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  • 2025
    Vial T, Lopez-Maestre H, Couderc E, Pinaud S, Howick V, Akorli J, Lawniczak M, Marti G, Merkling SH, Single-cell transcriptional landscapes of Aedes aegypti midgut and fat body after a bloodmeal., Cell Genom 2025 Aug; 5(8): 100924.
  • 2025
    Sarah H Merkling, Elodie Couderc, Anna B Crist, Stéphanie Dabo, Josquin Daron, Natapong Jupatanakul, Myriam Burckbuchler, Thomas Vial, Odile Sismeiro, Rachel Legendre, Adrien Pain, Hugo Varet, Davy Jiolle, Diego Ayala, Christophe Paupy, Eric Marois, Louis Lambrechts, Dengue virus susceptibility in Aedes aegypti linked to natural cytochrome P450 promoter variants, Nature Communications, 2025, 16 (1), pp.7468. ⟨10.1038/s41467-025-62693-y⟩.
  • 2025
    Elodie Couderc, Anna B Crist, Josquin Daron, Hugo Varet, Femke a H van Hout, Pascal Miesen, Umberto Palatini, Stéphanie Dabo, Thomas Vial, Louis Lambrechts, Sarah H Merkling, Aedes aegypti VLG-1 challenges the assumed antiviral nature of Vago genes, BMC Biology, 2025, 23 (1), pp.223. ⟨10.1186/s12915-025-02325-5⟩.
  • 2025
    Gonnella G, Libri V, Gioacchino E, Mella S, Sann S, Sorn S, Ken S, Seffer V, Ya N, Heng L, Yay C, Sakuntabhai A, Ly S, Dussart P, Duong V, Hasan M, Cantaert T, Immune profiling in subclinical secondary dengue-infected cases reveals adaptive immune signatures correlated to protection from severe dengue., Cell Host Microbe 2025 Jul; 33(7): 1191-1207.e4.
  • 2025
    Isabelle Bouyssou, Lemu Golassa, Inès Vigan-Womas, Matthieu Schoenhals, Arsène Ratsimbasoa, Ali Ould Mohamed Salem Boukhary, Maria de Fátima Ferreira-Da-Cruz, Sandrine Houzé, Laurence Ma, Feng Lu, Chetan Chitnis, Pascal Campagne, Didier Ménard, Genomic analysis of Plasmodium vivax field isolates circulating in sub-Saharan Africa, Communications Biology, 2025, 8 (1), pp.1012. ⟨10.1038/s42003-025-08276-5⟩.
  • 2025
    Cyril Savin, Pierre Lê-Bury, Julien Guglielmini, Thibaut Douché, Guillem Mas Fiol, Rodolphe Buzelé, Cécile Le Brun, Frédéric Bastides, Maud François, Béatrice Birmelé, Laura Guichard, Julien Madej, Rémi Beau, Nicolas Cabanel, Laurent Dortet, Mariette Matondo, Olivier Dussurget, Elisabeth Carniel, Philippe Lanotte, Javier Pizarro-Cerdá, In-host evolution of Yersinia enterocolitica during a chronic human infection, Nature Communications, 2025, 16 (1), pp.5637. ⟨10.1038/s41467-025-60782-6⟩.
  • 2025
    Adeline Pastuszka, Maria-Vittoria Mazzuoli, Chiara Crestani, Léonie Deborde, Odile Sismeiro, Coralie Lemaire, Vanessa Rong, Myriam Gominet, Elise Jacquemet, Rachel Legendre, Philippe Lanotte, Arnaud Firon, The virulence regulator CovR boosts CRISPR-Cas9 immunity in Group B Streptococcus, Nature Communications, 2025, 16 (1), pp.5678. ⟨10.1038/s41467-025-60871-6⟩.
  • 2025
    Alemany C, Da Graça J, Giai Gianetto Q, Dupont M, Paisant S, Douché T, Isel C, Delevoye C, Danglot L, Matondo M, Morel E, Brault JB, Naffakh N, Influenza A virus induces PI4P production at the endoplasmic reticulum in an ATG16L1-dependent manner to promote the egress of viral ribonucleoproteins., PLoS Biol 2025 Jul; 23(7): e3002958.
  • 2025
    Julia Faillace Thiesen, Elise Jacquemet, Pascal Campagne, Denis Chatelain, Etienne Brochot, Yves-Edouard Herpe, Nolwenn M Dheilly, Fabrice Bouilloux, Bénédicte Rognon, Alexandre Douablin, Guillaume Leboucher, Florent Percher, Marc Eloit, Philippe Pérot, Molecular detection of hrHPV-induced high-grade squamous intraepithelial lesions of the cervix through a targeted RNA next generation sequencing assay, Molecular Medicine, 2025, 31 (1), pp.215. ⟨10.1186/s10020-025-01238-x⟩.
  • 2025
    Zhukova A, Gascuel O, Accounting for contact tracing in epidemiological birth-death models., PLoS Comput Biol 2025 May; 21(5): e1012461.
  • 2025
    Bonnet I, Orgeur M, Brossier F, Sayes F, Frigui W, Madacki J, Varet H, Chauffour A, Aubry A, Veziris N, Sougakoff W, Brosch R, Tournebize R, Evaluation of the role of whiB6 and kdpDE in the dominant multidrug-resistant clone Mycobacterium tuberculosis B0/W148., Microbiol Spectr 2025 May; (): e0322424.
