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Publications including work performed in the frame of iGE3.
Alphabetical order of first authors' names

2020

  • Alfaiate D, Clément S, Gomes D, Goossens N, Negro F. Chronic hepatitis D and hepatocellular carcinoma: A systematic review and meta-analysis of observational studies. J Hepatol. 2020 Mar 6:S0168-8278(20)30129-X. Pubmed
  • Al-Yafei Z, Goeury T, Alvares M, Al Seiari M, Sanchez-Mazas A, Elghazali G. United Arab Emirates: Unusual departure from neutrality towards excess of homozygotes at the HLA-B locus. HLA. 2020 May;95(5):470-473. Pubmed
  • Ansar M, Ebstein F, Özkoç H, Paracha SA, Iwaszkiewicz J, Gesemann M, Zoete V, Ranza E, Santoni FA, Sarwar MT, Ahmed J, Krüger E, Bachmann-Gagescu R, Antonarakis SE. Biallelic variants in PSMB1 encoding the proteasome subunit β6 cause impairment of proteasome function, microcephaly, intellectual disability, developmental delay and short stature. Hum Mol Genet. 2020 May 8;29(7):1132-1143. Pubmed
  • Ansar M, Ranza E, Shetty M, Paracha SA, Azam M, Kern I, Iwaszkiewicz J, Farooq O, Pournaras CJ, Malcles A, Kecik M, Rivolta C, Muzaffar W, Qurban A, Ali L, Aggoun Y, Santoni FA, Makrythanasis P, Ahmed J, Qamar R, Sarwar MT, Henry LK, Antonarakis SE. Taurine treatment of retinal degeneration and cardiomyopathy in a consanguineous family with SLC6A6 taurine transporter deficiency. Hum Mol Genet. 2020 Mar 13;29(4):618-623. Pubmed
  • Ardissone S, Kint N, Petrignani B, Panis G, Viollier PH. Secretion relieves translational co-repression by a specialized flagellin paralog. Dev Cell. 2020 Nov 23;55(4):500-513.e4. Pubmed
  • Ardissone S, Kint N, Viollier PH. Specificity in glycosylation of multiple flagellins by the modular and cell cycle regulated glycosyltransferase FlmG. Elife. 2020 Oct 27;9:e60488. 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
  • Barquera R, Collen E, Buhler S, Teixeira J, Llamas B, Nunes JM, Sanchez-Mazas A. Binding affinities of 438 HLA proteins to complete proteomes of seven pandemic viruses and distributions of strongest and weakest HLA peptide binders in populations worldwide. HLA. 2020 Sep;96(3):277-298. 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
  • Boillat M, Hammoudi PM, Dogga SK, Pagès S, Goubran M, Rodriguez I, Soldati-Favre D. Neuroinflammation-associated aspecific manipulation of mouse predator fear by Toxoplasma gondii. Cell Rep. 2020 Jan 14;30(2):320-334.e6. Pubmed
  • Branco C, Ray N, Currat M, Arenas M. Influence of Paleolithic range contraction, admixture and long-distance dispersal on genetic gradients of modern humans in Asia. Mol Ecol. 2020 Jun;29(12):2150-2159. Pubmed
  • Buzgariu W, Curchod ML, Perruchoud C, Galliot B. Combining BrdU-labeling to detection of neuronal markers to monitor adult neurogenesis in Hydra. Methods Mol Biol. 2020;2047:3-24. Pubmed
  • Chevalier C, Kieser S, Çolakoğlu M, Hadadi N, Brun J, Rigo D, Suárez-Zamorano N, Spiljar M, Fabbiano S, Busse B, Ivanišević J, Macpherson A, Bonnet N, Trajkovski M. Warmth prevents bone loss through the gut microbiota. Cell Metab. 2020 Oct 6;32(4):575-590.e7. Pubmed
  • Çolakoğlu M, Xue J, Trajkovski M. Bacteriophage prevents alcoholic liver disease. Cell 2020 Jan 23;180(2):218-220. Pubmed
  • Demonsais L, Utz-Pugin A, Loubéry S, Lopez-Molina L. Identification of tannic cell walls at the outer surface of the endosperm upon Arabidopsis seed coat rupture. Plant J. 2020 Nov;104(3):567-580. Pubmed
  • Dibner C. The importance of being rhythmic: Living in harmony with your body clocks. Acta Physiol (Oxf). 2020 Jan;228(1):e13281. Pubmed
  • Finger AM, Dibner C, Kramer A. Coupled network of the circadian clocks: a driving force of rhythmic physiology. FEBS Lett. 2020 Sep;594(17):2734-2769. 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
  • Infantino V, Stutz F. The functional complexity of the RNA-binding protein Yra1: mRNA biogenesis, genome stability and DSB repair. Curr Genet. 2020 Feb;66(1):63-71. Pubmed
  • Khemici V, Prados J, Petrignani B, Di Nolfi B, Bergé E, Manzano C, Giraud C, Linder P. The DEAD-box RNA helicase CshA is required for fatty acid homeostasis in Staphylococcus aureus. PLoS Genet. 2020 Jul 30;16(7):e1008779. Pubmed
  • Kieser S, Brown J, Zdobnov EM, Trajkovski M, McCue LA. ATLAS: a Snakemake workflow for assembly, annotation, and genomic binning of metagenome sequence data. BMC Bioinformatics. 2020 Jun 22;21(1):257. Pubmed
  • Kloehn J, Oppenheim RD, Siddiqui G, De Bock PJ, Kumar Dogga S, Coute Y, Hakimi MA, Creek DJ, Soldati-Favre D. Multi-omics analysis delineates the distinct functions of sub-cellular acetyl-CoA pools in Toxoplasma gondii. BMC Biol. 2020 Jun 16;18(1):67. Pubmed
  • Kryuchkov M, Bilousov O, Lehmann J, Fiebig M, Katanaev VL. Reverse and forward engineering of Drosophila corneal nanocoatings. Nature. 2020 Sep;585(7825):383-389. Pubmed
  • Le Guennec M, Klena N, Gambarotto D, Laporte MH, Tassin AM, van den Hoek H, Erdmann PS, Schaffer M, Kovacik L, Borgers S, Goldie KN, Stahlberg H, Bornens M, Azimzadeh J, Engel BD, Hamel V, Guichard P. A helical inner scaffold provides a structural basis for centriole cohesion. Sci Adv. 2020 Feb 14;6(7):eaaz4137. Pubmed
  • Mancini V, Sandini C, Padula MC, Zöller D, Schneider M, Schaer M, Eliez S. Positive psychotic symptoms are associated with divergent developmental trajectories of hippocampal volume during late adolescence in patients with 22q11DS. Mol Psychiatry. 2020 Nov;25(11):2844-2859. Pubmed
  • Mancini V, Zöller D, Schneider M, Schaer M, Eliez S. Abnormal development and dysconnectivity of distinct thalamic nuclei in patients with 22q11.2 deletion syndrome experiencing auditory hallucinations. Biol Psychiatry Cogn Neurosci Neuroimaging. 2020 Sep;5(9):875-890. 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
