Welcome to the website
of the iGE3 Genomics Platform
https://ige3.genomics.unige.ch
Publications
Publications including work performed on the Genomics Platform.
Alphabetical order of first authors names
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- Badaoui M, Sobolewski C, Luscher A, Bacchetta M, Köhler T, van Delden C, Foti M, Chanson M. Targeting HuR-Vav3 mRNA interaction prevents Pseudomonas aeruginosa adhesion to the cystic fibrosis airway epithelium. JCI Insight. 2023 Feb 8;8(3):e161961. > Pubmed
- Groelly FJ, Dagg RA, Mailler J, Halazonetis TD, Tarsounas M. High-resolution mapping of mitotic DNA synthesis under conditions of replication stress in cultured cells. STAR Protoc. 2023 Jan 3;4(1):101970. Online ahead of print. > Pubmed
- Petropoulos M, Champeris Tsaniras S, Nikou S, Maxouri S, Dionellis VS, Kalogeropoulou A, Karamichali A, Ioannidis K, Danalatos IR, Obst M, Naumann R, Delinasios GJ, Gorgoulis VG, Roukos V, Anastassiadis K, Halazonetis TD, Bravou V, Lygerou Z, Taraviras S. Cdt1 overexpression drives colorectal carcinogenesis through origin overlicensing and DNA damage. J Pathol. 2023 Jan;259(1):10-20. > Pubmed
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- Amirsoleimani A, Brion G, Francois P. Identifying metal resistance genes in Staphylococcus species isolated from wastewater and streams receiving treated effluent. Environ Eng Sci. 2022 Nov 9;39(11):866-876. > Journal
- Chauchet X, Cons L, Chatel L, Daubeuf B, Didelot G, Moine V, Chollet D, Malinge P, Pontini G, Masternak K, Ferlin W, Buatois V, Shang L. CD47xCD19 bispecific antibody triggers recruitment and activation of innate immune effector cells in a B-cell lymphoma xenograft model. Exp Hematol Oncol. 2022 May 10;11(1):26. > Pubmed
- Dietschi Q, Tuberosa J, Fodoulian L, Boillat M, Kan C, Codourey J, Pauli V, Feinstein P, Carleton A, Rodriguez I. Clustering of vomeronasal receptor genes is required for transcriptional stability but not for choice. Sci Adv. 2022 Nov 18;8(46):eabn7450. > Pubmed
- Durand BARN, Yahiaoui Martinez A, Baud D, François P, Lavigne JP, Dunyach-Remy C. Comparative genomics analysis of two Helcococcus kunzii strains co-isolated with Staphylococcus aureus from diabetic foot ulcers. Genomics. 2022 May;114(3):110365. > Pubmed
- Gloor Y, Matthey A, Sobo K, Mouterde M, Kosek E, Pickering G, Poloni ES, Cedraschi C, Ehret G, Desmeules JA. Uncovering a genetic polymorphism located in Huntingtin associated protein 1 in modulation of central pain sensitization signaling pathways. Front Neurosci. 2022 Jun 28;16:807773. > Pubmed
- Kieser S, Zdobnov EM, Trajkovski M. Comprehensive mouse microbiota genome catalog reveals major difference to its human counterpart. PLoS Comput Biol. 2022 Mar 8;18(3):e1009947. > Pubmed
- Lunghi M, Kloehn J, Krishnan A, Varesio E, Vadas O, Soldati-Favre D. Pantothenate biosynthesis is critical for chronic infection by the neurotropic parasite Toxoplasma gondii. Nat Commun. 2022 Jan 17;13(1):345. > Pubmed
- Maitre E, Cornet E, Debliquis A, Drenou B, Gravey F, Chollet D, Cheze S, Docquier M, Troussard X, Matthes T. Hairy cell leukemia: a specific 17-gene expression signature points to new targets for therapy. J Cancer Res Clin Oncol. 2022 Aug;148(8):2013-2022. > Pubmed
- Manna AC, Leo S, Girel S, González-Ruiz V, Rudaz S, Francois P, Cheung AL. Teg58, a small regulatory RNA, is involved in regulating arginine biosynthesis and biofilm formation in Staphylococcus aureus. Sci Rep. 2022 Sep 2;12(1):14963. > Pubmed
- Miozzo F, Valencia-Alarcón EP, Stickley L, Majcin Dorcikova M, Petrelli F, Tas D, Loncle N, Nikonenko I, Bou Dib P, Nagoshi E. Maintenance of mitochondrial integrity in midbrain dopaminergic neurons governed by a conserved developmental transcription factor. Nat Commun. 2022 Mar 17;13(1):1426. > Pubmed
- Mohammadi Ghahhari N, Sznurkowska MK, Hulo N, Bernasconi L, Aceto N, Picard D. Cooperative interaction between ERα and the EMT-inducer ZEB1 reprograms breast cancer cells for bone metastasis. Nat Commun. 2022 Apr 19;13(1):2104. > Pubmed
- Mouterde M, Daali Y, Rollason V, Čížková M, Mulugeta A, Al Balushi KA, Fakis G, Constantinidis TC, Al-Thihli K, Černá M, Makonnen E, Boukouvala S, Al-Yahyaee S, Yimer G, Černý V, Desmeules J, Poloni ES. Joint analysis of phenotypic and genomic diversity sheds light on the evolution of xenobiotic metabolism in humans. Genome Biol Evol. 2022 Dec 8;14(12):evac167. > Pubmed
- Petitpierre M, Stenz L, Paoloni-Giacobino A. Epigenomic changes after acupuncture treatment in patients suffering from burnout. Complement Med Res. 2022;29(2):109-119. > Pubmed
- Ramzy GM, Boschung L, Koessler T, Delucinge-Vivier C, Docquier M, McKee TA, Rubbia-Brandt L, Nowak-Sliwinska P. FOLFOXIRI resistance induction and characterization in human colorectal cancer cells. Cancers (Basel). 2022 Sep 30;14(19):4812. > Pubmed
- Roth M, Jaquet V, Lemeille S, Bonetti EJ, Cambet Y, François P, Krause KH. Transcriptomic analysis of E. coli after exposure to a sublethal concentration of hydrogen peroxide revealed a coordinated up-regulation of the cysteine biosynthesis pathway. Antioxidants (Basel). 2022 Mar 28;11(4):655. > Pubmed
- van der Mee-Marquet N, Dos Santos S, Diene SM, Duflot I, Mereghetti L, Valentin AS, François P, On Behalf Of The Spiadi Collaborative Group. Strong biofilm formation and low cloxacillin susceptibility in biofilm-growing CC398 Staphylococcus aureus responsible for bacteremia in French intensive care units, 2021. Microorganisms. 2022 Sep 16;10(9):1857. > Pubmed
- Vogg MC, Ferenc J, Buzgariu WC, Perruchoud C, Sanchez PGL, Beccari L, Nuninger C, Le Cras Y, Delucinge-Vivier C, Papasaikas P, Vincent S, Galliot B, Tsiairis CD. The transcription factor Zic4 promotes tentacle formation and prevents epithelial transdifferentiation in Hydra. Sci Adv. 2022 Dec 23;8(51):eabo0694. > Pubmed
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- Amirsoleimani A, Brion G, Francois P. Co-carriage of metal and antibiotic resistance genes in sewage-associated Staphylococci. Genes (Basel). 2021 Sep 23;12(10):1473. > Pubmed
- Beccari L, Jaquier G, Lopez-Delisle L, Rodriguez-Carballo E, Mascrez B, Gitto S, Woltering J, Duboule D. Dbx2 regulation in limbs suggests interTAD sharing of enhancers. Dev Dyn. 2021 Sep;250(9):1280-1299. > Pubmed
