Papers including work performed at the Genomics Platform

Alphabetical order of first authors names

• 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
• Marinari E, Allard M, Gustave R, Widmer V, Philippin G, Merkler D, Tsantoulis P, Dutoit V, Dietrich PY. Inflammation and lymphocyte infiltration are associated with shorter survival in patients with high-grade glioma. Oncoimmunology. 2020 Jun 21;9(1):1779990.  > 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