  • Molinard-Chenu A, Fluss J, Laurent S, Laurent M, Guipponi M, Dayer AG. MCF2 is linked to a complex perisylvian syndrome and affects cortical lamination. Ann Clin Transl Neurol. 2020 Jan;7(1):121-125. Pubmed
  • Ntasis VF, Panousis NI, Tektonidou MG, Dermitzakis ET, Boumpas DT, Bertsias GK, Nikolaou C. Extensive fragmentation and re-organization of transcription in Systemic Lupus Erythematosus. Sci Rep. 2020 Oct 6;10(1):16648. Pubmed
  • Pahlavanneshan S, Behmanesh M, Oropeza D, Furuyama K, Tahamtani Y, Basiri M, Herrera PL, Baharvand H. Combined inhibition of menin-MLL interaction and TGF-β signaling induces replication of human pancreatic beta cells. Eur J Cell Biol. 2020 Jun;99(5):151094. 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
  • Petrenko V, Gandasi NR, Sage D, Tengholm A, Barg S, Dibner C. In pancreatic islets from type 2 diabetes patients, the dampened circadian oscillators lead to reduced insulin and glucagon exocytosis. Proc Natl Acad Sci U S A. 2020 Feb 4;117(5):2484-2495. Pubmed
  • Petrenko V, Stolovich-Rain M, Vandereycken B, Giovannoni L, Storch KF, Dor Y, Chera S, Dibner C. The core clock transcription factor BMAL1 drives circadian β-cell proliferation during compensatory regeneration of the endocrine pancreas. Genes Dev. 2020 Dec 1;34(23-24):1650-1665. Pubmed
  • Quilodrán CS, Montoya-Burgos JI, Currat M. Harmonizing hybridization dissonance in conservation. Commun Biol. 2020 Jul 21;3(1):391. Pubmed
  • Quilodrán CS, Nussberger B, Macdonald DW, Montoya-Burgos JI, Currat M. Projecting introgression from domestic cats into European wildcats in the Swiss Jura. Evol Appl. 2020 May 5;13(8):2101-2112. Pubmed
  • Quilodrán CS, Tsoupas A, Currat M. The spatial signature of introgression after a biological invasion with hybridization. Front Ecol Evol. 2020 Sep 29;8:569620. Journal
  • Ramadori G, Ioris RM, Villanyi Z, Firnkes R, Panasenko OO, Allen G, Konstantinidou G, Aras E, Brenachot X, Biscotti T, Charollais A, Luchetti M, Bezrukov F, Santinelli A, Samad M, Baldi P, Collart MA, Coppari R. FKBP10 regulates protein translation to sustain lung cancer growth. Cell Rep. 2020 Mar 17;30(11):3851-3863.e6. Pubmed
  • Rollason V, Mouterde M, Daali Y, Čížková M, Priehodová E, Kulichová I, Posová H, Petanová J, Mulugeta A, Makonnen E, Al-Habsi A, Davidson R, Al-Balushi KK, Al-Thihli K, Cerná M, Al-Yahyaee S, Černý V, Yimer G, Poloni ES, Desmeules J. Safety of the Geneva cocktail, a cytochrome P450 and P-glycoprotein phenotyping cocktail, in healthy volunteers from three different geographic origins. Drug Saf. 2020 Nov;43(11):1181-1189. Pubmed
  • Rouaud F, Tessaro F, Aimaretti L, Scapozza L, Citi S. Cooperative binding of the tandem WW domains of PLEKHA7 to PDZD11 promotes conformation-dependent interaction with tetraspanin 33. J Biol Chem. 2020 Jul 10;295(28):9299-9312. Pubmed
  • Ruiz Buendía GA, Leleu M, Marzetta F, Vanzan L, Tan JY, Ythier V, Randall EL, Marques AC, Baubec T, Murr R, Xenarios I, Dion V. Three-dimensional chromatin interactions remain stable upon CAG/CTG repeat expansion. Sci Adv. 2020 Jul 3;6(27):eaaz4012. Pubmed
  • Schenkelaars Q, Perez-Cortes D, Perruchoud C, Galliot B. The polymorphism of Hydra microsatellite sequences provides strain-specific signatures. PLoS One. 2020 Sep 28;15(9):e0230547. Pubmed
  • Serbyn N, Noireterre A, Bagdiul I, Plank M, Michel AH, Loewith R, Kornmann B, Stutz F. The aspartic protease Ddi1 contributes to DNA-protein crosslink repair in yeast. Mol Cell. 2020 Mar 5;77(5):1066-1079.e9. 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
  • Sinturel F, Petrenko V, Dibner C. Circadian clocks make metabolism run. J Mol Biol. 2020 May 29;432(12):3680-3699. Pubmed
  • Tavridou E, Pireyre M, Ulm R. Degradation of the transcription factors PIF4 and PIF5 under UV-B promotes UVR8-mediated inhibition of hypocotyl growth in Arabidopsis. Plant J. 2020 Feb;101(3):507-517. Pubmed
  • Tavridou E, Schmid-Siegert E, Fankhauser C, Ulm R. UVR8-mediated inhibition of shade avoidance involves HFR1 stabilization in Arabidopsis. PLoS Genet. 2020 May 11;16(5):e1008797. Pubmed
  • Tissot N, Ulm R. Cryptochrome-mediated blue-light signalling modulates UVR8 photoreceptor activity and contributes to UV-B tolerance in Arabidopsis. Nat Commun. 2020 Mar 12;11(1):1323. Pubmed
  • Tomczyk S, Suknovic N, Schenkelaars Q, Wenger Y, Ekundayo K, Buzgariu W, Bauer C, Fischer K, Austad S, Galliot B. Deficient autophagy in epithelial stem cells drives aging in the freshwater cnidarian Hydra. Development. 2020 Jan 23;147(2). pii: dev177840. Pubmed
  • Ullate-Agote A, Burgelin I, Debry A, Langrez C, Montange F, Peraldi R, Daraspe J, Kaessmann H, Milinkovitch MC, Tzika AC. Genome mapping of a LYST mutation in corn snakes indicates that vertebrate chromatophore vesicles are lysosome-related organelles. Proc Natl Acad Sci U S A. 2020 Oct 20;117(42):26307-26317. Pubmed
  • Vangenot C, Nunes JM, Doxiadis GM, Poloni ES, Bontrop RE, de Groot NG, Sanchez-Mazas A. Similar patterns of genetic diversity and linkage disequilibrium in Western chimpanzees (Pan troglodytes verus) and humans indicate highly conserved mechanisms of MHC molecular evolution. BMC Evol Biol. 2020 Sep 15;20(1):119. Pubmed
  • Vilar R, Casini A, Fournel A, Mourey G, Neerman-Arbez M. Identification and expression of a novel heterozygous frameshift mutation in FGA accounting for congenital hypofibrinogenemia in carriers of severe hemophilia A. Thromb Res. 2020 Sep;193:5-8. Pubmed
  • Vilar R, Fish RJ, Casini A, Neerman-Arbez M. Fibrin(ogen) in human disease: both friend and foe. Haematologica. 2020 Jan 31;105(2):284-296. 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

2019

  • 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. pii: 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
  • Ansar M, Chung HL, Al-Otaibi A, Elagabani MN, Ravenscroft TA, Paracha SA, Scholz R, Abdel Magid T, Sarwar MT, Shah SF, Qaisar AA, Makrythanasis P, Marcogliese PC, Kamsteeg EJ, Falconnet E, Ranza E, Santoni FA, Aldhalaan H, Al-Asmari A, Faqeih EA, Ahmed J, Kornau HC, Bellen HJ, Antonarakis SE. Bi-allelic variants in IQSEC1 cause intellectual disability, developmental delay, and short stature. Am J Hum Genet. 2019 Nov 7;105(5):907-920. Pubmed
  • Ansar M, Paracha SA, Serretti A, Sarwar MT, Khan J, Ranza E, Falconnet E, Iwaszkiewicz J, Shah SF, Qaisar AA, Santoni FA, Zoete V, Megarbane A, Ahmed J, Colombo R, Makrythanasis P, Antonarakis SE. Biallelic variants in FBXL3 cause intellectual disability, delayed motor development and short stature. Hum Mol Genet. 2019 Mar 15;28(6):972-979. Pubmed
  • Ansar M, Ullah F, Paracha SA, Adams DJ, Lai A, Pais L, Iwaszkiewicz J, Millan F, Sarwar MT, Agha Z, Shah SF, Qaisar AA, Falconnet E, Zoete V, Ranza E, Makrythanasis P, Santoni FA, Ahmed J, Katsanis N, Walsh C, Davis EE, Antonarakis SE. Bi-allelic variants in DYNC1I2 cause syndromic microcephaly with intellectual disability, cerebral malformations, and dysmorphic facial features. Am J Hum Genet. 2019 Jun 6;104(6):1073-1087. Pubmed
  • Bompadre O, Andrey G. Chromatin topology in development and disease. Curr Opin Genet Dev. 2019 Apr;55:32-38. Pubmed
  • Buhler S, Baldomero H, Ferrari-Lacraz S, Nunes JM, Sanchez-Mazas A, Massouridi-Levrat S, Heim D, Halter J, Nair G, Chalandon Y, Schanz U, Güngör T, Nicoloso G, Tiercy JM, Passweg J, Villard J. High-resolution HLA phased haplotype frequencies to predict the success of unrelated donor searches and clinical outcome following hematopoietic stem cell transplantation. Bone Marrow Transplant. 2019 Oct;54(10):1701-1709. Pubmed
  • Cordier T, Lanzén A, Apothéloz-Perret-Gentil L, Stoeck T, Pawlowski J. Embracing environmental genomics and machine learning for routine biomonitoring. Trends Microbiol. 2019 May;27(5):387-397. Pubmed
  • Currat M, Arenas M, Quilodran CS, Excoffier L, Ray N. SPLATCHE3: simulation of serial genetic data under spatially explicit evolutionary scenarios including long-distance dispersal. Bioinformatics. 2019 Nov 1;35(21):4480-4483. Pubmed
  • Damond N, Engler S, Zanotelli VRT, Schapiro D, Wasserfall CH, Kusmartseva I, Nick HS, Thorel F, Herrera PL, Atkinson MA, Bodenmiller B. A map of human type 1 diabetes progression by imaging mass cytometry. Cell Metab. 2019 Mar 5;29(3):755-768.e5. Pubmed
  • de Barsy M, Herrgott L, Martin V, Pillonel T, Viollier PH, Greub G. Identification of new DNA-associated proteins from Waddlia chondrophila. Sci Rep. 2019 Mar 20;9(1):4885. Pubmed
  • Delaneau O, Zagury JF, Robinson MR, Marchini JL, Dermitzakis ET. Accurate, scalable and integrative haplotype estimation. Nat Commun. 2019 Nov 28;10(1):5436. Pubmed
  • Delaneau O, Zazhytska M, Borel C, Giannuzzi G, Rey G, Howald C, Kumar S, Ongen H, Popadin K, Marbach D, Ambrosini G, Bielser D, Hacker D, Romano L, Ribaux P, Wiederkehr M, Falconnet E, Bucher P, Bergmann S, Antonarakis SE, Reymond A, Dermitzakis ET. Chromatin three-dimensional interactions mediate genetic effects on gene expression. Science. 2019 May 3;364(6439). 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
  • Gambarotto D, Zwettler FU, Le Guennec M, Schmidt-Cernohorska M, Fortun D, Borgers S, Heine J, Schloetel JG, Reuss M, Unser M, Boyden ES, Sauer M, Hamel V, Guichard P. Imaging cellular ultrastructures using expansion microscopy (U-ExM). Nat Methods. 2019 Jan;16(1):71-74. Pubmed
  • Hafner L, Shore D, Mattarocci S. ChECing out Rif1 action in freely cycling cells. Curr Genet. 2019 Apr;65(2):429-434. Pubmed
  • Hannich JT, Galih Haribowo A, Gentina S, Paillard M, Gomez L, Pillot B, Thibault H, Abegg D, Guex N, Zumbuehl A, Adibekian A, Ovize M, Martinou J-C, Riezman H. 1-deoxydihydroceramide causes anoxic death by impairing chaperonin-mediated protein folding. Nat Metab. 2019 Oct;1(10):996-1008. Pubmed
  • Haribowo AG, Hannich JT, Michel AH, Megyeri M, Schuldiner M, Kornmann B, Riezman H. Cytotoxicity of 1-deoxysphingolipid unraveled by genome-wide genetic screens and lipidomics in Saccharomyces cerevisiae. Mol Biol Cell. 2019 Oct 15;30(22):2814-2826. Pubmed
  • Ho WKW, Freem L, Zhao D, Painter KJ, Woolley TE, Gaffney EA, McGrew MJ, Tzika A, Milinkovitch MC, Schneider P, Drusko A, Matthäus F, Glover JD, Wells KL, Johansson JA, Davey MG, Sang HM, Clinton M, Headon DJ. Feather arrays are patterned by interacting signalling and cell density waves. PLoS Biol. 2019 Feb 21;17(2):e3000132. Pubmed
  • Infantino V, Tutucci E, Yeh Martin N, Zihlmann A, Garcia-Molinero V, Silvano G, Palancade B, Stutz F. The mRNA export adaptor Yra1 contributes to DNA double-strand break repair through its C-box domain. PLoS One. 2019 Apr 5;14(4):e0206336. Pubmed
  • Iwasaki M, Hyvärinen L, Piskurewicz U, Lopez-Molina L. Non-canonical RNA-directed DNA methylation participates in maternal and environmental control of seed dormancy. Elife. 2019 Mar 26;8. pii: e37434. Pubmed
  • Kim W, Zeljković SĆ, Piskurewicz U, Megies C, Tarkowski P, Lopez-Molina L. Polyamine uptake transporter 2 (put2) and decaying seeds enhance phyA-mediated germination by overcoming PIF1 repression of germination. PLoS Genet. 2019 Jul 24;15(7):e1008292. 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
  • Lau K, Podolec R, Chappuis R, Ulm R, Hothorn M. Plant photoreceptors and their signaling components compete for COP1 binding via VP peptide motifs. EMBO J. 2019 Sep 16;38(18):e102140. Pubmed
  • Longoni P, Samol I, Goldschmidt-Clermont M. The kinase STATE TRANSITION 8 phosphorylates light harvesting complex II and contributes to light acclimation in Arabidopsis thaliana. Front Plant Sci. 2019 Sep 19;10:1156. Pubmed
  • Loureiro M, Achargui R, Flakowski J, Van Zessen R, Stefanelli T, Pascoli V, Lüscher C. Social transmission of food safety depends on synaptic plasticity in the prefrontal cortex. Science. 2019 Jun 7;364(6444):991-995. Pubmed
  • MacGregor DR, Zhang N, Iwasaki M, Chen M, Dave A, Lopez-Molina L, Penfield S. ICE1 and ZOU determine the depth of primary seed dormancy in Arabidopsis independently of their role in endosperm development. Plant J. 2019 Apr;98(2):277-290. Pubmed
  • Megyeri M, Prasad R, Volpert G, Sliwa-Gonzalez A, Haribowo AG, Aguilera-Romero A, Riezman H, Barral Y, Futerman AH, Schuldiner M. Yeast ceramide synthases, Lag1 and Lac1, have distinct substrate specificity. J Cell Sci. 2019 Jun 24;132(12):jcs228411. Pubmed
  • Montandon SA, Fofonjka A, Milinkovitch MC. Elastic instability during branchial ectoderm development causes folding of the Chlamydosaurus erectile frill. Elife. 2019 Jun 25;8. pii: e44455. Pubmed
  • Montandon SA, Somm E, Loizides-Mangold U, de Vito C, Dibner C, Jornayvaz FR. Multi-technique comparison of atherogenic and MCD NASH models highlights changes in sphingolipid metabolism. Sci Rep. 2019 Nov 14;9(1):16810. Pubmed
  • Oberst P, Fièvre S, Baumann N, Concetti C, Bartolini G, Jabaudon D. Temporal plasticity of apical progenitors in the developing mouse neocortex. Nature. 2019 Sep;573(7774):370-374. Pubmed
  • Panasenko OO, Somasekharan SP, Villanyi Z, Zagatti M, Bezrukov F, Rashpa R, Cornut J, Iqbal J, Longis M, Carl SH, Peña C, Panse VG, Collart MA. Co-translational assembly of proteasome subunits in NOT1-containing assemblysomes. Nat Struct Mol Biol. 2019 Feb;26(2):110-120. Pubmed
  • Panousis NI, Bertsias GK, Ongen H, Gergianaki I, Tektonidou MG, Trachana M, Romano-Palumbo L, Bielser D, Howald C, Pamfil C, Fanouriakis A, Kosmara D, Repa A, Sidiropoulos P, Dermitzakis ET, Boumpas DT. Combined genetic and transcriptome analysis of patients with SLE: distinct, targetable signatures for susceptibility and severity. Ann Rheum Dis. 2019 Aug;78(8):1079-1089. Pubmed
  • Prouteau M, Loewith R. TOR signaling is going through a phase. Cell Metab. 2019 May 7;29(5):1019-1021. Pubmed
  • Quilodrán CS, Nussberger B, Montoya-Burgos JI, Currat M. Hybridization and introgression during density-dependent range expansion: European wildcats as a case study. Evolution. 2019 Apr;73(4):750-761. Pubmed
  • Rahban R, Priskorn L, Senn A, Stettler E, Galli F, Vargas J, Van den Bergh M, Fusconi A, Garlantezec R, Jensen TK, Multigner L, Skakkebaek NE, Germond M, Jørgensen N, Nef S; NICER Working Group. Semen quality of young men in Switzerland: a nationwide cross-sectional population-based study. Andrology. 2019 Nov;7(6):818-826. Pubmed
  • Rentzsch F, Juliano C, Galliot B. Modern genomic tools reveal the structural and cellular diversity of cnidarian nervous systems. Curr Opin Neurobiol. 2019 Jun;56:87-96. Pubmed
  • Riggi M, Bourgoint C, Macchione M, Matile S, Loewith R, Roux A. TORC2 controls endocytosis through plasma membrane tension. J Cell Biol. 2019 Jul 1;218(7):2265-2276. Pubmed
  • Rivera-Rivera CJ, Montoya-Burgos JI. LSX: automated reduction of gene-specific lineage evolutionary rate heterogeneity for multi-gene phylogeny inference. BMC Bioinformatics. 2019 Aug 13;20(1):420. Pubmed
  • Sadowski SM, Petrenko V, Meyer P, Pusztaszeri M, Brulhart-Meynet MC, Heddad Masson M, Triponez F, Philippe J, Dibner C. Validation of molecular biomarkers for preoperative diagnostics of human papillary thyroid carcinoma in fine needle aspirates. Gland Surg. 2019 Aug;8(Suppl 2):S62-S76. Pubmed
  • Sanchez-Mazas A, Nunes JM. Does NGS typing highlight our understanding of HLA population diversity?: Some good reasons to say yes and a few to say be careful. Hum Immunol. 2019 Jan;80(1):62-66. Pubmed
  • Schibler M, Brito F, Zanella MC, Zdobnov EM, Laubscher F, L'Huillier AG, Ambrosioni J, Wagner N, Posfay-Barbe KM, Docquier M, Schiffer E, Savoldelli GL, Fournier R, Lenggenhager L, Cordey S, Kaiser L. Viral sequences detection by high-throughput sequencing in cerebrospinal fluid of individuals with and without central nervous system disease. Genes (Basel). 2019 Aug 19;10(8). pii: E625. Pubmed
  • Schmidt-Cernohorska M, Zhernov I, Steib E, Le Guennec M, Achek R, Borgers S, Demurtas D, Mouawad L, Lansky Z, Hamel V, Guichard P. Flagellar microtubule doublet assembly in vitro reveals a regulatory role of tubulin C-terminal tails. Science. 2019 Jan 18;363(6424):285-288. Pubmed
  • Sinturel F, Makhlouf AM, Meyer P, Tran C, Pataky Z, Golay A, Rey G, Howald C, Dermitzakis ET, Pichard C, Philippe J, Brown SA, Dibner C. Cellular circadian period length inversely correlates with HbA1c levels in individuals with type 2 diabetes. Diabetologia. 2019 Aug;62(8):1453-1462. Pubmed
  • Soudet J, Stutz F. Regulation of gene expression and replication initiation by non-coding transcription: a model based on reshaping nucleosome-depleted regions: influence of pervasive transcription on chromatin structure. Bioessays. 2019 Nov;41(11):e1900043. Pubmed
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2018

  • Ansar M, Chung HL, Taylor RL, Nazir A, Imtiaz S, Sarwar MT, Manousopoulou A, Makrythanasis P, Saeed S, Falconnet E, Guipponi M, Pournaras CJ, Ansari MA, Ranza E, Santoni FA, Ahmed J, Shah I, Gul K, Black GC, Bellen HJ, Antonarakis SE. Bi-allelic loss-of-function variants in DNMBP cause infantile cataracts. Am J Hum Genet. 2018 Oct 4;103(4):568-578. Pubmed
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  • Ansar M, Riazuddin S, Sarwar MT, Makrythanasis P, Paracha SA, Iqbal Z, Khan J, Assir MZ, Hussain M, Razzaq A, Polla DL, Taj AS, Holmgren A, Batool N, Misceo D, Iwaszkiewicz J, de Brouwer APM, Guipponi M, Hanquinet S, Zoete V, Santoni FA, Frengen E, Ahmed J, Riazuddin S, van Bokhoven H, Antonarakis SE. Biallelic variants in LINGO1 are associated with autosomal recessive intellectual disability, microcephaly, speech and motor delay. Genet Med. 2018 Jul;20(7):778-784. Pubmed
  • Arongaus AB, Chen S, Pireyre M, Glöckner N, Galvão VC, Albert A, Winkler JB, Fankhauser C, Harter K, Ulm R. Arabidopsis RUP2 represses UVR8-mediated flowering in noninductive photoperiods. Genes Dev. 2018 Oct 1;32(19-20):1332-1343. Pubmed
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  • Branco C, Velasco M, Benguigui M, Currat M, Ray N, Arenas M. Consequences of diverse evolutionary processes on american genetic gradients of modern humans. Heredity (Edinb). 2018 Dec;121(6):548-556. Pubmed
  • Bruzzone MJ, Grünberg S, Kubik S, Zentner GE, Shore D. Distinct patterns of histone acetyltransferase and Mediator deployment at yeast protein-coding genes. Genes Dev. 2018 Sep 1;32(17-18):1252-1265. Pubmed
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  • Cigliola V, Ghila L, Thorel F, van Gurp L, Baronnier D, Oropeza D, Gupta S, Miyatsuka T, Kaneto H, Magnuson MA, Osipovich AB, Sander M, Wright CEV, Thomas MK, Furuyama K, Chera S, Herrera PL. Pancreatic islet-autonomous insulin and smoothened-mediated signalling modulate identity changes of glucagon+ α-cells. Nat Cell Biol. 2018 Nov;20(11):1267-1277. Pubmed
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  • Corre J, van Zessen R, Loureiro M, Patriarchi T, Tian L, Pascoli V, Lüscher C. Dopamine neurons projecting to medial shell of the nucleus accumbens drive heroin reinforcement. Elife. 2018 Oct 30;7. pii: e39945. Pubmed
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  • Hafner L, Lezaja A, Zhang X, Lemmens L, Shyian M, Albert B, Follonier C, Nunes JM, Lopes M, Shore D, Mattarocci S. Rif1 binding and control of chromosome-internal DNA replication origins is limited by telomere sequestration. Cell Rep. 2018 Apr 24;23(4):983-992. Pubmed
  • Hurst SA, Zellweger U, Bosshard G, Bopp M; Swiss Medical End-of-Life Decisions Study Group. Medical end-of-life practices in Swiss cultural regions: a death certificate study. BMC Med. 2018 Apr 20;16(1):54. Pubmed
  • Jørgensen MM, Ekundayo B, Zaratiegui M, Skriver K, Thon G, Schalch T. Structure of the replication regulator Sap1 reveals functionally important interfaces. Sci Rep. 2018 Jul 19;8(1):10930. Pubmed
  • Kubik S, O'Duibhir E, de Jonge WJ, Mattarocci S, Albert B, Falcone JL, Bruzzone MJ, Holstege FCP, Shore D. Sequence-directed action of RSC remodeler and general regulatory factors modulates +1 nucleosome position to facilitate transcription. Mol Cell. 2018 Jul 5;71(1):89-102.e5. Pubmed
  • Macheret M, Halazonetis TD. Intragenic origins due to short G1 phases underlie oncogene-induced DNA replication stress. Nature. 2018 Mar 1;555(7694):112-116. Pubmed
  • Martins AF, Bennett NC, Clavel S, Groenewald H, Hensman S, Hoby S, Joris A, Manger PR, Milinkovitch MC. Locally-curved geometry generates bending cracks in the African elephant skin. Nat Commun. 2018 Oct 2;9(1):3865. Pubmed
  • Molinard-Chenu A, Dayer A. The candidate schizophrenia risk gene DGCR2 regulates early steps of corticogenesis. Biol Psychiatry. 2018 Apr 15;83(8):692-706. Pubmed
  • Nikolaev SI, Vetiska S, Bonilla X, Boudreau E, Jauhiainen S, Rezai Jahromi B, Khyzha N, DiStefano PV, Suutarinen S, Kiehl TR, Mendes Pereira V, Herman AM, Krings T, Andrade-Barazarte H, Tung T, Valiante T, Zadeh G, Tymianski M, Rauramaa T, Ylä-Herttuala S, Wythe JD, Antonarakis SE, Frösen J, Fish JE, Radovanovic I. Somatic activating KRAS mutations in arteriovenous malformations of the brain. N Engl J Med. 2018 Jan 18;378(3):250-261. Pubmed
  • Niquille M, Limoni G, Markopoulos F, Cadilhac C, Prados J, Holtmaat A, Dayer A. Neurogliaform cortical interneurons derive from cells in the preoptic area. Elife. 2018 Mar 20;7. pii: e32017. Pubmed
  • Nussberger B, Currat M, Quilodran CS, Ponta N, Keller LF. Range expansion as an explanation for introgression in European wildcats. Biological Conservation, Volume 218, February 2018, Pages 49-5. ScienceDirect
  • Pascoli V, Hiver A, Van Zessen R, Loureiro M, Achargui R, Harada M, Flakowski J, Lüscher C. Stochastic synaptic plasticity underlying compulsion in a model of addiction. Nature. 2018 Dec;564(7736):366-371. Pubmed
  • Petrenko V, Dibner C. Cell-specific resetting of mouse islet cellular clocks by glucagon, glucagon-like peptide 1 and somatostatin. Acta Physiol (Oxf). 2018 Apr;222(4):e13021. Pubmed
  • Petrenko V, Philippe J, Dibner C. Time zones of pancreatic islet metabolism. Diabetes Obes Metab. 2018 Sep;20 Suppl 2:116-126. Pubmed
  • Podolec R, Ulm R. Photoreceptor-mediated regulation of the COP1/SPA E3 ubiquitin ligase. Curr Opin Plant Biol. 2018 Oct;45(Pt A):18-25. Pubmed
  • Popadin K, Peischl S, Garieri M, Sailani MR, Letourneau A, Santoni F, Lukowski SW, Bazykin GA, Nikolaev S, Meyer D, Excoffier L, Reymond A, Antonarakis SE. Slightly deleterious genomic variants and transcriptome perturbations in Down syndrome embryonic selection. Genome Res. 2018 Jan;28(1):1-10. doi: 10.1101/gr.228411.117. Pubmed
  • Prouteau M, Loewith R. Regulation of cellular metabolism through phase separation of enzymes. Biomolecules. 2018 Dec 3;8(4). pii: E160. Pubmed
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  • Quilodrán CS, Currat M, Montoya-Burgos JI. Effect of hybridization with genome exclusion on extinction risk. Conserv Biol. 2018 Oct;32(5):1139-1149. Pubmed
  • Riggi M, Niewola-Staszkowska K, Chiaruttini N, Colom A, Kusmider B, Mercier V, Soleimanpour S, Stahl M, Matile S, Roux A, Loewith R. Decrease in plasma membrane tension triggers PtdIns(4,5)P2 phase separation to inactivate TORC2. Nat Cell Biol. 2018 Sep;20(9):1043-1051. Pubmed
  • Rivera-Rivera CJ, Montoya-Burgos JI. Back to the roots: Reducing evolutionary rate heterogeneity among sequences gives support for the early morphological hypothesis of the root of Siluriformes (Teleostei: Ostariophysi). Mol Phylogenet Evol. 2018 Oct;127:272-279. Pubmed
  • Sadowski SM, Pusztaszeri M, Brulhart-Meynet MC, Petrenko V, De Vito C, Sobel J, Delucinge-Vivier C, Kebebew E, Regazzi R, Philippe J, Triponez F, Dibner C. Identification of differential transcriptional patterns in primary and secondary hyperparathyroidism. J Clin Endocrinol Metab. 2018 Jun 1;103(6):2189-2198. Pubmed
  • Shah J, Rouaud F, Guerrera D, Vasileva E, Popov LM, Kelley WL, Rubinstein E, Carette JE, Amieva MR, Citi S. A dock-and-lock mechanism clusters ADAM10 at cell-cell junctions to promote α-toxin cytotoxicity. Cell Rep. 2018 Nov 20;25(8):2132-2147.e7. Pubmed
  • Shanmugabalaji V, Chahtane H, Accossato S, Rahire M, Gouzerh G, Lopez-Molina L, Kessler F. Chloroplast biogenesis controlled by DELLA-TOC159 interaction in early plant development. Curr Biol. 2018 Aug 20;28(16):2616-2623.e5. Pubmed
  • Silva NM, Rio J, Kreutzer S, Papageorgopoulou C, Currat M. Bayesian estimation of partial population continuity using ancient DNA and spatially explicit simulations. Evol Appl. 2018 Jul 3;11(9):1642-1655. Pubmed
  • Soudet J, Gill JK, Stutz F. Noncoding transcription influences the replication initiation program through chromatin regulation. Genome Res. 2018 Dec;28(12):1882-1893. Pubmed
  • Stévant I, Nef S. Single cell transcriptome sequencing: A new approach for the study of mammalian sex determination. Mol Cell Endocrinol. 2018 Jun 15;468:11-18. Pubmed
  • Stévant I, Neirijnck Y, Borel C, Escoffier J, Smith LB, Antonarakis SE, Dermitzakis ET, Nef S. Deciphering cell lineage specification during male sex determination with single-cell RNA sequencing. Cell Rep. 2018 Feb 6;22(6):1589-1599. Pubmed
  • Stévant I, Papaioannou MD, Nef S. A brief history of sex determination. Mol Cell Endocrinol. 2018 Jun 15;468:3-10. Pubmed
  • Tas D, Stickley L, Miozzo F, Koch R, Loncle N, Sabado V, Gnägi B, Nagoshi E. Parallel roles of transcription factors dFOXO and FER2 in the development and maintenance of dopaminergic neurons. PLoS Genet. 2018 Mar 12;14(3):e1007271. Pubmed
  • Trofimov V, Kicka S, Mucaria S, Hanna N, Ramon-Olayo F, Del Peral LV, Lelièvre J, Ballell L, Scapozza L, Besra GS, Cox JAG, Soldati T. Antimycobacterial drug discovery using Mycobacteria-infected amoebae identifies anti-infectives and new molecular targets. Sci Rep. 2018 Mar 2;8(1):3939. Pubmed
  • Vasileva E, Citi S. The role of microtubules in the regulation of epithelial junctions. Tissue Barriers. 2018;6(3):1539596. Pubmed
  • Viñuela A, Brown AA, Buil A, Tsai PC, Davies MN, Bell JT, Dermitzakis ET, Spector TD, Small KS. Age-dependent changes in mean and variance of gene expression across tissues in a twin cohort. Hum Mol Genet. 2018 Feb 15;27(4):732-741. Pubmed
  • Vitali I, Fièvre S, Telley L, Oberst P, Bariselli S, Frangeul L, Baumann N, McMahon JJ, Klingler E, Bocchi R, Kiss JZ, Bellone C, Silver DL, Jabaudon D. Progenitor hyperpolarization regulates the sequential generation of neuronal subtypes in the developing neocortex. Cell. 2018 Aug 23;174(5):1264-1276.e15. Pubmed

2017

  • Boquett JA, Nunes JM, Buhler S, de Oliveira MZ, Jobim LF, Jobim M, Fagundes NJ, Schüler-Faccini L, Sanchez-Mazas A. The HLA-A, -B and -DRB1 polymorphism in a large dataset of South Brazil bone marrow donors from Rio Grande do Sul. HLA. 2017 Jan;89(1):29-38. Pubmed
  • Brown AA, Viñuela A, Delaneau O, Spector TD, Small KS, Dermitzakis ET. Predicting causal variants affecting expression by using whole-genome sequencing and RNA-seq from multiple human tissues. Nat Genet. 2017 Dec;49(12):1747-1751. Pubmed
  • Bryois J, Buil A, Ferreira PG, Panousis NI, Brown AA, Viñuela A, Planchon A, Bielser D, Small K, Spector T, Dermitzakis ET. Time-dependent genetic effects on gene expression implicate aging processes. Genome Res. 2017 Apr;27(4):545-552. Pubmed
  • Chahtane H, Kim W, Lopez-Molina L. Primary seed dormancy: a temporally multilayered riddle waiting to be unlocked. J Exp Bot. 2017 Feb 1;68(4):857-869. Pubmed
  • Damond N, Thorel F, Kim SK, Herrera PL. Dnmt1 activity is dispensable in δ-cells but is essential for α-cell homeostasis. Int J Biochem Cell Biol. 2017 Jul;88:226-235. Pubmed
  • Delaneau O, Ongen H, Brown AA, Fort A, Panousis NI, Dermitzakis ET. A complete tool set for molecular QTL discovery and analysis. Nat Commun. 2017 May 18;8:15452. Pubmed
  • Dietschi Q, Tuberosa J, Rösingh L, Loichot G, Ruedi M, Carleton A, Rodriguez I. Evolution of immune chemoreceptors into sensors of the outside world. Proc Natl Acad Sci U S A. 2017 Jul 11;114(28):7397-7402. Pubmed
  • Ekundayo B, Richmond TJ, Schalch T. Capturing structural heterogeneity in chromatin fibers. J Mol Biol. 2017 Oct 13;429(20):3031-3042. Pubmed
  • Fabbiano S, Suárez-Zamorano N, Trajkovski M. Host-microbiota mutualism in metabolic diseases. Front Endocrinol (Lausanne). 2017 Oct 4;8:267. Pubmed
  • Fort A, Panousis NI, Garieri M, Antonarakis SE, Lappalainen T, Dermitzakis ET, Delaneau O. MBV: a method to solve sample mislabeling and detect technical bias in large combined genotype and sequencing assay datasets. Bioinformatics. 2017 Jun 15;33(12):1895-1897. Pubmed
  • Gali VK, Balint E, Serbyn N, Frittmann O, Stutz F, Unk I. Translesion synthesis DNA polymerase η exhibits a specific RNA extension activity and a transcription-associated function. Sci Rep. 2017 Oct 12;7(1):13055. Pubmed
  • Galliot B, Crescenzi M, Jacinto A, Tajbakhsh S. Trends in tissue repair and regeneration. Development. 2017 Feb 1;144(3):357-364. Pubmed
  • Garieri M, Delaneau O, Santoni F, Fish RJ, Mull D, Carninci P, Dermitzakis ET, Antonarakis SE, Fort A. The effect of genetic variation on promoter usage and enhancer activity. Nat Commun. 2017 Nov 7;8(1):1358. Pubmed
  • GTEx Consortium; Laboratory, Data Analysis & Coordinating Center (LDACC)—Analysis Working Group; Statistical Methods groups—Analysis Working Group; Enhancing GTEx (eGTEx) groups; NIH Common Fund; NIH/NCI; NIH/NHGRI; NIH/NIMH; NIH/NIDA; Biospecimen Collection Source Site—NDRI; Biospecimen Collection Source Site—RPCI; Biospecimen Core Resource—VARI; Brain Bank Repository—University of Miami Brain Endowment Bank; Leidos Biomedical—Project Management; ELSI Study; Genome Browser Data Integration & Visualization—EBI; Genome Browser Data Integration & Visualization—UCSC Genomics Institute, University of California Santa Cruz; Lead analysts:; Laboratory, Data Analysis & Coordinating Center (LDACC):; NIH program management:; Biospecimen collection:; Pathology:; eQTL manuscript working group:, Battle A, Brown CD, Engelhardt BE, Montgomery SB. Genetic effects on gene expression across human tissues. Nature. 2017 Oct 11;550(7675):204-213. Pubmed
  • Guipponi M, Santoni F, Schneider M, Gehrig C, Bustillo XB, Kates WR, Morrow B, Armando M, Vicari S, Sloan-Béna F, Gagnebin M, Shashi V, Hooper SR, Eliez S, Antonarakis SE. No evidence for the presence of genetic variants predisposing to psychotic disorders on the non-deleted 22q11.2 allele of VCFS patients. Transl Psychiatry. 2017 Feb 21;7(2):e1039. Pubmed
  • Guri Y, Colombi M, Dazert E, Hindupur SK, Roszik J, Moes S, Jenoe P, Heim MH, Riezman I, Riezman H, Hall MN. mTORC2 promotes tumorigenesis via lipid synthesis. Cancer Cell. 2017 Dec 11;32(6):807-823.e12. Pubmed
  • Hallez R, Delaby M, Sanselicio S, Viollier PH. Hit the right spots: cell cycle control by phosphorylated guanosines in alphaproteobacteria. Nat Rev Microbiol. 2017 Mar;15(3):137-148. Pubmed
  • Jacovetti C, Rodriguez-Trejo A, Guay C, Sobel J, Gattesco S, Petrenko V, Saini C, Dibner C, Regazzi R. MicroRNAs modulate core-clock gene expression in pancreatic islets during early postnatal life in rats. Diabetologia. 2017 Oct;60(10):2011-2020. Pubmed
  • Jardim de Queiroz L, Torrente-Vilara G, Quilodran C, Rodrigues da Costa Doria C, Montoya-Burgos JI. Multifactorial genetic divergence processes drive the onset of speciation in an Amazonian fish. PLoS One. 2017 Dec 20;12(12):e0189349. Pubmed
  • Karuppasamy M, Kusmider B, Oliveira TM, Gaubitz C, Prouteau M, Loewith R, Schaffitzel C. Cryo-EM structure of Saccharomyces cerevisiae target of rapamycin complex 2. Nat Commun. 2017 Nov 23;8(1):1729. Pubmed
  • Kassem S, Villanyi Z, Collart MA. Not5-dependent co-translational assembly of Ada2 and Spt20 is essential for functional integrity of SAGA. Nucleic Acids Res. 2017 Feb 17;45(3):1186-1199. Pubmed
  • Kubik S, Bruzzone MJ, Albert B, Shore D. A reply to “MNase-Sensitive Complexes in Yeast: Nucleosomes and Non-histone Barriers,” by Chereji et al. Mol Cell. 2017 Feb 2;65(3):578-580. Pubmed
  • Kubik S, Bruzzone MJ, Shore D. Establishing nucleosome architecture and stability at promoters: Roles of pioneer transcription factors and the RSC chromatin remodeler. Bioessays. 2017 May;39(5). Pubmed
  • Kubik S, Bruzzone MJ, Shore D. TFIID or not TFIID, a continuing transcriptional SAGA. EMBO J. 2017 Feb 1;36(3):248-249. Pubmed
  • Lau P, Cordey S, Brito F, Tirefort D, Petty TJ, Turin L, Guichebaron A, Docquier M, Zdobnov EM, Waldvogel-Abramowski S, Lecompte T, Kaiser L, Preynat-Seauve O. Metagenomics analysis of red blood cell and fresh-frozen plasma units. Transfusion. 2017 Jul;57(7):1787-1800. Pubmed
  • Lee D, Creed M, Jung K, Stefanelli T, Wendler DJ, Oh WC, Mignocchi NL, Lüscher C, Kwon HB. Temporally precise labeling and control of neuromodulatory circuits in the mammalian brain. Nat Methods. 2017 May;14(5):495-503. Pubmed
  • Liu Y, Borel C, Li L, Müller T, Williams EG, Germain PL, Buljan M, Sajic T, Boersema PJ, Shao W, Faini M, Testa G, Beyer A, Antonarakis SE, Aebersold R. Systematic proteome and proteostasis profiling in human Trisomy 21 fibroblast cells. Nat Commun. 2017 Oct 31;8(1):1212. Pubmed
  • Loizides-Mangold U, Perrin L, Vandereycken B, Betts JA, Walhin JP, Templeman I, Chanon S, Weger BD, Durand C, Robert M, Paz Montoya J, Moniatte M, Karagounis LG, Johnston JD, Gachon F, Lefai E, Riezman H, Dibner C. Lipidomics reveals diurnal lipid oscillations in human skeletal muscle persisting in cellular myotubes cultured in vitro. Proc Natl Acad Sci U S A. 2017 Oct 10;114(41):E8565-E8574. Pubmed
  • Loubéry S, Daeden A, Seum C, Holtzer L, Moraleda A, Damond N, Derivery E, Schmidt T, Gonzalez-Gaitan M. Sara phosphorylation state controls the dispatch of endosomes from the central spindle during asymmetric division. Nat Commun. 2017 Jun 6;8:15285. Pubmed
  • Manukyan L, Montandon SA, Fofonjka A, Smirnov S, Milinkovitch MC. A living mesoscopic cellular automaton made of skin scales. Nature. 2017 Apr 12;544(7649):173-179. Pubmed
  • Mattarocci S, Reinert JK, Bunker RD, Fontana GA, Shi T, Klein D, Cavadini S, Faty M, Shyian M, Hafner L, Shore D, Thomä NH, Rass U. Rif1 maintains telomeres and mediates DNA repair by encasing DNA ends. Nat Struct Mol Biol. 2017 Jul;24(7):588-595. Pubmed
  • Ongen H, Brown AA, Delaneau O, Panousis NI, Nica AC; GTEx Consortium, Dermitzakis ET. Estimating the causal tissues for complex traits and diseases. Nat Genet. 2017 Dec;49(12):1676-1683. Pubmed
  • Petrenko V, Dibner C. Circadian orchestration of insulin and glucagon release. Cell Cycle. 2017 Jun 18;16(12):1141-1142. Pubmed
  • Petrenko V, Gosmain Y, Dibner C. High-resolution recording of the circadian oscillator in primary mouse α- and β-cell culture. Front Endocrinol (Lausanne). 2017 Apr 7;8:68. Pubmed
  • Petrenko V, Saini C, Giovannoni L, Gobet C, Sage D, Unser M, Heddad Masson M, Gu G, Bosco D, Gachon F, Philippe J, Dibner C. Pancreatic α- and β-cellular clocks have distinct molecular properties and impact on islet hormone secretion and gene expression. Genes Dev. 2017 Feb 15;31(4):383-398. Pubmed
  • Pino P, Caldelari R, Mukherjee B, Vahokoski J, Klages N, Maco B, Collins CR, Blackman MJ, Kursula I, Heussler V, Brochet M, Soldati-Favre D. A multistage antimalarial targets the plasmepsins IX and X essential for invasion and egress. Science. 2017 Oct 27;358(6362):522-528. Pubmed
  • Primo C, Ferri-Blázquez A, Loewith R, Yenush L. Reciprocal regulation of Target of Rapamycin Complex 1 and potassium accumulation. J Biol Chem. 2017 Jan 13;292(2):563-574. Pubmed
  • Prouteau M, Desfosses A, Sieben C, Bourgoint C, Lydia Mozaffari N, Demurtas D, Mitra AK, Guichard P, Manley S, Loewith R. TORC1 organized in inhibited domains (TOROIDs) regulate TORC1 activity. Nature. 2017 Oct 12;550(7675):265-269. Pubmed
  • Pupo M, Bodmer A, Berto M, Maggiolini M, Dietrich PY, Picard D. A genetic polymorphism repurposes the G-protein coupled and membrane-associated estrogen receptor GPER to a transcription factor-like molecule promoting paracrine signaling between stroma and breast carcinoma cells. Oncotarget. 2017 Jul 18;8(29):46728-46744. Pubmed
  • Ranza E, Garcia-Tarodo S, Varvagiannis K, Guipponi M, Lobrinus JA, Bottani A, Kern I, Kurian M, Pittet MP, Antonarakis SE, Fluss J, Korff CM. SERPINI1 pathogenic variants: An emerging cause of childhood-onset progressive myoclonic epilepsy. Am J Med Genet A. 2017 Sep;173(9):2456-2460. Pubmed
  • Rivera-Rivera CJ, Montoya-Burgos JI. Trunk dental tissue evolved independently from underlying dermal bony plates but is associated with surface bones in living odontode-bearing catfish. Proc Biol Sci. 2017 Oct 25;284(1865). Pubmed
  • Sanchez-Mazas A, Černý V, Di D, Buhler S, Podgorná E, Chevallier E, Brunet L, Weber S, Kervaire B, Testi M, Andreani M, Tiercy JM, Villard J, Nunes JM. The HLA-B landscape of Africa: Signatures of pathogen-driven selection and molecular identification of candidate alleles to malaria protection. Mol Ecol. 2017 Nov;26(22):6238-6252. Pubmed
  • Sanchez-Mazas A, Nunes JM, Middleton D, Sauter J, Buhler S, McCabe A, Hofmann J, Baier DM, Schmidt AH, Nicoloso G, Andreani M, Grubic Z, Tiercy JM, Fleischhauer K. Common and well-documented HLA alleles over all of Europe and within European sub-regions: A catalogue from the European Federation for Immunogenetics. HLA. 2017 Feb;89(2):104-113. Pubmed
  • Santoni FA, Stamoulis G, Garieri M, Falconnet E, Ribaux P, Borel C, Antonarakis SE. Detection of imprinted genes by single-cell allele-specific gene expression. Am J Hum Genet. 2017 Mar 2;100(3):444-453. Pubmed
  • Schalch T, Steiner FA. Structure of centromere chromatin: from nucleosome to chromosomal architecture. Chromosoma. 2017 Aug;126(4):443-455. Pubmed
  • Silva NM, Rio J, Currat M. Investigating population continuity with ancient DNA under a spatially explicit simulation framework. BMC Genet. 2017 Dec 15;18(1):114. Pubmed
  • Sinturel F, Gerber A, Mauvoisin D, Wang J, Gatfield D, Stubblefield JJ, Green CB, Gachon F, Schibler U. Diurnal oscillations in liver mass and cell size accompany ribosome assembly cycles. Cell. 2017 May 4;169(4):651-663.e14. Pubmed
  • Sluysmans S, Vasileva E, Spadaro D, Shah J, Rouaud F, Citi S. The role of apical cell-cell junctions and associated cytoskeleton in mechanotransduction. Biol Cell. 2017 Apr;109(4):139-161. Pubmed
  • Spadaro D, Le S, Laroche T, Mean I, Jond L, Yan J, Citi S. Tension-dependent stretching activates ZO-1 to control the junctional localization of its interactors. Curr Biol. 2017 Dec 18;27(24):3783-3795.e8. Pubmed
  • Spiljar M, Merkler D, Trajkovski M. The immune system bridges the gut microbiota with systemic energy homeostasis: focus on TLRs, mucosal barrier, and SCFAs. Front Immunol. 2017 Oct 30;8:1353. Pubmed
  • Traub S, Meier DT, Schulze F, Dror E, Nordmann TM, Goetz N, Koch N, Dalmas E, Stawiski M, Makshana V, Thorel F, Herrera PL, Böni-Schnetzler M, Donath MY. Pancreatic α cell-derived glucagon-related peptides are required for β cell adaptation and glucose homeostasis. Cell Rep. 2017 Mar 28;18(13):3192-3203. Pubmed
  • Ullate-Agote A, Chan YF, Tzika AC. A step-by-step guide to assemble a reptilian genome. Methods Mol Biol. 2017;1650:47-67. Pubmed
  • Vasileva E, Sluysmans S, Bochaton-Piallat ML, Citi S. Cell-specific diversity in the expression and organization of cytoplasmic plaque proteins of apical junctions. Ann N Y Acad Sci. 2017 Oct;1405(1):160-176. Pubmed
  • Yamada Y, Bhaukaurally K, Madarász TJ, Pouget A, Rodriguez I, Carleton A. Context- and output layer-dependent long-term ensemble plasticity in a sensory circuit. Neuron. 2017 Mar 8;93(5):1198-1212.e5. Pubmed
  • Yin R, Ulm R. How plants cope with UV-B: from perception to response. Curr Opin Plant Biol. 2017 Jun;37:42-48. Pubmed
  • Zakany J, Darbellay F, Mascrez B, Necsulea A, Duboule D. Control of growth and gut maturation by HoxD genes and the associated lncRNA Haglr. Proc Natl Acad Sci U S A. 2017 Oct 31;114(44):E9290-E9299. Pubmed

2016

  • Albert B, Knight B, Merwin J, Martin V, Ottoz D, Gloor Y, Bruzzone MJ, Rudner A, Shore D. A molecular titration system coordinates ribosomal protein gene transcription with ribosomal RNA synthesis. Mol Cell. 2016 Nov 17;64(4):720-733. Pubmed
  • Ardissone S, Redder P, Russo G, Frandi A, Fumeaux C, Patrignani A, Schlapbach R, Falquet L, Viollier PH. Cell cycle constraints and environmental control of local DNA hypomethylation in α-proteobacteria. PLoS Genet. 2016 Dec 20;12(12):e1006499. Pubmed
  • Bergé M, Campagne S, Mignolet J, Holden S, Théraulaz L, Manley S, Allain FH, Viollier PH. Modularity and determinants of a (bi-)polarization control system from free-living and obligate intracellular bacteria. Elife. 2016 Dec 23;5. pii: e20640. Pubmed
  • Binkert M, Crocco CD, Ekundayo B, Lau K, Raffelberg S, Tilbrook K, Yin R, Chappuis R, Schalch T, Ulm R. Revisiting chromatin binding of the Arabidopsis UV-B photoreceptor UVR8. BMC Plant Biol. 2016 Feb 11;16(1):42. Pubmed
  • Bonilla X, Parmentier L, King B, Bezrukov F, Kaya G, Zoete V, Seplyarskiy VB, Sharpe HJ, McKee T, Letourneau A, Ribaux PG, Popadin K, