—challenges and requirements for future research.
Almouzni G, Altucci L, Amati B, Ashley N, Baulcombe D, Beaujean N, Bock C, Bongcam‑Rudloff E, Bousquet J, Braun S, Bressac‑de Paillerets B, Bussemakers M, Clarke L, Conesa A, Estivill X, Fazeli A, Grgurević N, Gut I, Heijmans BT, Hermouet S, Houwing‑Duistermaat J, Iacobucci I, Ilaš J, Kandimalla R, Krauss‑Etschmann S, Lasko P, Lehmann S, Lindroth A, Majdič G, Marcotte E, Martinelli G, Martinet N, Meyer E, Miceli C, Mills K, Moreno‑Villanueva M, Morvan G, Nickel D, Niesler B, Nowacki M, Nowak J, Ossowski S, Pelizzola M, Pochet R, Potočnik U, Radwanska M, Raes J, Rattray M, Robinson MD, Roelen B, Sauer S, Schinzer D, Slagboom E, Spector T, Stunnenberg HG, Tiligada E, Torres‑Padilla ME, Tsonaka R, Van Soom A, Vidaković M, Widschwendter M
BMC Genomics. 2014 Jun 18. 15:487.

A single point mutation in cyclin T1 eliminates binding to Hexim1, Cdk9 and RNA but not to AFF4 and enforces repression of HIV transcription.
Kuzmina A, Verstraete N, Galker S, Maatook M, Bensaude O, Taube R
Retrovirology. 2014 Jul 1. 11:51.

The loss of adipokine genes in the chicken genome and implications for insulin metabolism.
Daković N, Térézol M, Pitel F, Maillard V, Elis S, Leroux S, Lagarrigue S, Gondret F, Klopp C, Baeza E, Duclos MJ, Roest Crollius H, Monget P
Mol Biol Evol. 2014 Oct. 31(10):2637-46.

Description of embryonic development of spotted green pufferfish (Tetraodon nigroviridis).
Zaucker A, Bodur T, Roest Crollius H, Hadzhiev Y, Gehrig J, Loosli F, Watson C, Müller F
Zebrafish. 2014 Dec. 11(6):509-17.

Benzodiazepine-dependent stabilization of GABA(A) receptors at synapses.
Gouzer G, Specht CG, Allain L, Shinoe T, Triller A
Mol Cell Neurosci. 2014 Nov. 63:101-13.

Orsay, Santeuil and Le Blanc viruses primarily infect intestinal cells in Caenorhabditis nematodes.
Franz CJ, Renshaw H, Frezal L, Jiang Y, Félix MA, Wang D
Virology. 2014 Jan 5. 448:255-64.

Isolation of C. elegans and related nematodes.
Barrière A, Félix MA
WormBook. 2014 May 2:1-19.

Transcriptome-wide modulation of splicing by the exon junction complex.
Wang Z, Murigneux V, Le Hir H
Genome Biol. 2014. 15(12):551.

bPeaks : a bioinformatics tool to detect transcription factor binding sites from ChIPseq data in yeasts and other organisms with small genomes.
Merhej J, Frigo A, Le Crom S, Camadro JM, Devaux F, Lelandais G
Yeast. 2014 Oct. 31(10):375-91.

Modeling capsid kinetics assembly from the steady state distribution of multi-sizes aggregates
Hozé N, Holcman D
Physics Letters A. 2014 Jan 24. 378(5-6):531-534.

From the chromatin interaction network to the organization of the human genome into replication N/U-domains
Boulos RE, Julienne H, Baker A, Chen CL, Petryk N, Kahli M, DʼAubenton‑Carafa Y, Goldar A, Jensen P, Hyrien O, Thermes C, Arneodo A, Audit B
New Journal of Physics. 2014 Nov 20. 16:115014.



2010


BioRxiv

Prediction of Mutations to Control Pathways Enabling Tumour Cell Invasion with the CoLoMoTo Interactive Notebook (Tutorial)
Levy Nicolas, Naldi Aurélien, Hernandez Céline, Stoll Gautier, Thieffry Denis, Zinovyev Andrei, Calzone Laurence, Paulevé Loï
BioRxiv.

DET1-mediated degradation of a SAGA-like deubiquitination module controls H2Bub homeostasis
Nassrallah Amr, Rougee Martin, Bourbousse Clara, Drevensek Stephanie, Fonseca Sandra, Iniesto Elisa, Ait‑Mohamed Ouardia, Deton‑Cabanillas Anne‑Flore, Zabulon Gerald, Ahmed Ikhlak, Stroebel David, Masson Vanessa, Lombard Berangere, Eeckhout Dominique, Gevaert Kris, Loew Damarys, Genovesio Auguste, Breyton Cecile, de Jaeger Geert, Bowler Chris, Rubio Vicente, Barneche Fredy
BioRxiv.

Global changes in mRNA abundance drive differential shuttling of RNA binding proteins, linking cytoplasmic RNA degradation to transcription
Gilbertson Sarah, Federspiel Joel D, Hartenian Ella, Cristea Ileana M, Glaunsinger Britt
BioRxiv.

The CoLoMoTo Interactive Notebook : Accessible and Reproducible Computational Analyses for Qualitative Biological Networks
Naldi Aurélien, Hernandez Céline, Levy Nicolas, Stoll Gautier, Monteiro Pedro T, Chaouiya Claudine, Helikar Tomáš, Zinovyev Andrei, Calzone Laurence, Cohen‑Boulakia Sarah, Thieffry Denis, Paulevé Loïc
BioRxiv.

Logical modelling and analysis of cellular regulatory networks with GINsim 3.0
Naldi Aurélien, Hernandez Céline, Abou‑Jaoudé Wassim, Monteiro Pedro T., Chaouiya Claudine, Thieffry Denis
BioRxiv.

Enrichment of gene variants associated with treatable genetic disorders in psychiatric populations
Sriretnakumar Venuja, Harripaul Ricardo, Vincent John B., Kennedy James L., So Joyce
BioRxiv.

Transcription-dependent regulation of replication dynamics modulates genome stability
Blin Marion, Le Tallec Benoît, Nahese Viola, Schmidt Mélanie, Millot Gael A, Prioleau Marie‑Noëlle, Debatisse Michelle
BioRxiv.

Evolution of the
Parey Elise, Crombach Anton
BioRxiv.

Voltage- and Branch-specific Climbing Fiber Responses in Purkinje Cells
Zang Yunliang, Dieudonné Stéphane, De Schutter Erik
BioRxiv.

Dual-layer transposon repression in heads of Drosophila melanogaster
van den Beek Marius, da Silva Bruno, Pouch Juliette, Ali Chaouche Mohammed el amine, Carré Clément, Antoniewski Christophe
BioRxiv.

Sequence-directed action of RSC remodeler and pioneer factors positions +1 nucleosome to facilitate transcription
Kubik Slawomir, O’Duibhir Eoghan, de Jonge Wim, Mattarocci Stefano, Albert Benjamin, Falcone Jean‑Luc, Bruzzone Maria J., Holstege Frank C.P., Shore David
BioRxiv.

DeepHINT : Understanding HIV-1 integration via deep learning with attention
Hu Hailin, Xiao An, Zhang Sai, Li Yangyang, Shi Xuanling, Jiang Tao, Zhang Linqi, Zhang Lei, Zeng Jianyang
BioRxiv.

Chromosome evolution at the origin of the ancestral vertebrate genome
Sacerdot Christine, Louis Alexandra, Bon Celine, ROEST CROLLIUS Hugues
BioRxiv.

Genome-wide enhancer - gene regulatory maps in two vertebrate genomes
Clément Yves, Torbey Patrick, Gilardi‑Hebenstreit Pascale, Roest Crollius Hugues
BioRxiv.

Ribosome provisioning activates a bistable switch coupled to fast exit from stationary phase
Remigi Philippe, Ferguson Gayle C., De Monte Silvia, Rainey Paul B.
BioRxiv.

Universal temporal rate of DNA replication origin firing : A balance between origin activation and passivation
Arbona Jean‑Michel, Goldar Arach, Hyrien Olivier, Arneodo Alain, Audit Benjamin
BioRxiv.

High-throughput optical mapping of replicating DNA
De Carli Francesco, Menezes Nikita, Berrabah Wahiba, Barbe Valerie, Genovesio Auguste, Hyrien Olivier
BioRxiv.

Supergene evolution triggered by the introgression of a chromosomal inversion
Jay Paul, Whibley Annabel, Frezal Lise, de Cara Angeles, Nowell Reuben W., Mallet James, Dasmahapatra Kanchon K., Joron Mathieu
BioRxiv.

Characterizing the Liquid-liquid Phase Co-existence in Biomembrane : Insights from Local Non-affine Deformation and Topological Rearrangements
Iyer Sahithya S, Tripathy Madhusmita, Srivastava Anand
BioRxiv.

Ranked tree shapes, non-random extinctions and the loss of phylogenetic diversity
Maliet Odile, Gascuel Fanny, Lambert Amaury
BioRxiv.

Aquaporin-4 dependent glymphatic solute transport in rodent brain
Mestre Humberto, Kress Benjamin T., Zou Wenyan, Pu Tinglin, Murlidharan Giridhar, Castellanos Rivera Ruth M., Simon Matthew J., Pike Martin M., Plog Benjamin A., Xavier Anna L. R., Thrane Alexander S., Lundgaard Iben, Thomas John H., Xiao Ming, Asokan Aravind, Iliff Jeffrey J., Nedergaard Maiken
BioRxiv.

A bacterial GW-effector targets Arabidopsis AGO1 to promote pathogenicity and induces Effector-triggered immunity by disrupting AGO1 homeostasis
Thiebeauld Odon, Charvin Magali, Singla Rastogi Meenu, Yang Fan, Pontier Dominique, Pouzet Cecile, Bapaume Laure, Li Guangyong, Deslandes Laurent, Lagrange Thierry, Alfano James R., Navarro Lionel
BioRxiv.

Redundancy principle for optimal random search in biology
Schuss Zeev, Basnayake Kanishka, Holcman David
BioRxiv.

Partial selfing eliminates inbreeding depression while maintaining genetic diversity
Chelo Ivo M., Afonso Bruno, Carvalho Sara, Theologidis Ioannis, Goy Christine, Pino‑Querido Ania, Proulx Stephen R., Teotonio Henrique
BioRxiv.

Dengue modeling in rural Cambodia : statistical performance versus epidemiological relevance
Champagne Clara, Paul Richard, Ly Sowath, Duong Veasna, Leang Rithea, Cazelles Bernard
BioRxiv.

Nucleosome rotational positioning is influenced by cis- and trans-acting factors
Wright Gregory M., Cui Feng
BioRxiv.

Transcriptional control and exploitation of an immune-responsive family of retrotransposons in Arabidopsis
Zervudacki Jérome, Yu Agnès, Amesefe Delase, Wang Jingyu, Drouaud Jan, Navarro Lionel, Deleris Angélique
BioRxiv.

Slower environmental change hinders adaptation from standing genetic variation
Guzella Thiago S., Dey Snigdhadip, Chelo Ivo M, Pino‑Querido Ania, Pereira Veronica F., Proulx Stephen R., Teotonio Henrique
BioRxiv.

An epigenetic mechanism for cavefish eye degeneration
Gore Aniket, Tomins Kelly, Iben James, Ma Li, Castranova Daniel, Davis Andrew, Parkhurst Amy, Jeffery William, Weinstein Brant
BioRxiv.

A simple and powerful analysis of lateral subdiffusion using single particle tracking
Renner Marianne, WANG Lili, LEVI Sabine, HENNEKINE Laetitia, TRILLER Antoine
BioRxiv.

miR-128-induced LINE-1 restriction is dependent on down-regulation of hnRNPA1
Pedersen Irene, Fung Lianna, Guzman Herlinda, Sevrioukov Evgueni, Idica Adam, Park Eddie, Bochnakien Aurore, Daugaard Iben, Jury Douglas, Mortazavi Ali, Zisoulis Dimitri
BioRxiv.

Interferon-inducible miR-128 modulates HIV-1 replication by targeting TNPO3 mRNA
Pedersen Irene, Bochnakiem Aurore, Zisoulis Dimitri, Idica Adam, Zhen Anjie, KewalRamani Vineet, Daugaard Iben, Hamdorf Matthias, Kitchen Scott, Lee KyeongEun
BioRxiv.

MicroRNA miR-128 represses LINE-1 (L1) retrotransposition by downregulating the nuclear import factor TNPO1
Idica Adam, Sevrioukov Evgueni, Zisoulis Dimitri, Hamdorf Matthias, Daugaard Iben, Kadandale Pavan, Pedersen Irene
BioRxiv.

miR-128 inhibits telomerase activity by targeting TERT mRNA
Guzman Herlinda, Sanders Katie, Idica Adam, Bochnakian Aurore, Jury Douglas, Daugaard Iben, Zisoulis Dimitri G., Pedersen Irene
BioRxiv.

Continuous rearrangement of the postsynaptic gephyrin scaffolding domain : a super-resolution quantified and energetic approach
Rodriguez Pamela C., Almeida Leandro G., Triller Antoine
BioRxiv.

Integrative analysis of large scale transcriptome data draws a comprehensive functional landscape of Phaeodactylum tricornutum genome and evolutionary origin of diatoms
Rastogi Achal, Maheswari Uma, Dorrell Richard G., Maumus Florian, Rocha Jimenez Vieira Fabio, Kustka Adam, McCarthy James, Allen Andy E., Kersey Paul, Bowler Chris, Tirichine Leila
BioRxiv.

Continuous gene flow contributes to low global species abundance and distribution of a marine model diatom
Rastogi Achal, Deton‑Cabanillas Anne‑Flore, Rocha Jimenez Vieira Fabio, Veluchamy Alaguraj, Cantrel Catherine, Wang Gaohong, Vanormelingen Pieter, Bowler Chris, Piganeau Gwenael, Tirichine Leila, Hu Hanhua
BioRxiv.

Non-cell autonomous Otx2 homeoprotein regulates visual cortex plasticity through Gadd45b/g
Apulei Jessica, Kim Namsuk, Testa Damien, Ribot Jérôme, Morizet David, Bernard Clémence, Jourdren Laurent, Blugeon Corinne, Di Nardo Ariel A., Prochiantz Alain
BioRxiv.

Detecting environment-dependent diversification from phylogenies : a simulation study and some empirical illustrations
Lewitus Eric, Morlon Helene
BioRxiv.

The mechanism of transcription start site selection
Yu Libing, Winkelman Jared, Pukhrambam Chirangini, Strick Terence, Nickels Bryce, Ebright Richard H.
BioRxiv.

Soil community assembly varies across body sizes in a tropical forest
Zinger Lucie, Taberlet Pierre, Schimann Heidy, Bonin Aurelie, Boyer Frederic, De Barba Marta, Gaucher Philippe, Gielly Ludovic, Giguet‑Covex Charline, Iribar Amaia, Rejou‑Mechain Maxime, Raye Gilles, Rioux Delphine, Schilling Vincent, Tymen Blaise, Viers Jerome, Zouiten Cyril, Thuiller Wilfried, Coissac Eric, Chave Jerome
BioRxiv.

Evolution of gene expression after whole-genome duplication : new insights from the spotted gar genome
Pasquier Jeremy, Braasch Ingo, Batzel Peter, Cabau Cedric, Montfort Jerome, Nguyen Thaovi, Jouanno Elodie, Berthelot Camille, Klopp Christophe, Journot Laurent, Postlethwait John, Guiguen Yann, Bobe Julien
BioRxiv.

Egr1 deficiency induces browning of inguinal subcutaneous white adipose tissue in mice
Milet Cecile, Bleher Marianne, Allbright Kassandra, Orgeur Mickael, Coulpier Fanny, Duprez Delphine, Havis Emmanuelle
BioRxiv.

Cyclin G And The Polycomb Repressive Complexes PRC1 And PR-DUB Cooperate For Developmental Stability
Dardalhon‑Cumenal Delphine, Deraze Jerome, Dupont Camille A., Ribeiro Valerie, Coleno‑Costes Anne, Pouch Juliette, Le Crom Stephane, Thomassin‑Bourrel Helene, Debat Vincent, Randsholt Neel B., Peronnet Frederique
BioRxiv.

Transcription Factors Orchestrate Dynamic Interplay Between Genome Topology And Gene Regulation During Cell Reprogramming
Stadhouders Ralph, Vidal Enrique, Serra François, Stefano Bruno Di, Dily François Le, Quilez Javier, Gomez Antonio, Collombet Samuel, Berenguer Clara, Cuartero Yasmina, Hecht Jochen, Filion Guillaume, Beato Miguel, Marti‑Renom Marc A., Graf Thomas
BioRxiv.

Cerebellar Re-Encoding Of Self-Generated Head Movements
Dugue Guillaume Pierre, Tihy Matthieu, Gourevitch Boris, Lena Clement
BioRxiv.

The fitness cost of mis-splicing is the main determinant of alternative splicing patterns
Saudemont Baptiste, Popa Alexandra, Parmley Joanna L., Rocher Vincent, Blugeon Corinne, Necsulea Anamaria, Meyer Eric, Duret Laurent
BioRxiv.

A computational toolbox and step-by-step tutorial for the analysis of neuronal population dynamics in calcium imaging data
Romano Sebastián A., Pérez‑Schuster Verónica, Jouary Adrien, Candeo Alessia, Boulanger‑Weill Jonathan, Sumbre Germán
BioRxiv.

Initiation of DNA replication requires actin dynamics and formin activity
Parisis Nikolaos, Krasinska Liliana, Harker Bethany, Urbach Serge, Rossignol Michel, Camasses Alain, Dewar James, Morin Nathalie, Fisher Daniel
BioRxiv.

Evolutionary forces affecting synonymous variations in plant genomes
Clément Yves, Sarah Gautier, Holtz Yan, Homa Felix, Pointet Stéphanie, Contreras Sandy, Nabholz Benoit, Sabot François, Sauné Laure, Ardisson Morgane, Bacilieri Roberto, Besnard Guillaume, Berger Angélique, Cardi Céline, De Bellis Fabien, Fouet Olivier, Jourda Cyril, Khadari Bouchaib, Lanaud Claire, Leroy Thierry, Pot David, Sauvage Christopher, Sarcelli Nora, Tregear James, Vigouroux Yves, Yahiaoui Nabila, Ruiz Manuel, Santoni Sylvain, Labouisse Jean‑Pierre, Pham Jean‑Louis, David Jacques, Glémin Sylvain
BioRxiv.

The genealogical decomposition of a matrix population model with applications to the aggregation of stages
Bienvenu François, Akcay Erol, Legendre Stéphane, McCandlish David
BioRxiv.

RSAT matrix-clustering : dynamic exploration and redundancy reduction of transcription factor binding motif collections
Castro‑Mondragon Jaime, Jaeger Sebastien, Thieffry Denis, Thomas‑Chollier Morgane, van Helden Jacques
BioRxiv.

Crowding-induced transcriptional bursts dictate nucleosome and polymerase density profiles along genes
van den Berg Aafke A, Depken Martin
BioRxiv.

Structure in the variability of the basic reproductive number (R
Champagne Clara, Salthouse David G, Paul Richard, Cao‑Lormeau Van‑Mai, Roche Benjamin, Cazelles Bernard
BioRxiv.

Cerebellar learning using perturbations
Bouvier Guy, Aljadeff Johnatan, Clopath Claudia, Bimbard Célian, Nadal Jean‑Pierre, Brunel Nicolas, Hakim Vincent, Barbour Boris
BioRxiv.

Ecogenomics and biogeochemical impacts of uncultivated globally abundant ocean viruses
Roux Simon, Brum Jennifer R, Dutilh Bas E., Sunagawa Shinichi, Duhaime Melissa B, Loy Alexander, Poulos Bonnie T, Solonenko Natalie, Lara Elena, Poulain Julie, PESANT Stephane, Kandels‑Lewis Stefanie, Dimier Céline, Picheral Marc, Searson Sarah, Cruaud Corinne, Alberti Adriana, Duarte Carlos M. M, Gasol Josep M M, Vaqué Dolors, Bork Peer, Acinas Silvia G, Wincker Patrick, Sullivan Matthew B
BioRxiv.

Automatic classification of behavior in zebrafish larvae
Jouary Adrien, Sumbre German
BioRxiv.

On the evolutionary origins of equity
Debove Stephane, Baumard Nicolas, Andre Jean‑Baptiste
BioRxiv.

How human behavior drives the propagation of an emerging infection : the case of the 2014 Chikungunya outbreak in Martinique
Roche Benjamin, Gaillard Beatrice, Leger Lucas, Moutenda Renelise, Sochaki Thomas, Cazelles Bernard, Ledrans Martine, Blateau Alain, Fontenille Didier, Etienne Manuel, Simard Frederic, Salathe Marcel, Yebakima Andre
BioRxiv.

Discovery of a Natural Microsporidian Pathogen with a Broad Tissue Tropism in
Luallen Robert J, Reinke Aaron W, Tong Linda, Botts Michael R, Felix Marie‑Anne, Troemel Emily R
BioRxiv.

Chromatin mobility after DNA damage is modified to enhance long distance explorations and minimize local resampling
Mine‑Hattab Judith, Recamier Vincent, Izeddin Ignacio, Rothstein Rodney, Darzacq Xavier
BioRxiv.

Characterizing and comparing phylogenies from their Laplacian spectrum
Lewitus Eric, Morlon Helene
BioRxiv.

Estimating the effect of competition on trait evolution using maximum likelihood inference
Drury Jonathan, Clavel Julien, Manceau Marc, Morlon Hélène
BioRxiv.

Cooperative development of logical modelling standards and tools with CoLoMoTo
Naldi Aurélien, Monteiro Pedro T, Müssel Christoph, Kestler Hans A, Thieffry Denis, Xenarios Ioannis, Saez‑Rodriguez Julio, Helikar Tomas, Chaouiya Claudine
BioRxiv.

Analysis of the study of the cerebellar pinceau by Korn and Axelrad
Blot Antonin, Barbour Boris
BioRxiv.