  • 2025
    Alexander Bergman, Anna Crist, Hélène Lopez-Maestre, Hervé Blanc, Mauro Castelló-Sanjuán, Lionel Frangeul, Hugo Varet, Josquin Daron, Sarah Hélène Merkling, Maria-Carla P Saleh, Louis A Lambrechts, Limited impact of the siRNA pathway on transposable element expression in Aedes aegypti, BMC Biology, 2025, 23 (1), pp.130. ⟨10.1186/s12915-025-02225-8⟩.
  • 2025
    Mareuil F, Torchet R, Ruano LC, Mallet V, Nilges M, Bouvier G, Sperandio O, InDeepNet: a web platform for predicting functional binding sites in proteins using InDeep., Nucleic Acids Res 2025 May; (): .
  • 2025
    Salim Chibani, Elhem Yacoub, Safa Boujemaa, Helmi Mardassi, J. Guglielmini, Amaury Vaysse, Nadine Khadraoui, Béhija Mlik, Boutheina Ben Abdelmoumen Mardassi, A genome-wide investigation of Mycoplasma hominis genes associated with gynecological infections or infertility, Frontiers in Microbiology, In press, 16, pp.1561378. ⟨10.3389/fmicb.2025.1561378⟩.
  • 2025
    Blaise Lafoux, Gustave Fourcaud, Jimmy Hortion, Laura Soyer, Alexandra Journeaux, Clara Germain, Stéphanie Reynard, Hadrien Cousseau, Clémentine Larignon, Natalia Pietrosemoli, Séverine Croze, Joël Lachuer, Emeline Perthame, Sylvain Baize, Expansion of myeloid suppressor cells and suppression of Lassa virus-specific T cells during fatal Lassa fever, PLoS Pathogens, 2025, 21 (4), pp.e1013111. ⟨10.1371/journal.ppat.1013111⟩.
  • 2025
    Dugied G, Laurent EM, Attia M, Gimeno JP, Bachiri K, Samavarchi-Tehrani P, Donati F, Rahou Y, Munier S, Amara F, Dos Santos M, Soler N, Volant S, Pietrosemoli N, Gingras AC, Pavlopoulos GA, van der Werf S, Falter-Braun P, Aloy P, Jacob Y, Komarova A, Sofianatos Y, Coyaud E, Demeret C, Multimodal SARS-CoV-2 interactome sketches the virus-host spatial organization., Commun Biol 2025 Mar; 8(1): 501.
  • 2025
    Bønnelykke TH, Chabry MA, Perthame E, Dombrowsky G, Berger F, Dittrich S, Hitz MP, Desgrange A, Meilhac SM, Notch3 is an asymmetric gene and a modifier of heart looping defects in Nodal mouse mutants., PLoS Biol 2025 Mar; 23(3): e3002598.
  • 2025
    Vendrell-Fernández S, Beamud B, Abou Haydar Y, Am de Sousa J, Burlaud-Gaillard J, Kornobis E, Raynal B, Vinh J, Bikard D, Ghigo JM, Incomplete lytic cycle of a widespread Bacteroides bacteriophage leads to the formation of defective viral particles., PLoS Biol 2025 Mar; 23(3): e3002787.
  • 2025
    Camard L, Stephen T, Yahia-Cherbal H, Guillemot V, Mella S, Baillet V, Lopez-Maestre H, Capocefalo D, Cantini L, Leloup C, Marsande J, Garro K, Sienes Bailo J, Dangien A, Pietrosemoli N, Hasan M, Wang H, Eckle SBG, Fourie AM, Greving C, Joyce-Shaikh B, Parker R, Cua DJ, Bianchi E, Rogge L, IL-23 tunes inflammatory functions of human mucosal-associated invariant T cells., iScience 2025 Feb; 28(2): 111898.
  • 2025
    Dejoux A, Zhu Q, Woolfe A, Godon O, Ellouze S, Mottet G, Castrillon C, Gillis C, Pecalvel C, Ganneau C, Iannascoli B, Lemoine F, Saul F, England P, Reber LL, Gouel-Chéron A, de Chaisemartin L, Haouz A, Millot GA, Bay S, Gérard A, Jönsson F, Chollet-Martin S, Bruhns P, Antibody-secreting cell repertoires hold high-affinity anti-rocuronium specificities that can induce anaphylaxis in vivo., J Allergy Clin Immunol 2025 Jan; (): .
  • 2025
    Geiselmann A, Micouin A, Vandormael-Pournin S, Laville V, Chervova A, Mella S, Navarro P, Cohen-Tannoudji M, PI3K/AKT signaling controls ICM maturation and proper epiblast and primitive endoderm specification in mice., Dev Cell 2025 Jan; 60(2): 204-219.e6.
  • 2025
    Fruchard L, Babosan A, Carvalho A, Lang M, Li B, Duchateau M, Giai Gianetto Q, Matondo M, Bonhomme F, Hatin I, Arbes H, Fabret C, Corler E, Sanchez G, Marchand V, Motorin Y, Namy O, de Crécy-Lagard V, Mazel D, Baharoglu Z, Aminoglycoside tolerance in Vibrio cholerae engages translational reprogramming associated with queuosine tRNA modification., Elife 2025 Jan; 13(): .
  • 2025
    Grossi V, Cuny P, Militon C, Witwinowski J, Eddhif B, Sylvi L, Nowakowski M, Kosta A, Antheaume I, Cornil J, Dubrac S, Kende J, Gribaldo S, Borrel G, Halophilic archaea produce wax esters and use an alternative fatty acyl-coenzyme A reductase for precursor synthesis., ISME J 2025 Jan; 19(1): .
  • 2025
    Lagare A, Perthame E, Lazoumar RH, Aboutalib FA, Kaka BK, Sidikou BA, Issaka B, Moumouni K, Testa J, Jambou R, Climatic factors driving influenza transmission in Sahelian area: A twelve-year retrospective study in Niger (2010-2021)., PLoS One 2025 ; 20(5): e0322288.
  • 2024
    Hawkey J, Frézal L, Tran Dien A, Zhukova A, Brown D, Chattaway MA, Simon S, Izumiya H, Fields PI, De Lappe N, Kaftyreva L, Xu X, Isobe J, Clermont D, Njamkepo E, Akeda Y, Issenhuth-Jeanjean S, Makarova M, Wang Y, Hunt M, Jenkins BM, Ravel M, Guibert V, Serre E, Matveeva Z, Fabre L, Cormican M, Yue M, Zhu B, Morita M, Iqbal Z, Silva Nodari C, Pardos de la Gandara M, Weill FX, Genomic perspective on the bacillus causing paratyphoid B fever., Nat Commun 2024 Dec; 15(1): 10143.
  • 2024
    Tesson F, Huiting E, Wei L, Ren J, Johnson M, Planel R, Cury J, Feng Y, Bondy-Denomy J, Bernheim A, Exploring the diversity of anti-defense systems across prokaryotes, phages and mobile genetic elements., Nucleic Acids Res 2024 Dec; (): .
  • 2024
    Gauthier Delvallez, Laure Diancourt, Julien Guglielmini, Anne-Laure Michon, Sylvain Brisse, B. Dupuy, Alexis Criscuolo, Comment on: Co-occurrence of the cephalosporinase cepA and carbapenemase cfiA genes in a Bacteroides fragilis Division II strain: an unexpected finding, Journal of Antimicrobial Chemotherapy, 6:dkae427. ⟨10.1093/jac/dkae427⟩.
  • 2024
    Hafner L, Gadin E, Huang L, Frouin A, Laporte F, Gaultier C, Vieira A, Maudet C, Varet H, Moura A, Bracq-Dieye H, Tessaud-Rita N, Maury M, Dazas M, Legendre R, Gastineau P, Tsai YH, Coppée JY, Charlier C, Patin E, Chikhi R, Rocha EPC, Leclercq A, Disson O, Aschard H, Lecuit M, Differential stress responsiveness determines intraspecies virulence heterogeneity and host adaptation in Listeria monocytogenes., Nat Microbiol 2024 Dec; 9(12): 3345-3361.
  • 2024
    Li R, Tendu A, Kane Y, Omondi V, Ying J, Mao L, Xu S, Xu R, Chen X, Chen Y, Descorps-Declère S, Bienes KM, Fassatoui M, Hughes AC, Berthet N, Wong G, Differential prevalence and risk factors for infection with coronaviruses in bats collected from Yunnan Province, China., One Health 2024 Dec; 19(): 100923.
  • 2024
    Hortion J, Perthame E, Lafoux B, Soyer L, Reynard S, Journeaux A, Germain C, Lopez-Maestre H, Pietrosemoli N, Baillet N, Croze S, Rey C, Legras-Lachuer C, Baize S, Fatal Lassa fever in cynomolgus monkeys is associated with systemic viral dissemination and inflammation., PLoS Pathog 2024 Dec; 20(12): e1012768.
  • 2024
    Malesys S, Torchet R, Saunier B, Maillet N, AntiBody Sequence Database., NAR Genom Bioinform 2024 Dec; 6(4): lqae171.
  • 2024
    von Stemann JH, Dubois F, Saint-André V, Bondet V, Posseme C, Charbit B, Quintana-Murci L, Hansen MB, Ostrowski SR, Duffy D, Cytokine Autoantibodies Alter Gene Expression Profiles of Healthy Donors., Eur J Immunol 2025 Jan; 55(1): e202451211.
  • 2024
    Xie R, Adam DC, Hu S, Cowling BJ, Gascuel O, Zhukova A, Dhanasekaran V, Integrating contact tracing data to enhance outbreak phylodynamic inference: a deep learning approach., Mol Biol Evol 2024 Nov; (): .
  • 2024
    Lemoine F, Gascuel O, The Bayesian Phylogenetic Bootstrap and its Application to Short Trees and Branches., Mol Biol Evol 2024 Nov; 41(11): .
  • 2024
    Claverie C, Coppolino F, Mazzuoli MV, Guyonnet C, Jacquemet E, Legendre R, Sismeiro O, De Gaetano GV, Teti G, Trieu-Cuot P, Tazi A, Beninati C, Firon A, Constitutive activation of two-component systems reveals regulatory network interactions in Streptococcus agalactiae., Nat Commun 2024 Oct; 15(1): 9175.
  • 2024
    Dugied G, Douche T, Dos Santos M, Giai Gianetto Q Q, Cassonnet C, Vuillier F, Cassonnet P, Jacob Y, van der Werf S, Komarova A, Matondo M, Karim M, Demeret C, Profiling Cullin4-E3 ligases interactomes and their rewiring in influenza A virus infection., Mol Cell Proteomics 2024 Oct; (): 100856.
  • 2024
    Gouzien L, Che D, Cassaing S, Lortholary O, Letscher-Bru V, Paccoud O, Obadia T, Morio F, Moniot M, Cateau E, Bougnoux ME, Chouaki T, Hasseine L, Desoubeaux G, Gautier C, Mahinc-Martin C, Huguenin A, Bonhomme J, Sitbon K, Durand J, Alanio A, Millon L, Garcia-Hermoso D, Lanternier F, Epidemiology and prognostic factors of mucormycosis in France (2012-2022): a cross-sectional study nested in a prospective surveillance programme., Lancet Reg Health Eur 2024 Oct; 45(): 101010.
  • 2024
    Grégoire Davignon, Natalia Pietrosemoli, Nadia Benaroudj, Marie-Estelle Soupé-Gilbert, Julie Cagliero, Élodie Turc, Mathieu Picardeau, Linda Guentas, Cyrille Goarant, Roman Thibeaux, Leptospira interrogans biofilm transcriptome highlights adaption to starvation and general stress while maintaining virulence., npj Biofilms and Microbiomes, 2024, 10 (1), pp.95. ⟨10.1038/s41522-024-00570-0⟩.
  • 2024
    Audebert L, Feuerbach F, Zedan M, Schürch AP, Decourty L, Namane A, Permal E, Weis K, Badis G, Saveanu C, RNA degradation triggered by decapping is largely independent of initial deadenylation., EMBO J 2024 Sep; (): .
  • 2024
    Leroux P, Matczak S, Bouchez V, Volant S, Ouziel A, Launay E, Faye A, Rabier V, Sarlangue J, Jeziorski E, Maakaroun-Vermesse Z, Madhi F, Pinquier D, Lorrot M, Pouletty M, Cantais A, Javouhey E, Aït Belghiti F, Guillot S, Rodrigues C, Brisse S, Cohen JF, Toubiana J, Association between pertactin-producing Bordetella pertussis and fulminant pertussis in infants: a multicenter study in France, 2008-2019., Clin Microbiol Infect 2024 Sep; (): .
  • 2024
    Coppolino F, De Gaetano GV, Claverie C, Sismeiro O, Varet H, Legendre R, Pellegrini A, Berbiglia A, Tavella L, Lentini G, Famà A, Barbieri G, Pietrocola G, Teti G, Firon A, Beninati C, The SaeRS two-component system regulates virulence gene expression in group B Streptococcus during invasive infection., mBio 2024 Sep; 15(9): e0197524.
  • 2024
    Dejoux A, Zhu Q, Ganneau C, Goff OR, Godon O, Lemaitre J, Relouzat F, Huetz F, Sokal A, Vandenberghe A, Pecalvel C, Hunault L, Derenne T, Gillis CM, Iannascoli B, Wang Y, Rose T, Mertens C, Nicaise-Roland P, , England P, Mahévas M, de Chaisemartin L, Le Grand R, Letscher H, Saul F, Pissis C, Haouz A, Reber LL, Chappert P, Jönsson F, Ebo DG, Millot GA, Bay S, Chollet-Martin S, Gouel-Chéron A, Bruhns P, Rocuronium-specific antibodies drive perioperative anaphylaxis but can also function as reversal agents in preclinical models., Sci Transl Med 2024 Sep; 16(764): eado4463.
  • 2024
    Auvergne A, Traut N, Henches L, Troubat L, Frouin A, Boetto C, Kazem S, Julienne H, Toro R, Aschard H, Multitrait analysis to decipher the intertwined genetic architecture of neuroanatomical phenotypes and psychiatric disorders., Biol Psychiatry Cogn Neurosci Neuroimaging 2024 Sep; (): .
  • 2024
    Marchment G, Brancotte B, Schmit M, Lemoine F, Cohen-Boulakia S, BioFlow-Insight: facilitating reuse of Nextflow workflows with structure reconstruction and visualization., NAR Genom Bioinform 2024 Sep; 6(3): lqae092.
  • 2024
    Maestri R, Perez-Lamarque B, Zhukova A, Morlon H, Recent evolutionary origin and localized diversity hotspots of mammalian coronaviruses., Elife 2024 Aug; 13(): .
  • 2024
    Bertrand A, Sugrue J, Lou T, Bourke NM, Quintana-Murci L, Saint-André V, O'Farrelly C, Duffy D, Impact of socioeconomic status on healthy immune responses in humans., Immunol Cell Biol 2024 Aug; 102(7): 618-629.
  • 2024
    Chevalier C, Chica C, Matheau J, Pain A, Connor MG, Hamon MA, Epithelial cells maintain memory of prior infection with Streptococcus pneumoniae through di-methylation of histone H3., Nat Commun 2024 Jul; 15(1): 5545.
  • 2024
    Dang TTV, Maufrais C, Colin J, Moyrand F, Mouyna I, Coppée JY, Onyishi CU, Lipecka J, Guerrera IC, May RC, Janbon G, Alternative TSS use is widespread in Cryptococcus fungi in response to environmental cues and regulated genome-wide by the transcription factor Tur1., PLoS Biol 2024 Jul; 22(7): e3002724.
  • 2024
    Marie C Schoelmerich, Lynn Ly, Jacob West-Roberts, Ling-Dong Shi, Cong Shen, Nikhil S Malvankar, Najwa Taib, Simonetta Gribaldo, Ben J Woodcroft, Christopher W Schadt, Basem Al-Shayeb, Xiaoguang Dai, Christopher Mozsary, Scott Hickey, Christine He, John Beaulaurier, Sissel Juul, Rohan Sachdeva, Jillian F Banfield, Borg extrachromosomal elements of methane-oxidizing archaea have conserved and expressed genetic repertoires, Nature Communications, 2024, 15 (1), pp.5414. ⟨10.1038/s41467-024-49548-8⟩.
  • 2024
    Bryan Brancotte, Elodie Chapeaublanc, Shiny-K8s, a toolkit to easily and reproducibly deploy your (R)Shiny app thanks to docker and Kubernetes (without mastering them!), JOBIM 2024, Jun 2024, Toulouse (FRANCE), France. .
  • 2024
    Suzuki Y, Ménager H, Brancotte B, Vernet R, Nerin C, Boetto C, Auvergne A, Linhard C, Torchet R, Lechat P, Troubat L, Cho MH, Bouzigon E, Aschard H, Julienne H, Trait selection strategy in multi-trait GWAS: Boosting SNP discoverability., HGG Adv 2024 Jul; 5(3): 100319.
  • 2024
    Bruno F, Castelli G, Li B, Reale S, Carra E, Vitale F, Scibetta S, Calzolari M, Varani S, Ortalli M, Franceschini E, Gennari W, Rugna G, Späth GF, Genomic and epidemiological evidence for the emergence of a L. infantum/L. donovani hybrid with unusual epidemiology in northern Italy., mBio 2024 Jun; (): e0099524.
  • 2024
    Hamdi Y, Boujemaa M, Ben Aissa-Haj J, Radouani F, Khyatti M, Mighri N, Hannachi M, Ghedira K, Souiai O, Hkimi C, Kammoun MS, Mejri N, Bouaziz H, Beloufa MA, Charoute H, Barakat A, Najjar I, Taniguchi H, Pietrosemoli N, , Dellagi K, Abdelhak S, Boubaker MS, Chica C, Rouleau E, A regionally based precision medicine implementation initiative in North Africa:The PerMediNA consortium., Transl Oncol 2024 Jun; 44(): 101940.
  • 2024
    Rai LS, Chauvel M, Sanchez H, van Wijlick L, Maufrais C, Cokelaer T, Sertour N, Legrand M, Sanyal K, Andes DR, Bachellier-Bassi S, d'Enfert C, Metabolic reprogramming during Candida albicans planktonic-biofilm transition is modulated by the transcription factors Zcf15 and Zcf26., PLoS Biol 2024 Jun; 22(6): e3002693.
  • 2024
    Mistretta M, Cimino M, Campagne P, Volant S, Kornobis E, Hebert O, Rochais C, Dallemagne P, Lecoutey C, Tisnerat C, Lepailleur A, Ayotte Y, LaPlante SR, Gangneux N, Záhorszká M, Korduláková J, Vichier-Guerre S, Bonhomme F, Pokorny L, Albert M, Tinevez JY, Manina G, Dynamic microfluidic single-cell screening identifies pheno-tuning compounds to potentiate tuberculosis therapy., Nat Commun 2024 May; 15(1): 4175.
  • 2024
    Dupont M, Krischuns T, Gianetto QG, Paisant S, Bonazza S, Brault JB, Douché T, Arragain B, Florez-Prada A, Perez-Perri JI, Hentze MW, Cusack S, Matondo M, Isel C, Courtney DG, Naffakh N, The RBPome of influenza A virus NP-mRNA reveals a role for TDP-43 in viral replication., Nucleic Acids Res 2024 Apr; (): .
  • 2024
    Troubat L, Fettahoglu D, Henches L, Aschard H, Julienne H, Multi-trait GWAS for diverse ancestries: mapping the knowledge gap., BMC Genomics 2024 Apr; 25(1): 375.
  • 2024
    Troubat L, Fettahoglu D, Henches L, Aschard H, Julienne H, Multi-trait GWAS for diverse ancestries: mapping the knowledge gap., BMC Genomics 2024 Apr; 25(1): 375.
  • 2024
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    Areski Flissi, Emma Ricart, Clémentine Campart, Mickael Chevalier, Yoann Dufresne, Juraj Michalik, Philippe Jacques, Christophe Flahaut, Frederique Lisacek, Valérie Leclère, Maude Pupin, Norine: update of the nonribosomal peptide resource, Nucleic Acids Research, 2019, ⟨10.1093/nar/gkz1000⟩.
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    Ranwez V, Criscuolo A, Douzery EJ, SuperTriplets: a triplet-based supertree approach to phylogenomics, Bioinformatics 2010 Jun;26(12):i115-23.
  • 2010
    Remenant B, Coupat-Goutaland B, Guidot A, Cellier G, Wicker E, Allen C, Fegan M, Pruvost O, Elbaz M, Calteau A, Salvignol G, Mornico D, Mangenot S, Barbe V, Médigue C, Prior P, Genomes of three tomato pathogens within the Ralstonia solanacearum species complex reveal significant evolutionary divergence, BMC Genomics 2010;11:379.
  • 2010
    Thiberge JM, Boursaux-Eude C, Lehours P, Dillies MA, Creno S, Coppée JY, Rouy Z, Lajus A, Ma L, Burucoa C, Ruskoné-Foumestraux A, Courillon-Mallet A, De Reuse H, Boneca IG, Lamarque D, Mégraud F, Delchier JC, Médigue C, Bouchier C, Labigne A, Raymond J, From array-based hybridization of Helicobacter pylori isolates to the complete genome sequence of an isolate associated with MALT lymphoma, BMC Genomics 2010;11:368.
  • 2010
    Briolant S, Almeras L, Belghazi M, Boucomont-Chapeaublanc E, Wurtz N, Fontaine A, Granjeaud S, Fusaï T, Rogier C, Pradines B, , Plasmodium falciparum proteome changes in response to doxycycline treatment., Malar J 2010 May; 9(): 141.
  • 2010
    Kornobis E, Pálsson S, Kristjánsson BK, Svavarsson J, Molecular evidence of the survival of subterranean amphipods (Arthropoda) during Ice Age underneath glaciers in Iceland, Mol. Ecol. 2010 Jun;19(12):2516-30.
  • 2010
    Almeras L, Fontaine A, Belghazi M, Bourdon S, Boucomont-Chapeaublanc E, Orlandi-Pradines E, Baragatti M, Corre-Catelin N, Reiter P, Pradines B, Fusai T, Rogier C, , Salivary gland protein repertoire from Aedes aegypti mosquitoes., Vector Borne Zoonotic Dis 2010 May; 10(4): 391-402.
  • 2010
    d'Alençon E, Sezutsu H, Legeai F, Permal E, Bernard-Samain S, Gimenez S, Gagneur C, Cousserans F, Shimomura M, Brun-Barale A, Flutre T, Couloux A, East P, Gordon K, Mita K, Quesneville H, Fournier P, Feyereisen R, Extensive synteny conservation of holocentric chromosomes in Lepidoptera despite high rates of local genome rearrangements, Proc. Natl. Acad. Sci. U.S.A. 2010 Apr;107(17):7680-5.
  • 2010
    Debarbieux L, Leduc D, Maura D, Morello E, Criscuolo A, Grossi O, Balloy V, Touqui L, Bacteriophages can treat and prevent Pseudomonas aeruginosa lung infections, J. Infect. Dis. 2010 Apr;201(7):1096-104.
  • 2010
    Malone J, Holloway E, Adamusiak T, Kapushesky M, Zheng J, Kolesnikov N, Zhukova A, Brazma A, Parkinson H, Modeling sample variables with an Experimental Factor Ontology, Bioinformatics 2010 Apr;26(8):1112-8.
  • 2010
    , Genome sequence of the pea aphid Acyrthosiphon pisum, PLoS Biol. 2010 Feb;8(2):e1000313.
  • 2010
    Coll O, Villalba A, Bussotti G, Notredame C, Gebauer F, A novel, noncanonical mechanism of cytoplasmic polyadenylation operates in Drosophila embryogenesis, Genes Dev. 2010 Jan;24(2):129-34.
  • 2009
    Rimbault M, Robin S, Vaysse A, Galibert F, RNA profiles of rat olfactory epithelia: individual and age related variations, BMC Genomics 2009 Dec;10:572.
  • 2009
    Vallenet D, Engelen S, Mornico D, Cruveiller S, Fleury L, Lajus A, Rouy Z, Roche D, Salvignol G, Scarpelli C, Médigue C, MicroScope: a platform for microbial genome annotation and comparative genomics, Database (Oxford) 2009;2009:bap021.
  • 2009
    Gould CM, Diella F, Via A, Puntervoll P, Gemünd C, Chabanis-Davidson S, Michael S, Sayadi A, Bryne JC, Chica C, Seiler M, Davey NE, Haslam N, Weatheritt RJ, Budd A, Hughes T, Pas J, Rychlewski L, Travé G, Aasland R, Helmer-Citterich M, Linding R, Gibson TJ, ELM: the status of the 2010 eukaryotic linear motif resource, Nucleic Acids Res. 2010 Jan;38(Database issue):D167-80.
  • 2009
    Steenkeste N, Dillies MA, Khim N, Sismeiro O, Chy S, Lim P, Crameri A, Bouchier C, Mercereau-Puijalon O, Beck HP, Imwong M, Dondorp AM, Socheat D, Rogier C, Coppée JY, Ariey F, FlexiChip package: an universal microarray with a dedicated analysis software for high-thoughput SNPs detection linked to anti-malarial drug resistance, Malar. J. 2009;8:229.
  • 2009
    Caignard G, Komarova AV, Bouraï M, Mourez T, Jacob Y, Jones LM, Rozenberg F, Vabret A, Freymuth F, Tangy F, Vidalain PO, Differential regulation of type I interferon and epidermal growth factor pathways by a human Respirovirus virulence factor, PLoS Pathog. 2009 Sep;5(9):e1000587.
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  • 2009
    Chica C, Diella F, Gibson TJ, Evidence for the concerted evolution between short linear protein motifs and their flanking regions, PLoS ONE 2009;4(7):e6052.
  • 2009
    Pastorino B, Boucomont-Chapeaublanc E, Peyrefitte CN, Belghazi M, Fusaï T, Rogier C, Tolou HJ, Almeras L, , Identification of cellular proteome modifications in response to West Nile virus infection., Mol Cell Proteomics 2009 Jul; 8(7): 1623-37.
  • 2009
    Abadie J, Hédan B, Cadieu E, De Brito C, Devauchelle P, Bourgain C, Parker HG, Vaysse A, Margaritte-Jeannin P, Galibert F, Ostrander EA, André C, Epidemiology, pathology, and genetics of histiocytic sarcoma in the Bernese mountain dog breed, J. Hered. 2009 Jul-Aug;100 Suppl 1:S19-27.
  • 2009
    Ghozlane A, Joseph AP, Bornot A, de Brevern AG, Analysis of protein chameleon sequence characteristics, Bioinformation 2009;3(9):367-9.
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    Criscuolo A, Michel CJ, Phylogenetic inference with weighted codon evolutionary distances, J. Mol. Evol. 2009 Apr;68(4):377-92.
  • 2009
    Bert A, Dmitriev I, Agliozzo S, Pietrosemoli N, Mandelkern M, Gallo T, Regge D, An automatic method for colon segmentation in CT colonography, Comput Med Imaging Graph 2009 Jun;33(4):325-31.
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  • 2008
    Diella F, Chabanis S, Luck K, Chica C, Ramu C, Nerlov C, Gibson TJ, KEPE–a motif frequently superimposed on sumoylation sites in metazoan chromatin proteins and transcription factors, Bioinformatics 2009 Jan;25(1):1-5.
  • 2008
    Abbott et al., Search for gravitational-wave bursts from soft gamma repeaters, Phys. Rev. Lett. 2008 Nov;101(21):211102.
  • 2008
    Malak S, Wolf M, Millot GA, Mariotte E, Veyradier A, Meynard JL, Korach JM, Malot S, Bussel A, Azoulay E, Boulanger E, Galicier L, Devaux E, Eschwège V, Gallien S, Adrie C, Schlemmer B, Rondeau E, Coppo P, , Human immunodeficiency virus-associated thrombotic microangiopathies: clinical characteristics and outcome according to ADAMTS13 activity, Scand. J. Immunol. 2008 Sep;68(3):337-44.
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  • 2008
    Chica C, Labarga A, Gould CM, López R, Gibson TJ, A tree-based conservation scoring method for short linear motifs in multiple alignments of protein sequences, BMC Bioinformatics 2008;9:229.
  • 2008
    Diella F, Haslam N, Chica C, Budd A, Michael S, Brown NP, Trave G, Gibson TJ, Understanding eukaryotic linear motifs and their role in cell signaling and regulation, Front. Biosci. 2008;13:6580-603.
  • 2008
    Perrodou E, Chica C, Poch O, Gibson TJ, Thompson JD, A new protein linear motif benchmark for multiple sequence alignment software, BMC Bioinformatics 2008;9:213.
  • 2008
    Criscuolo A, Gascuel O, Fast NJ-like algorithms to deal with incomplete distance matrices, BMC Bioinformatics 2008;9:166.
  • 2008
    Marcatili P, Bussotti G, Tramontano A, The MoVIN server for the analysis of protein interaction networks, BMC Bioinformatics 2008 Mar;9 Suppl 2:S11.
  • 2008
    Guinet F, Avé P, Jones L, Huerre M, Carniel E, Defective innate cell response and lymph node infiltration specify Yersinia pestis infection, PLoS ONE 2008;3(2):e1688.
  • 2008
    Michael S, Travé G, Ramu C, Chica C, Gibson TJ, Discovery of candidate KEN-box motifs using cell cycle keyword enrichment combined with native disorder prediction and motif conservation, Bioinformatics 2008 Feb;24(4):453-7.
  • 2008
    Gonnet F, Bouazza B, Millot GA, Ziaei S, Garcia L, Butler-Browne GS, Mouly V, Tortajada J, Danos O, Svinartchouk F, Proteome analysis of differentiating human myoblasts by dialysis-assisted two-dimensional gel electrophoresis (DAGE), Proteomics 2008 Jan;8(2):264-78.
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    Rossignol T, Lechat P, Cuomo C, Zeng Q, Moszer I, d'Enfert C, CandidaDB: a multi-genome database for Candida species and related Saccharomycotina, Nucleic Acids Res. 2008 Jan;36(Database issue):D557-61.
  • 2007
    Lechat P, Hummel L, Rousseau S, Moszer I, GenoList: an integrated environment for comparative analysis of microbial genomes, Nucleic Acids Res. 2008 Jan;36(Database issue):D469-74.
  • 2007
    Diella F, Gould CM, Chica C, Via A, Gibson TJ, Phospho.ELM: a database of phosphorylation sites–update 2008, Nucleic Acids Res. 2008 Jan;36(Database issue):D240-4.
  • 2007
    Ranwez V, Berry V, Criscuolo A, Fabre PH, Guillemot S, Scornavacca C, Douzery EJ, PhySIC: a veto supertree method with desirable properties, Syst. Biol. 2007 Oct;56(5):798-817.
  • 2007
    Caignard G, Guerbois M, Labernardière JL, Jacob Y, Jones LM, , Wild F, Tangy F, Vidalain PO, Measles virus V protein blocks Jak1-mediated phosphorylation of STAT1 to escape IFN-alpha/beta signaling, Virology 2007 Nov;368(2):351-62.
  • 2007
    Pietrosemoli N, Crespo A, Fernandez A, Dehydration propensity of order-disorder intermediate regions in soluble proteins, J. Proteome Res. 2007 Sep;6(9):3519-26.
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    Stinear TP, Seemann T, Pidot S, Frigui W, Reysset G, Garnier T, Meurice G, Simon D, Bouchier C, Ma L, Tichit M, Porter JL, Ryan J, Johnson PD, Davies JK, Jenkin GA, Small PL, Jones LM, Tekaia F, Laval F, Daffé M, Parkhill J, Cole ST, Reductive evolution and niche adaptation inferred from the genome of Mycobacterium ulcerans, the causative agent of Buruli ulcer, Genome Res. 2007 Feb;17(2):192-200.
  • 2007
    Benedetto D, Caglioti E, Chica C, Compressing proteomes: the relevance of medium range correlations, EURASIP J Bioinform Syst Biol 2007;:60723.
  • 2006
    Chica C, Jost C, Féthière J, Reynaud EG, Adéquation Germany, meeting the needs of scientists in the developing world, Biotechnol J 2006 Dec;1(12):1347-50.
  • 2006
    Criscuolo A, Berry V, Douzery EJ, Gascuel O, SDM: a fast distance-based approach for (super) tree building in phylogenomics, Syst. Biol. 2006 Oct;55(5):740-55.
  • 2006
    Coppo P, Wolf M, Veyradier A, Bussel A, Malot S, Millot GA, Daubin C, Bordessoule D, Pène F, Mira JP, Heshmati F, Maury E, Guidet B, Boulanger E, Galicier L, Parquet N, Vernant JP, Rondeau E, Azoulay E, Schlemmer B, , Prognostic value of inhibitory anti-ADAMTS13 antibodies in adult-acquired thrombotic thrombocytopenic purpura, Br. J. Haematol. 2006 Jan;132(1):66-74.
  • 2005
    Abbott et al., Upper limits on a stochastic background of gravitational waves, Phys. Rev. Lett. 2005 Nov;95(22):221101.
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    Hubert JF, Duchesne L, Delamarche C, Vaysse A, Gueuné H, Raguénès-Nicol C, Pore selectivity analysis of an aquaglyceroporin by stopped-flow spectrophotometry on bacterial cell suspensions, Biol. Cell 2005 Sep;97(9):675-86.
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    Abbott et al., Limits on gravitational-wave emission from selected pulsars using LIGO data, Phys. Rev. Lett. 2005 May;94(18):181103.
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    d'Enfert C, Goyard S, Rodriguez-Arnaveilhe S, Frangeul L, Jones L, Tekaia F, Bader O, Albrecht A, Castillo L, Dominguez A, Ernst JF, Fradin C, Gaillardin C, Garcia-Sanchez S, de Groot P, Hube B, Klis FM, Krishnamurthy S, Kunze D, Lopez MC, Mavor A, Martin N, Moszer I, Onésime D, Perez Martin J, Sentandreu R, Valentin E, Brown AJ, CandidaDB: a genome database for Candida albicans pathogenomics, Nucleic Acids Res. 2005 Jan;33(Database issue):D353-7.
  • 2004
    Coppo P, Bengoufa D, Veyradier A, Wolf M, Bussel A, Millot GA, Malot S, Heshmati F, Mira JP, Boulanger E, Galicier L, Durey-Dragon MA, Frémeaux-Bacchi V, Ramakers M, Pruna A, Bordessoule D, Gouilleux V, Scrobohaci ML, Vernant JP, Moreau D, Azoulay E, Schlemmer B, Guillevin L, Lassoued K, , Severe ADAMTS13 deficiency in adult idiopathic thrombotic microangiopathies defines a subset of patients characterized by various autoimmune manifestations, lower platelet count, and mild renal involvement, Medicine (Baltimore) 2004 Jul;83(4):233-44.
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    Lambert A, Fontaine JF, Legendre M, Leclerc F, Permal E, Major F, Putzer H, Delfour O, Michot B, Gautheret D, The ERPIN server: an interface to profile-based RNA motif identification, Nucleic Acids Res. 2004 Jul;32(Web Server issue):W160-5.
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    Millot GA, Vainchenker W, Duménil D, Svinarchuk F, Differential signalling of NH2-terminal flag-labelled thrombopoietin receptor activated by TPO or anti-FLAG antibodies, Cell. Signal. 2004 Mar;16(3):355-63.
  • 2003
    Maufrais C, Fazakerley GV, Cadet J, Boulard Y, Structural study of DNA duplex containing an N-(2-deoxy-beta-D-erythro-pentofuranosyl) formamide frameshift by NMR and restrained molecular dynamics, Nucleic Acids Res. 2003 Oct;31(20):5930-40.
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    Yeramian E, Jones L, GeneFizz: A web tool to compare genetic (coding/non-coding) and physical (helix/coil) segmentations of DNA sequences. Gene discovery and evolutionary perspectives, Nucleic Acids Res. 2003 Jul;31(13):3843-9.
  • 2003
    Coppo P, Dusanter-Fourt I, Millot G, Nogueira MM, Dugray A, Bonnet ML, Mitjavila-Garcia MT, Le Pesteur D, Guilhot F, Vainchenker W, Sainteny F, Turhan AG, Constitutive and specific activation of STAT3 by BCR-ABL in embryonic stem cells, Oncogene 2003 Jun;22(26):4102-10.
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    Chureau C, Prissette M, Bourdet A, Barbe V, Cattolico L, Jones L, Eggen A, Avner P, Duret L, Comparative sequence analysis of the X-inactivation center region in mouse, human, and bovine, Genome Res. 2002 Jun;12(6):894-908.
  • 2002
    Millot GA, Vainchenker W, Duménil D, Svinarchuk F, Distinct effects of thrombopoietin depending on a threshold level of activated Mpl in BaF-3 cells, J. Cell. Sci. 2002 Jun;115(Pt 11):2329-37.
  • 2002
    Filippi MD, Porteu F, Le Pesteur F, Schiavon V, Millot GA, Vainchenker W, de Sauvage FJ, Dubart Kupperschmitt A, Sainteny F, Requirement for mitogen-activated protein kinase activation in the response of embryonic stem cell-derived hematopoietic cells to thrombopoietin in vitro, Blood 2002 Feb;99(4):1174-82.
  • 2002
    Millot GA, Feger F, Garçon L, Vainchenker W, Dumenil D, Svinarchuk F, MplK, a natural variant of the thrombopoietin receptor with a truncated cytoplasmic domain, binds thrombopoietin but does not interfere with thrombopoietin-mediated cell growth, Exp. Hematol. 2002 Feb;30(2):166-75.
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