- Bibert S, Guex N, Lourenco J, Brahier T, Papadimitriou-Olivgeris M, Damonti L, Manuel O, Liechti R, Götz L, Tschopp J, Quinodoz M, Vollenweider P, Pagani JL, Oddo M, Hügli O, Lamoth F, Erard V, Voide C, Delorenzi M, Rufer N, Candotti F, Rivolta C, Boillat-Blanco N, Bochud PY; RegCOVID Study Group. Transcriptomic signature differences between SARS-CoV-2 and influenza virus infected patients. Front Immunol. 2021 May 31;12:666163. > Pubmed
- Buvelot H, Roth M, Jaquet V, Lozkhin A, Renzoni A, Bonetti EJ, Gaia N, Laumay F, Mollin M, Stasia MJ, Schrenzel J, François P, Krause KH. Hydrogen peroxide affects growth of S. aureus through downregulation of genes involved in pyrimidine biosynthesis. Front Immunol. 2021 Sep 7;12:673985. > Pubmed
- Cordey S, Laubscher F, Hartley MA, Junier T, Keitel K, Docquier M, Guex N, Iseli C, Vieille G, Le Mercier P, Gleizes A, Samaka J, Mlaganile T, Kagoro F, Masimba J, Said Z, Temba H, Elbanna GH, Tapparel C, Zanella MC, Xenarios I, Fellay J, D'Acremont V, Kaiser L. Blood virosphere in febrile Tanzanian children. Emerg Microbes Infect. 2021 Dec;10(1):982-993. > Pubmed
- Cosset E, Hibaoui Y, Ilmjärv S, Dietrich PY, Tapparel C, Krause KH. Modeling poliovirus infection using human engineered neural tissue enriched with motor neuron derived from embryonic stem cells. Front Cell Dev Biol. 2021 Jan 6;8:593106. > Pubmed
- Das K, Belnoue E, Rossi M, Hofer T, Danklmaier S, Nolden T, Schreiber LM, Angerer K, Kimpel J, Hoegler S, Spiesschaert B, Kenner L, von Laer D, Elbers K, Derouazi M, Wollmann G. A modular self-adjuvanting cancer vaccine combined with an oncolytic vaccine induces potent antitumor immunity. Nat Commun. 2021 Aug 31;12(1):5195. > Pubmed
- Filippova A, Bonini F, Efremova L, Locatelli M, Preynat-Seauve O, Béduer A, Krause KH, Braschler T. Neurothreads: Development of supportive carriers for mature dopaminergic neuron differentiation and implantation. Biomaterials. 2021 Mar;270:120707. > Pubmed
- Immarigeon C, Frei Y, Delbare SYN, Gligorov D, Machado Almeida P, Grey J, Fabbro L, Nagoshi E, Billeter JC, Wolfner MF, Karch F, Maeda RK. Identification of a micropeptide and multiple secondary cell genes that modulate Drosophila male reproductive success. Proc Natl Acad Sci U S A. 2021 Apr 13;118(15):e2001897118. > Pubmed
- Keskin T, Rucci B, Cornaz-Buros S, Martin P, Fusco C, Broye L, Cisarova K, Perez EM, Letovanec I, La Rosa S, Cherix S, Diezi M, Renella R, Provero P, Suvà ML, Stamenkovic I, Riggi N. A live single-cell reporter assay links intratumor heterogeneity to metastatic proclivity in Ewing sarcoma. Sci Adv. 2021 Jul 2;7(27):eabf9394. > Pubmed
- Kessal K, Daull P, Cimbolini N, Feraille L, Grillo S, Docquier M, Baudouin C, Brignole-Baudouin F, Garrigue JS. Comparison of two experimental mouse dry eye models through inflammatory gene set enrichment analysis based on a multiplexed transcriptomic approach. Int J Mol Sci. 2021 Oct 5;22(19):10770. > Pubmed
- Laumay F, Benchetrit H, Corvaglia AR, van der Mee-Marquet N, François P. The Staphylococcus aureus CC398 lineage: an evolution driven by the acquisition of prophages and other mobile genetic elements. Genes (Basel). 2021 Oct 30;12(11):1752. > Pubmed
- Leonardi A, Daull P, Garrigue JS, Cavarzeran F, Docquier M, Di Stefano A, Tarricone E, Brun P. Conjunctival transcriptome analysis reveals the overexpression of multiple pattern recognition receptors in vernal keratoconjunctivitis. Ocul Surf. 2021 Jan;19:241-248. > Pubmed
- Rausch M, Rutz A, Allard PM, Delucinge-Vivier C, Docquier M, Dormond O, Dyson PJ, Wolfender JL, Nowak-Sliwinska P. Drug repurposing to identify a synergistic high-order drug combination to treat sunitinib-resistant renal cell carcinoma. Cancers (Basel). 2021 Aug 6;13(16):3978. > Pubmed
- Rausch M, Rutz A, Allard PM, Delucinge-Vivier C, Docquier M, Dormond O, Wolfender JL, Nowak-Sliwinska P. Molecular and functional analysis of sunitinib-resistance induction in human renal cell carcinoma cells. Int J Mol Sci. 2021 Jun 16;22(12):6467. > Pubmed
- Renard A, Diene SM, Courtier-Martinez L, Gaillard JB, Gbaguidi-Haore H, Mereghetti L, Quentin R, Francois P, Van Der Mee-Marquet N. 12/111phiA prophage domestication is associated with autoaggregation and increased ability to produce biofilm in Streptococcus agalactiae. Microorganisms. 2021 May 21;9(6):1112. > Pubmed
- Rouco R, Bompadre O, Rauseo A, Fazio O, Peraldi R, Thorel F, Andrey G. Cell-specific alterations in Pitx1 regulatory landscape activation caused by the loss of a single enhancer. Nat Commun. 2021 Dec 13;12(1):7235. > Pubmed
- Seguin L, Odouard S, Corlazzoli F, Haddad SA, Moindrot L, Calvo Tardón M, Yebra M, Koval A, Marinari E, Bes V, Guérin A, Allard M, Ilmjärv S, Katanaev VL, Walker PR, Krause KH, Dutoit V, Sarkaria JN, Dietrich PY, Cosset E. Macropinocytosis requires Gal-3 in a subset of patient-derived glioblastoma stem cells. Commun Biol. 2021 Jun 10;4(1):718. > Pubmed
- Spoerl D, Docquier M, Coattrenec Y, Seebach JD. Patients with elevated basal tryptase serum levels should be tested for hereditary alpha-tryptasemia. Eur Ann Allergy Clin Immunol. 2021 Jun 11. > Pubmed
- Vanzan L, Soldati H, Ythier V, Anand S, Braun SMG, Francis N, Murr R. High throughput screening identifies SOX2 as a super pioneer factor that inhibits DNA methylation maintenance at its binding sites. Nat Commun. 2021 Jun 7;12(1):3337. > Pubmed
- Weiss B, Allen GE, Kloehn J, Abid K, Jaquier-Gubler P, Curran JA. eIF4E3 forms an active eIF4F complex during stresses (eIF4FS) targeting mTOR and re-programs the translatome. Nucleic Acids Res. 2021 May 21;49(9):5159-5176. > Pubmed
- Willemin A, Lopez-Delisle L, Bolt CC, Gadolini ML, Duboule D, Rodriguez-Carballo E. Induction of a chromatin boundary in vivo upon insertion of a TAD border. PLoS Genet. 2021 Jul 22;17(7):e1009691. > Pubmed
- Zanella MC, Cordey S, Laubscher F, Docquier M, Vieille G, Van Delden C, Braunersreuther V, Ta MK, Lobrinus JA, Masouridi-Levrat S, Chalandon Y, Kaiser L, Vu DL. Unmasking viral sequences by metagenomic next-generation sequencing in adult human blood samples during steroid-refractory/dependent graft-versus-host disease. Microbiome. 2021 Jan 24;9(1):28. > Pubmed
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- Amândio AR, Lopez-Delisle L, Bolt CC, Mascrez B, Duboule D. A complex regulatory landscape involved in the development of mammalian external genitals. Elife. 2020 Apr 17;9:e52962. > Pubmed
- Badaoui M, Zoso A, Idris T, Bacchetta M, Simonin J, Lemeille S, Wehrle-Haller B, Chanson M. Vav3 mediates Pseudomonas aeruginosa adhesion to the cystic fibrosis airway epithelium. Cell Rep. 2020 Jul 7;32(1):107842. > Pubmed
- Bernal C, Silvano M, Tapponnier Y, Anand S, Angulo C, Ruiz i Altaba A. Functional pro-metastatic heterogeneity revealed by spiked-scRNAseq is shaped by cancer cell interactions and restricted by VSIG1. Cell Rep. 2020 Nov 10;33(6):108372. > Pubmed
- Blaskovic S, Donati Y, Zanetti F, Ruchonnet-Métrailler I, Lemeille S, Cremona TP, Schittny JC, Barazzone-Argiroffo C. Gestation and lactation exposure to nicotine induces transient postnatal changes in lung alveolar development. Am J Physiol Lung Cell Mol Physiol. 2020 Apr 1;318(4):L606-L618. > Pubmed
- Butler RE, Smith AA, Mendum TA, Chandran A, Wu H, Lefrançois L, Chambers M, Soldati T, Stewart GR. Mycobacterium bovis uses the ESX-1 Type VII secretion system to escape predation by the soil-dwelling amoeba Dictyostelium discoideum. ISME J. 2020 Apr;14(4):919-930. > Pubmed
- Cosset E, Vannary T, Sloan-Béna F, Gimelli S, Gerstel E, Krause KH, Marteyn A. Generation of human induced pluripotent stem cell line UNIGEi003-A from skin fibroblasts of an apparently healthy male donor. Stem Cell Res. 2020 Oct;48:101928. > Pubmed
- Dyrda A, Koenig S, Frieden M. STIM1 long and STIM1 gate differently TRPC1 during store-operated calcium entry. Cell Calcium. 2020 Mar;86:102134. > Pubmed
- Fernandes JF, Laubscher F, Held J, Eckerle I, Docquier M, Grobusch MP, Mordmüller B, Kaiser L, Cordey S. Unbiased metagenomic next-generation sequencing of blood from hospitalized febrile children in Gabon. Emerg Microbes Infect. 2020 Dec;9(1):1242-1244. > Pubmed
- Fodoulian L, Tuberosa J, Rossier D, Boillat M, Kan C, Pauli V, Egervari K, Lobrinus JA, Landis BN, Carleton A, Rodriguez I. SARS-CoV-2 receptors and entry genes are expressed in the human olfactory neuroepithelium and brain. iScience. 2020 Dec 18;23(12):101839. > Pubmed
- Fontana P, Ibberson M, Stevenson B, Wigger L, Daali Y, Niknejad A, Mach F, Docquier M, Xenarios I, Cuisset T, Alessi MC, Reny JL. Contribution of exome sequencing to the identification of genes involved in the response to clopidogrel in cardiovascular patients. J Thromb Haemost. 2020 Jun;18(6):1425-1434. > Pubmed
- Gao W, Guérillot R, Lin YH, Tree J, Beaume M, François P, Monk IR, Seemann T, Schrenzel J, Howden BP, Stinear TP. Comparative transcriptomic and functional assessments of linezolid-responsive small RNA genes in Staphylococcus aureus. mSystems. 2020 Jan 7;5(1):e00665-19. > Pubmed
- Gill JK, Maffioletti A, García-Molinero V, Stutz F, Soudet J. Fine chromatin-driven mechanism of transcription interference by antisense noncoding transcription. Cell Rep. 2020 May 5;31(5):107612. > Pubmed
- Goldstein JD, Bassoy EY, Caruso A, Palomo J, Rodriguez E, Lemeille S, Gabay C. IL-36 signaling in keratinocytes controls early IL-23 production in psoriasis-like dermatitis. Life Sci Alliance. 2020 Apr 28;3(6):e202000688. > Pubmed
- Keskin T, Bakaric A, Waszyk P, Boulay G, Torsello M, Cornaz-Buros S, Chevalier N, Geiser T, Martin P, Volorio A, Iyer S, Kulkarni A, Letovanec I, Cherix S, Cote GM, Choy E, Digklia A, Montemurro M, Chebib I, Nielsen PG, Carcaboso AM, Mora J, Renella R, Suvà ML, Fusco C, Provero P, Rivera MN, Riggi N, Stamenkovic I. LIN28B underlies the pathogenesis of a subclass of Ewing sarcoma. Cell Rep. 2020 Mar 31;30(13):4567-4583.e5. > Pubmed
- Krishnan A, Kloehn J, Lunghi M, Chiappino-Pepe A, Waldman BS, Nicolas D, Varesio E, Hehl A, Lourido S, Hatzimanikatis V, Soldati-Favre D. Functional and computational genomics reveal unprecedented flexibility in stage-specific Toxoplasma metabolism. Cell Host Microbe. 2020 Feb 12;27(2):290-306.e11. > Pubmed
- Lamrabet O, Melotti A, Burdet F, Hanna N, Perrin J, Nitschke J, Pagni M, Hilbi H, Soldati T, Cosson P. Transcriptional responses of Dictyostelium discoideum exposed to different classes of bacteria. Front Microbiol. 2020 Mar 10;11:410. > Pubmed
- Lemeille S, Paschaki M, Baas D, Morlé L, Duteyrat JL, Ait-Lounis A, Barras E, Soulavie F, Jerber J, Thomas J, Zhang Y, Holtzman MJ, Kistler WS, Reith W, Durand B. Interplay of RFX transcription factors 1, 2 and 3 in motile ciliogenesis. Nucleic Acids Res. 2020 Sep 18;48(16):9019-9036. > Pubmed
- Li L, Wang G, Li Y, Francois P, Bayer AS, Chen L, Seidl K, Cheung A, Xiong YQ. Impact of the novel prophage ΦSA169 on persistent methicillin-resistant Staphylococcus aureus endovascular infection. mSystems. 2020 Jun 30;5(3):e00178-20. > Pubmed
- Lito S, Sidibe A, Ilmjarv S, Burda P, Baumgartner M, Wehrle-Haller B, Krause KH, Marteyn A. Induced pluripotent stem cells to understand mucopolysaccharidosis. I: demonstration of a migration defect in neural precursors. Cells. 2020 Dec 3;9(12):2593. > Pubmed
- Luscher A, Simonin J, Falconnet L, Valot B, Hocquet D, Chanson M, Resch G, Köhler T, van Delden C. Combined bacteriophage and antibiotic treatment prevents Pseudomonas aeruginosa infection of wild type and cftr- epithelial cells. Front Microbiol. 2020 Aug 26;11:1947. > Pubmed
- Macheret M, Bhowmick R, Sobkowiak K, Padayachy L, Mailler J, Hickson ID, Halazonetis TD. High-resolution mapping of mitotic DNA synthesis regions and common fragile sites in the human genome through direct sequencing. Cell Res. 2020 Nov;30(11):997-1008. > Pubmed
- Martin P, Palmer G, Rodriguez E, Palomo J, Lemeille S, Goldstein J, Gabay C. Intracellular IL-1 receptor antagonist isoform 1 released from keratinocytes upon cell death acts as an inhibitor for the Alarmin IL-1α. J Immunol. 2020 Feb 15;204(4):967-979. > Pubmed
- Mivelaz M, Cao AM, Kubik S, Zencir S, Hovius R, Boichenko I, Stachowicz AM, Kurat CF, Shore D, Fierz B. Chromatin fiber invasion and nucleosome displacement by the Rap1 transcription factor. Mol Cell. 2020 Feb 6; 77(3): 488–500.e9. > Pubmed
- Pandey RR, Delfino E, Homolka D, Roithova A, Chen KM, Li L, Franco G, Vågbø CB, Taillebourg E, Fauvarque MO, Pillai RS. The mammalian cap-specific m6Am RNA methyltransferase PCIF1 regulates transcript levels in mouse tissues. Cell Rep. 2020 Aug 18;32(7):108038. > Pubmed
- Rodríguez-Carballo E, Lopez-Delisle L, Willemin A, Beccari L, Gitto S, Mascrez B, Duboule D. Chromatin topology and the timing of enhancer function at the HoxD locus. Proc Natl Acad Sci U S A. 2020 Dec 8;117(49):31231-31241. > Pubmed
- Ronzoni FL, Lemeille S, Kuzyakiv R, Sampaolesi M, Jaconi ME. Human fetal mesoangioblasts reveal tissue-dependent transcriptional signatures. Stem Cells Transl Med. 2020 May;9(5):575-589. > Pubmed
- Rousset F, B C Kokje V, Sipione R, Schmidbauer D, Nacher-Soler G, Ilmjärv S, Coelho M, Fink S, Voruz F, El Chemaly A, Marteyn A, Löwenheim H, Krause KH, Müller M, Glückert R, Senn P. Intrinsically self-renewing neuroprogenitors from the A/J mouse spiral ganglion as virtually unlimited source of mature auditory neurons. Front Cell Neurosci. 2020 Dec 9;14:395. > Pubmed
- Rousset F, Nacher-Soler G, Coelho M, Ilmjarv S, Kokje VBC, Marteyn A, Cambet Y, Perny M, Roccio M, Jaquet V, Senn P, Krause KH. Redox activation of excitatory pathways in auditory neurons as mechanism of age-related hearing loss. Redox Biol. 2020 Feb;30:101434. > Pubmed
- Shyian M, Albert B, Zupan AM, Ivanitsa V, Charbonnet G, Dilg D, Shore D. Fork pausing complex engages topoisomerases at the replisome. Genes Dev. 2020 Jan 1;34(1-2):87-98. > Pubmed
- Sierra R, Prados J, Panasenko OO, Andrey DO, Fleuchot B, Redder P, Kelley WL, Viollier PH, Renzoni A. Insights into the global effect on Staphylococcus aureus growth arrest by induction of the endoribonuclease MazF toxin. Nucleic Acids Res. 2020 Sep 4;48(15):8545-8561. > Pubmed
- Yildiz S, Pereira Bonifacio Lopes JP, Bergé M, González-Ruiz V, Baud D, Kloehn J, Boal-Carvalho I, Schaeren OP, Schotsaert M, Hathaway LJ, Rudaz S, Viollier PH, Hapfelmeier S, Francois P, Schmolke M. Respiratory tissue-associated commensal bacteria offer therapeutic potential against pneumococcal colonization. Elife. 2020 Dec 8;9:e53581. > Pubmed
- Zencir S, Dilg D, Rueda MP, Shore D, Albert B. Mechanisms coordinating ribosomal protein gene transcription in response to stress. Nucleic Acids Res. 2020 Nov 18;48(20):11408-11420. > Pubmed
- Zoetemelk M, Ramzy GM, Rausch M, Koessler T, van Beijnum JR, Weiss A, Mieville V, Piersma SR, de Haas RR, Delucinge-Vivier C, Andres A, Toso C, Henneman AA, Ragusa S, Petrova TV, Docquier M, McKee TA, Jimenez CR, Daali Y, Griffioen AW, Rubbia-Brandt L, Dietrich PY, Nowak-Sliwinska P. Optimized low-dose combinatorial drug treatment boosts selectivity and efficacy of colorectal carcinoma treatment. Mol Oncol. 2020 Nov;14(11):2894-2919. > Pubmed
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- Albert B, Kos-Braun IC, Henras AK, Dez C, Rueda MP, Zhang X, Gadal O, Kos M, Shore D. A ribosome assembly stress response regulates transcription to maintain proteome homeostasis. Elife. 2019 May 24;8:e45002. > Pubmed
- Albert B, Tomassetti S, Gloor Y, Dilg D, Mattarocci S, Kubik S, Hafner L, Shore D. Sfp1 regulates transcriptional networks driving cell growth and division through multiple promoter-binding modes. Genes Dev. 2019 Mar 1;33(5-6):288-293. > Pubmed
- Amirsoleimani A, Brion GM, Diene SM, François P, Richard EM. Prevalence and characterization of Staphylococcus aureus in wastewater treatment plants by whole genomic sequencing. Water Res. 2019 Jul 1;158:193-202. > Pubmed
- Bronesky D, Desgranges E, Corvaglia A, François P, Caballero CJ, Prado L, Toledo-Arana A, Lasa I, Moreau K, Vandenesch F, Marzi S, Romby P, Caldelari I. A multifaceted small RNA modulates gene expression upon glucose limitation in Staphylococcus aureus. EMBO J. 2019 Mar 15;38(6). pii: e99363. > Pubmed
- Cederroth CR, Park JS, Basinou V, Weger BD, Tserga E, Sarlus H, Magnusson AK, Kadri N, Gachon F, Canlon B. Circadian regulation of cochlear sensitivity to noise by circulating glucocorticoids. Curr Biol. 2019 Aug 5;29(15):2477-2487.e6. > Pubmed
- Cordey S, Laubscher F, Hartley MA, Junier T, Pérez-Rodriguez FJ, Keitel K, Vieille G, Samaka J, Mlaganile T, Kagoro F, Boillat-Blanco N, Mbarack Z, Docquier M, Brito F, Eibach D, May J, Sothmann P, Aldrich C, Lusingu J, Tapparel C, D'Acremont V, Kaiser L. Detection of dicistroviruses RNA in blood of febrile Tanzanian children. Emerg Microbes Infect. 2019;8(1):613-623. > Pubmed
- Dahyot S, Lebeurre J, Laumay F, Argemi X, Dubos C, Lemée L, Prévost G, François P, Pestel-Caron M. fbl-typing of Staphylococcus lugdunensis: a frontline tool for epidemiological studies, but not predictive of fibrinogen binding ability. Front Microbiol. 2019 May 17;10:1109. > Pubmed
- Darbellay F, Bochaton C, Lopez-Delisle L, Mascrez B, Tschopp P, Delpretti S, Zakany J, Duboule D. The constrained architecture of mammalian Hox gene clusters. Proc Natl Acad Sci U S A. 2019 Jul 2;116(27):13424-13433. > Pubmed
- Daull P, Barabino S, Feraille L, Kessal K, Docquier M, Parsadaniantz SM, Baudouin C, Garrigue JS. Modulation of inflammation-related genes in the cornea of a mouse model of dry eye upon treatment with cyclosporine eye drops. Curr Eye Res. 2019 May;44(5):476-485. > Pubmed
- Delaney K, Strobino M, Wenda JM, Pankowski A, Steiner FA. H3.3K27M-induced chromatin changes drive ectopic replication through misregulation of the JNK pathway in C. elegans. Nat Commun. 2019 Jun 7;10(1):2529. > Pubmed
- Furuyama K, Chera S, van Gurp L, Oropeza D, Ghila L, Damond N, Vethe H, Paulo JA, Joosten AM, Berney T, Bosco D, Dorrell C, Grompe M, Ræder H, Roep BO, Thorel F, Herrera PL. Diabetes relief in mice by glucose-sensing insulin-secreting human α-cells. Nature. 2019 Mar;567(7746):43-48. > Pubmed
- Garcia A, Dunoyer-Geindre S, Zapilko V, Nolli S, Reny JL, Fontana P. Functional validation of microRNA-126-3p as a platelet reactivity regulator using human haematopoietic stem cells. Thromb Haemost. 2019 Feb;119(2):254-263. > Pubmed
- Klingler E, De la Rossa A, Fièvre S, Devaraju K, Abe P, Jabaudon D. A translaminar genetic logic for the circuit identity of intracortically projecting neurons. Curr Biol. 2019 Jan 21;29(2):332-339.e5. > Pubmed
- Kubik S, Bruzzone MJ, Challal D, Dreos R, Mattarocci S, Bucher P, Libri D, Shore D. Opposing chromatin remodelers control transcription initiation frequency and start site selection. Nat Struct Mol Biol. 2019 Aug;26(8):744-754. > Pubmed
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- Attar H, Bedard K, Migliavacca E, Gagnebin M, Dupré Y, Descombes P, Borel C, Deutsch S, Prokisch H, Meitinger T, Mehta D, Wichmann E, Delabar JM, Dermitzakis ET, Krause KH, Antonarakis SE. Extensive natural variation for cellular hydrogen peroxide release is genetically controlled. PLoS One. 2012;7(8):e43566. > Pubmed
- Bady P, Sciuscio D, Diserens AC, Bloch J, van den Bent MJ, Marosi C, Dietrich PY, Weller M, Mariani L, Heppner FL, Mcdonald DR, Lacombe D, Stupp R, Delorenzi M, Hegi ME. MGMT methylation analysis of glioblastoma on the Infinium methylation BeadChip identifies two distinct CpG regions associated with gene silencing and outcome, yielding a prediction model for comparisons across datasets, tumor grades, and CIMP-status. Acta Neuropathol. 2012 Oct;124(4):547-60. > Pubmed
- Belnoue E, Tougne C, Rochat AF, Lambert PH, Pinschewer DD, Siegrist CA. Homing and adhesion patterns determine the cellular composition of the bone marrow plasma cell niche. J Immunol. 2012 Feb 1;188(3):1283-91. > Pubmed
- Bonilla WV, Fröhlich A, Senn K, Kallert S, Fernandez M, Johnson S, Kreutzfeldt M, Hegazy AN, Schrick C, Fallon PG, Klemenz R, Nakae S, Adler H, Merkler D, Löhning M, Pinschewer DD. The alarmin interleukin-33 drives protective antiviral CD8+ T cell responses. Science. 2012 Feb 24;335(6071):984-9. > Pubmed
- Bouchard D, Peton V, Almeida S, Le Maréchal C, Miyoshi A, Azevedo V, Berkova N, Rault L, François P, Schrenzel J, Even S, Hernandez D, Le Loir Y. Genome sequence of Staphylococcus aureus Newbould 305, a strain associated with mild bovine mastitis. J Bacteriol. 2012 Nov;194(22):6292-3. > Pubmed
- Brankatschk B, Wichert SP, Johnson SD, Schaad O, Rossner MJ, Gruenberg J. Regulation of the EGF transcriptional response by endocytic sorting. Sci Signal. 2012 Mar 13;5(215):ra21. > Pubmed
- Delpretti S, Zakany J, Duboule D. A function for all posterior Hoxd genes during digit development? Dev Dyn. 2012 Apr;241(4):792-802. > Pubmed
- Fernandez P, Solenthaler M, Spertini O, Quarroz S, Rovo A, Lovey PY, Leoncini L, Ruault-Jungblut S, D’Asaro M, Schaad O, Docquier M, Descombes P, Matthes T; Swiss Cytometry Society. Using digital RNA counting and flow cytometry to compare mRNA with protein expression in acute leukemias. PLoS One. 2012;7(11):e49010. > Pubmed
- Fuertes Marraco SA, Grosjean F, Duval A, Rosa M, Lavanchy C, Ashok D, Haller S, Otten LA, Steiner QG, Descombes P, Luber CA, Meissner F, Mann M, Szeles L, Reith W, Acha-Orbea H. Novel murine dendritic cell lines: a powerful auxiliary tool for dendritic cell research. Front Immunol. 2012 Nov 7;3:331. > Pubmed
- Guillemot L, Schneider Y, Brun P, Castagliuolo I, Pizzuti D, Martines D, Jond L, Bongiovanni M, Citi S. Cingulin is dispensable for epithelial barrier function and tight junction structure, and plays a role in the control of claudin-2 expression and response to duodenal mucosa injury. J Cell Sci. 2012 Nov 1;125(Pt 21):5005-14. > Pubmed
- Lee KP, Piskurewicz U, Turečková V, Carat S, Chappuis R, Strnad M, Fankhauser C, Lopez-Molina L. Spatially and genetically distinct control of seed germination by phytochromes A and B. Genes Dev. 2012 Sep 1;26(17):1984-96. > Pubmed
- Mastelic B, Kamath AT, Fontannaz P, Tougne C, Rochat AF, Belnoue E, Combescure C, Auderset F, Lambert PH, Tacchini-Cottier F, Siegrist CA. Environmental and T cell-intrinsic factors limit the expansion of neonatal follicular T helper cells but may be circumvented by specific adjuvants. J Immunol. 2012 Dec 15;189(12):5764-72. > Pubmed
- Montavon T, Thevenet L, Duboule D. Impact of copy number variations (CNVs) on long-range gene regulation at the HoxD locus. Proc Natl Acad Sci U S A. 2012 Dec 11;109(50):20204-11. > Pubmed
- Morf J, Rey G, Schneider K, Stratmann M, Fujita J, Naef F, Schibler U. Cold-inducible RNA-binding protein modulates circadian gene expression posttranscriptionally. Science. 2012 Oct 19;338(6105):379-83. > Pubmed
- Salvi E, Kutalik Z, Glorioso N, Benaglio P, Frau F, Kuznetsova T, Arima H, Hoggart C, Tichet J, Nikitin YP, Conti C, Seidlerova J, Tikhonoff V, Stolarz-Skrzypek K, Johnson T, Devos N, Zagato L, Guarrera S, Zaninello R, Calabria A, Stancanelli B, Troffa C, Thijs L, Rizzi F, Simonova G, Lupoli S, Argiolas G, Braga D, D’Alessio MC, Ortu MF, Ricceri F, Mercurio M, Descombes P, Marconi M, Chalmers J, Harrap S, Filipovsky J, Bochud M, Iacoviello L, Ellis J, Stanton AV, Laan M, Padmanabhan S, Dominiczak AF, Samani NJ, Melander O, Jeunemaitre X, Manunta P, Shabo A, Vineis P, Cappuccio FP, Caulfield MJ, Matullo G, Rivolta C, Munroe PB, Barlassina C, Staessen JA, Beckmann JS, Cusi D. Genomewide association study using a high-density single nucleotide polymorphism array and case-control design identifies a novel essential hypertension susceptibility locus in the promoter region of endothelial NO synthase. Hypertension. 2012 Feb;59(2):248-55. > Pubmed
- Santoni de Sio FR, Barde I, Offner S, Kapopoulou A, Corsinotti A, Bojkowska K, Genolet R, Thomas JH, Luescher IF, Pinschewer D, Harris N, Trono D. KAP1 regulates gene networks controlling T-cell development and responsiveness. FASEB J. 2012 Nov;26(11):4561-75. > Pubmed
- Sappino AP, Buser R, Seguin Q, Fernet M, Lesne L, Gumy-Pause F, Reith W, Favaudon V and Mandriota SJ. The CEACAM1 tumor suppressor is an ATM and p53-regulated gene required for the induction of cellular senescence by DNA damage. Oncogenesis. 2012 Apr 16;1,e7. > Pubmed
- Saurat JH, Kaya G, Saxer-Sekulic N, Pardo B, Becker M, Fontao L, Mottu F, Carraux P, Pham XC, Barde C, Fontao F, Zennegg M, Schmid P, Schaad O, Descombes P, Sorg O. The cutaneous lesions of dioxin exposure: Lessons from the poisoning of V. Yushchenko. Toxicol Sci. 2012 Jan;125(1):310-7. > Pubmed
- Schibler M, Yerly S, Vieille G, Docquier M, Turin L, Kaiser L, Tapparel C. Critical analysis of rhinovirus RNA load quantification by real-time reverse transcription-PCR. J Clin Microbiol. 2012 Sep;50(9):2868-72. > Pubmed
- Tschopp P, Christen AJ, Duboule D. Bimodal control of Hoxd gene transcription in the spinal cord defines two regulatory subclusters. Development. 2012 Mar;139(5):929-39. > Pubmed
- Verdier V, Csárdi G, de Preux-Charles AS, Médard JJ, Smit AB, Verheijen MH, Bergmann S, Chrast R. Aging of myelinating glial cells predominantly affects lipid metabolism and immune response pathways. Glia. 2012 May;60(5):751-60. > Pubmed
- Zakany J, Duboule D. A genetic basis for altered sexual behavior in mutant female mice. Curr Biol. 2012 Sep 25;22(18):1676-80. > Pubmed
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- Abouzeid H, Boisset G, Favez T, Youssef M, Marzouk I, Shakankiry N, Bayoumi N, Descombes P, Agosti C, Munier FL, Schorderet DF. Mutations in the SPARC-related modular calcium-binding protein 1 gene, SMOC1, cause waardenburg anophthalmia syndrome. Am J Hum Genet. 2011 Jan 7;88(1):92-8. > Pubmed
- Andrés-Barrao C, Falquet L, Calderon-Copete SP, Descombes P, Ortega Pérez R, Barja F. Genome sequences of the high-acetic acid-resistant bacteria Gluconacetobacter europaeus LMG 18890T and G. europaeus LMG 18494 (reference strains), G. europaeus 5P3, and Gluconacetobacter oboediens 174Bp2 (isolated from vinegar). J Bacteriol. 2011 May;193(10):2670-1. > Pubmed
- Beaume M, Hernandez D, Docquier M, Delucinge-Vivier C, Descombes P, François P. Orientation and expression of methicillin-resistant Staphylococcus aureus small RNAs by direct multiplexed measurements using the nCounter of NanoString technology. J Microbiol Methods. 2011 Feb;84(2):327-34. > Pubmed
- Dunand-Sauthier I, Santiago-Raber ML, Capponi L, Vejnar CE, Schaad O, Irla M, Seguín-Estévez Q, Descombes P, Zdobnov EM, Acha-Orbea H, Reith W. Silencing of c-Fos expression by microRNA-155 is critical for dendritic cell maturation and function. Blood. 2011 Apr 28;117(17):4490-500. > Pubmed
- Gyurján I, Sonderegger B, Naef F, Duboule D. Analysis of the dynamics of limb transcriptomes during mouse development. BMC Dev Biol. 2011 Jul 29;11:47. > Pubmed
- Hegi ME, Diserens AC, Bady P, Kamoshima Y, Kouwenhoven MC, Delorenzi M, Lambiv WL, Hamou MF, Matter MS, Koch A, Heppner FL, Yonekawa Y, Merlo A, Frei K, Mariani L, Hofer S. Pathway analysis of glioblastoma tissue after preoperative treatment with the EGFR tyrosine kinase inhibitor gefitinib–a phase II trial. Mol Cancer Ther. 2011 Jun;10(6):1102-12. > Pubmed
- Hruz T, Wyss M, Docquier M, Pfaffl MW, Masanetz S, Borghi L, Verbrugghe P, Kalaydjieva L, Bleuler S, Laule O, Descombes P, Gruissem W, Zimmermann P. RefGenes: identification of reliable and condition specific reference genes for RT-qPCR data normalization. BMC Genomics. 2011 Mar 21;12:156. > Pubmed
- Huber A, French SL, Tekotte H, Yerlikaya S, Stahl M, Perepelkina MP, Tyers M, Rougemont J, Beyer AL, Loewith R. Sch9 regulates ribosome biogenesis via Stb3, Dot6 and Tod6 and the histone deacetylase complex RPD3L. EMBO J. 2011 Jul 5;30(15):3052-64. > Pubmed
- Le Maréchal C, Hernandez D, Schrenzel J, Even S, Berkova N, Thiéry R, Vautor E, Fitzgerald JR, François P, Le Loir Y. Genome sequences of two Staphylococcus aureus ovine strains that induce severe (strain O11) and mild (strain O46) mastitis. J Bacteriol. 2011 May;193(9):2353-4. > Pubmed
- Montavon T, Soshnikova N, Mascrez B, Joye E, Thevenet L, Splinter E, de Laat W, Spitz F, Duboule D. A regulatory archipelago controls Hox genes transcription in digits. Cell. 2011 Nov 23;147(5):1132-45. > Pubmed
- Nair D, Memmi G, Hernandez D, Bard J, Beaume M, Gill S, Francois P, Cheung AL. Whole-genome sequencing of Staphylococcus aureus strain RN4220, a key laboratory strain used in virulence research, identifies mutations that affect not only virulence factors but also the fitness of the strain. J Bacteriol. 2011 May;193(9):2332-5. > Pubmed
- Nikolaev SI, Rimoldi D, Iseli C, Valsesia A, Robyr D, Gehrig C, Harshman K, Guipponi M, Bukach O, Zoete V, Michielin O, Muehlethaler K, Speiser D, Beckmann JS, Xenarios I, Halazonetis TD, Jongeneel CV, Stevenson BJ, Antonarakis SE. Exome sequencing identifies recurrent somatic MAP2K1 and MAP2K2 mutations in melanoma. Nat Genet. 2011 Dec 25;44(2):133-9. > Pubmed
- Noordermeer D, Leleu M, Splinter E, Rougemont J, De Laat W, Duboule D. The dynamic architecture of Hox gene clusters. Science. 2011 Oct 14;334(6053):222-5. > Pubmed
- Papaioannou MD, Lagarrigue M, Vejnar CE, Rolland AD, Kühne F, Aubry F, Schaad O, Fort A, Descombes P, Neerman-Arbez M, Guillou F, Zdobnov EM, Pineau C, Nef S. Loss of Dicer in Sertoli cells has a major impact on the testicular proteome of mice. Mol Cell Proteomics. 2011 Apr;10(4):M900587MCP200. > Pubmed
- Rotger M, Dalmau J, Rauch A, McLaren P, Bosinger SE, Martinez R, Sandler NG, Roque A, Liebner J, Battegay M, Bernasconi E, Descombes P, Erkizia I, Fellay J, Hirschel B, Miró JM, Palou E, Hoffmann M, Massanella M, Blanco J, Woods M, Günthard HF, de Bakker P, Douek DC, Silvestri G, Martinez-Picado J, Telenti A. Comparative transcriptomics of extreme phenotypes of human HIV-1 infection and SIV infection in sooty mangabey and rhesus macaque. J Clin Invest. 2011 Jun;121(6):2391-400. > Pubmed
- Rubbia-Brandt L, Tauzin S, Brezault C, Delucinge-Vivier C, Descombes P, Dousset B, Majno PE, Mentha G, Terris B. Gene expression profiling provides insights into pathways of oxaliplatin related sinusoidal obstruction syndrome in humans. Mol Cancer Ther. 2011 Apr;10(4):687-96. > Pubmed
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- Cederroth CR, Zimmermann C, Beny JL, Schaad O, Combepine C, Descombes P, Doerge DR, Pralong FP, Vassalli JD, Nef S. Potential detrimental effects of a phytoestrogen-rich diet on male fertility in mice. Mol Cell Endocrinol. 2010 Jun 10;321(2):152-60. > Pubmed
- De Cegli R, Romito A, Iacobacci S, Mao L, Lauria M, Fedele AO, Klose J, Borel C, Descombes P, Antonarakis SE, di Bernardo D, Banfi S, Ballabio A, Cobellis G. A mouse embryonic stem cell bank for inducible overexpression of human chromosome 21 genes. Genome Biol. 2010;11(6):R64. > Pubmed
- Gruaz L, Delucinge-Vivier C, Descombes P, Dayer JM, Burger D. Blockade of T cell contact-activation of human monocytes by high-density lipoproteins reveals a new pattern of cytokine and inflammatory genes. PLoS One. 2010 Feb 25;5(2):e9418. > Pubmed
- Hübner NC, Wang LH, Kaulich M, Descombes P, Poser I, Nigg EA. Re-examination of siRNA specificity questions role of PICH and Tao1 in the spindle checkpoint and identifies Mad2 as a sensitive target for small RNAs. Chromosoma. 2010 Apr;119(2):149-65. > Pubmed
- Lubomirov R, di Iulio J, Fayet A, Colombo S, Martinez R, Marzolini C, Furrer H, Vernazza P, Calmy A, Cavassini M, Ledergerber B, Rentsch K, Descombes P, Buclin T, Decosterd LA, Csajka C, Telenti A; Swiss HIV Cohort Study. ADME pharmacogenetics: investigation of the pharmacokinetics of the antiretroviral agent lopinavir coformulated with ritonavir. Pharmacogenet Genomics. 2010 Apr;20(4):217-30. > Pubmed
- Rauch A, Kutalik Z, Descombes P, Cai T, Di Iulio J, Mueller T, Bochud M, Battegay M, Bernasconi E, Borovicka J, Colombo S, Cerny A, Dufour JF, Furrer H, Günthard HF, Heim M, Hirschel B, Malinverni R, Moradpour D, Müllhaupt B, Witteck A, Beckmann JS, Berg T, Bergmann S, Negro F, Telenti A, Bochud PY; Swiss Hepatitis C Cohort Study; Swiss HIV Cohort Study. Genetic variation in IL28B is associated with chronic hepatitis C and treatment failure: a genome-wide association study. Gastroenterology. 2010 Apr;138(4):1338-45, 1345.e1-7. > Pubmed
- Rotger M, Dang KK, Fellay J, Heinzen EL, Feng S, Descombes P, Shianna KV, Ge D, Günthard HF, Goldstein DB, Telenti A; Swiss HIV Cohort Study; Center for HIV/AIDS Vaccine Immunology. Genome-wide mRNA expression correlates of viral control in CD4+ T-cells from HIV-1-infected individuals. PLoS Pathog. 2010 Feb 26;6(2):e1000781. > Pubmed
- Yokthongwattana C, Bucher E, Caikovski M, Vaillant I, Nicolet J, Mittelsten Scheid O, Paszkowski J. MOM1 and Pol-IV⁄V interactions regulate the intensity and specificity of transcriptional gene silencing. EMBO J. 2010 Jan 20;29(2):340-51. > Pubmed
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- Bianchi EN, Ferrari SL. ß-arrestin2 regulates parathyroid hormone effects on a p38 MAPK and NFκB gene expression network in osteoblasts. Bone. 2009 Oct;45(4):716-25. > Pubmed
- Fellay J, Ge D, Shianna KV, Colombo S, Ledergerber B, Cirulli ET, Urban TJ, Zhang K, Gumbs CE, Smith JP, Castagna A, Cozzi-Lepri A, De Luca A, Easterbrook P, Günthard HF, Mallal S, Mussini C, Dalmau J, Martinez-Picado J, Miro JM, Obel N, Wolinsky SM, Martinson JJ, Detels R, Margolick JB, Jacobson LP, Descombes P, Antonarakis SE, Beckmann JS, O’Brien SJ, Letvin NL, McMichael AJ, Haynes BF, Carrington M, Feng S, Telenti A, Goldstein DB; NIAID Center for HIV/AIDS Vaccine Immunology (CHAVI). Common genetic variation and the control of HIV-1 in humans. PLoS Genet. 2009 Dec;5(12):e1000791. > Pubmed
- Gatfield D, Le Martelot G, Vejnar CE, Gerlach D, Schaad O, Fleury-Olela F, Ruskeepää AL, Oresic M, Esau CC, Zdobnov EM, Schibler U. Integration of microRNA miR-122 in hepatic circadian gene expression. Genes Dev. 2009 Jun 1;23(11):1313-26. > Pubmed
- Geoffroy CG, Critchley JA, Castro DS, Ramelli S, Barraclough C, Descombes P, Guillemot F, Raineteau O. Engineering of dominant active basic helix-loop-helix proteins that are resistant to negative regulation by postnatal central nervous system antineurogenic cues. Stem Cells. 2009 Apr;27(4):847-56. > Pubmed
- Hayoz S, Bychkov R, Serir K, Docquier M, Bény JL. Purinergic activation of a leak potassium current in freshly dissociated myocytes from mouse thoracic aorta. Acta Physiol (Oxf). 2009 Feb;195(2):247-58. > Pubmed
- Iff J, Wang W, Sajic T, Oudry N, Gueneau E, Hopfgartner G, Varesio E, Szanto I. Differential proteomic analysis of STAT6 knockout mice reveals new regulatory function in liver lipid homeostasis. J Proteome Res. 2009 Oct;8(10):4511-24. > Pubmed
- Le Martelot G, Claudel T, Gatfield D, Schaad O, Kornmann B, Sasso GL, Moschetta A, Schibler U. REV-ERBalpha participates in circadian SREBP signaling and bile acid homeostasis. PLoS Biol. 2009 Sep;7(9):e1000181. > Pubmed
- Nikolaev SI, Deutsch S, Genolet R, Borel C, Parand L, Ucla C, Schütz F, Duriaux Sail G, Dupré Y, Jaquier-Gubler P, Araud T, Conne B, Descombes P, Vassalli JD, Curran J, Antonarakis SE. Transcriptional and post-transcriptional profile of human chromosome 21. Genome Res. 2009 Aug;19(8):1471-9. > Pubmed
- Pandey DP, Lappano R, Albanito L, Madeo A, Maggiolini M, Picard D. Estrogenic GPR30 signalling induces proliferation and migration of breast cancer cells through CTGF. EMBO J. 2009 Mar 4;28(5):523-32. > Pubmed
- Pandey DP, Picard D. miR-22 Inhibits estrogen signaling by directly targeting the estrogen receptor α mRNA. Mol Cell Biol. 2009 Jul;29(13):3783-90. > Pubmed
- Papaioannou MD, Pitetti JL, Ro S, Park C, Aubry F, Schaad O, Vejnar CE, Kühne F, Descombes P, Zdobnov EM, McManus MT, Guillou F, Harfe BD, Yan W, Jégou B, Nef S. Sertoli cell Dicer is essential for spermatogenesis in mice. Dev Biol. 2009 Feb 1;326(1):250-9. > Pubmed
- Pazienza V, Clément S, Pugnale P, Conzelmann S, Pascarella S, Mangia A, Negro F. Gene expression profile of Huh-7 cells expressing hepatitis C virus genotype 1b or 3a core proteins. Liver Int. 2009 May;29(5):661-9. > Pubmed
- Pugnale P, Pazienza V, Guilloux K, Negro F. Hepatitis delta virus inhibits alpha interferon signaling. Hepatology. 2009 Feb;49(2):398-406. > Pubmed
- Ramirez JM, Schaad O, Durual S, Cossali D, Docquier M, Beris P, Descombes P, Matthes T. Growth differentiation factor 15 production is necessary for normal erythroid differentiation and is increased in refractory anaemia with ring-sideroblasts. Br J Haematol. 2009 Jan;144(2):251-62. > Pubmed
- Reinders J, Wulff BB, Mirouze M, Marí-Ordóñez A, Dapp M, Rozhon W, Bucher E, Theiler G, Paszkowski J. Compromised stability of DNA methylation and transposon immobilization in mosaic Arabidopsis epigenomes. Genes Dev. 2009 Apr 15;23(8):939-50. > Pubmed
- Skowronska-Krawczyk D, Chiodini F, Ebeling M, Alliod C, Kundzewicz A, Castro D, Ballivet M, Guillemot F, Matter-Sadzinski L, Matter JM. Conserved regulatory sequences in Atoh7 mediate non-conserved regulatory responses in retina ontogenesis. Development. 2009 Nov;136(22):3767-77. > Pubmed
- Soshnikova N, Duboule D. Epigenetic temporal control of mouse Hox genes in vivo. Science. 2009 Jun 5;324(5932):1320-3. > Pubmed
- Taddei A, Van Houwe G, Nagai S, Erb I, van Nimwegen E, Gasser SM. The functional importance of telomere clustering: global changes in gene expression result from SIR factor dispersion. Genome Res. 2009 Apr;19(4):611-25. > Pubmed
- Vinciguerra M, Sgroi A, Veyrat-Durebex C, Rubbia-Brandt L, Buhler LH, Foti M. Unsaturated fatty acids inhibit the expression of tumor suppressor phosphatase and tensin homolog (PTEN) via microRNA-21 up-regulation in hepatocytes. Hepatology. 2009 Apr;49(4):1176-84. > Pubmed
- Zhang SJ, Zou M, Lu L, Lau D, Ditzel DA, Delucinge-Vivier C, Aso Y, Descombes P, Bading H. Nuclear calcium signaling controls expression of a large gene pool: identification of a gene program for acquired neuroprotection induced by synaptic activity. PLoS Genet. 2009 Aug;5(8):e1000604. > Pubmed
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- Bonnefont J, Nikolaev SI, Perrier AL, Guo S, Cartier L, Sorce S, Laforge T, Aubry L, Khaitovich P, Peschanski M, Antonarakis SE, Krause KH. Evolutionary forces shape the human RFPL1,2,3 genes toward a role in neocortex development. Am J Hum Genet. 2008 Aug;83(2):208-18. > Pubmed
- Cederroth CR, Vinciguerra M, Gjinovci A, Kühne F, Klein M, Cederroth M, Caille D, Suter M, Neumann D, James RW, Doerge DR, Wallimann T, Meda P, Foti M, Rohner-Jeanrenaud F, Vassalli JD, Nef S. Dietary phytoestrogens activate AMP-activated protein kinase with improvement in lipid and glucose metabolism. Diabetes. 2008 May;57(5):1176-85. > Pubmed
- Clément S, Juge-Aubry C, Sgroi A, Conzelmann S, Pazienza V, Pittet-Cuenod B, Meier CA, Negro F. Monocyte chemoattractant protein-1 secreted by adipose tissue induces direct lipid accumulation in hepatocytes. Hepatology. 2008 Sep;48(3):799-807. > Pubmed
- Fokstuen S, Lyle R, Munoz A, Gehrig C, Lerch R, Perrot A, Osterziel KJ, Geier C, Beghetti M, Mach F, Sztajzel J, Sigwart U, Antonarakis SE, Blouin JL. A DNA resequencing array for pathogenic mutation detection in hypertrophic cardiomyopathy. Hum Mutat. 2008 Jun;29(6):879-85. > Pubmed
- Friedli M, Nikolaev S, Lyle R, Arcangeli M, Duboule D, Spitz F, Antonarakis SE. Characterization of mouse Dactylaplasia mutations: a model for human ectrodactyly SHFM3. Mamm Genome. 2008 Apr;19(4):272-8. > Pubmed
- Grégoire D, Kmita M. Recombination between inverted loxP sites is cytotoxic for proliferating cells and provides a simple tool for conditional cell ablation. Proc Natl Acad Sci U S A. 2008 Sep 23;105(38):14492-6. > Pubmed
- Hoecker N, Keller B, Muthreich N, Chollet D, Descombes P, Piepho HP, Hochholdinger F. Comparison of maize (Zea mays L.) F1-hybrid and parental inbred line primary root transcriptomes suggests organ-specific patterns of nonadditive gene expression and conserved expression trends. Genetics. 2008 Jul;179(3):1275-83. > Pubmed
- Krawczyk M, Seguín-Estévez Q, Leimgruber E, Sperisen P, Schmid C, Bucher P, Reith W. Identification of CIITA regulated genetic module dedicated for antigen presentation. PLoS Genet. 2008 Apr 25;4(4):e1000058. > Pubmed
- Montavon T, Le Garrec JF, Kerszberg M, Duboule D. Modeling Hox gene regulation in digits: reverse collinearity and the molecular origin of thumbness. Genes Dev. 2008 Feb 1;22(3):346-59. > Pubmed
- Murat A, Migliavacca E, Gorlia T, Lambiv WL, Shay T, Hamou MF, de Tribolet N, Regli L, Wick W, Kouwenhoven MC, Hainfellner JA, Heppner FL, Dietrich PY, Zimmer Y, Cairncross JG, Janzer RC, Domany E, Delorenzi M, Stupp R, Hegi ME. Stem cell-related “self-renewal” signature and high epidermal growth factor receptor expression associated with resistance to concomitant chemoradiotherapy in glioblastoma. J Clin Oncol. 2008 Jun 20;26(18):3015-24. > Pubmed
- Reinders J, Delucinge Vivier C, Theiler G, Chollet D, Descombes P, Paszkowski J. Genome-wide, high-resolution DNA methylation profiling using bisulfite-mediated cytosine conversion. Genome Res. 2008 Mar;18(3):469-76. > Pubmed
- Simon DF, Descombes P, Zerges W, Wilkinson KJ. Global expression profiling of Chlamydomonas reinhardtii exposed to trace levels of free cadmium. Environ Toxicol Chem. 2008 Aug;27(8):1668-75. > Pubmed
- Sorg O, Tran C, Carraux P, Grand D, Barraclough C, Arrighi JF, Descombes P, Piguet V, Saurat JH. Metabolism and biological activities of topical 4-oxoretinoids in mouse skin. J Invest Dermatol. 2008 Apr;128(4):999-1008. > Pubmed
- Spierer A, Begeot F, Spierer P, Delattre M. SU(VAR)3-7 links heterochromatin and dosage compensation in Drosophila. PLoS Genet. 2008 May 2;4(5):e1000066. > Pubmed
- Vinciguerra M, Veyrat-Durebex C, Moukil MA, Rubbia-Brandt L, Rohner-Jeanrenaud F, Foti M. PTEN down-regulation by unsaturated fatty acids triggers hepatic steatosis via an NF-κBp65/mTOR-dependent mechanism. Gastroenterology. 2008 Jan;134(1):268-80. > Pubmed
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- Anghel SI, Bedu E, Vivier CD, Descombes P, Desvergne B, Wahli W. Adipose tissue integrity as a prerequisite for systemic energy balance: a critical role for peroxisome proliferator-activated receptor gamma. J Biol Chem. 2007 Oct 12;282(41):29946-57. > Pubmed
- Bianchi A, Shore D. Early replication of short telomeres in budding yeast. Cell. 2007 Mar 23;128(6):1051-62. > Pubmed
- Cederroth CR, Schaad O, Descombes P, Chambon P, Vassalli JD, Nef S. Estrogen receptor α is a major contributor to estrogen-mediated fetal testis dysgenesis and cryptorchidism. Endocrinology. 2007 Nov;148(11):5507-19. > Pubmed
- Cederroth CR, Vinciguerra M, Kühne F, Madani R, Doerge DR, Visser TJ, Foti M, Rohner-Jeanrenaud F, Vassalli JD, Nef S. A phytoestrogen-rich diet increases energy expenditure and decreases adiposity in mice. Environ Health Perspect. 2007 Oct;115(10):1467-73. > Pubmed
- De Gottardi A, Vinciguerra M, Sgroi A, Moukil M, Ravier-Dall’Antonia F, Pazienza V, Pugnale P, Foti M, Hadengue A. Microarray analyses and molecular profiling of steatosis induction in immortalized human hepatocytes. Lab Invest. 2007 Aug;87(8):792-806. > Pubmed
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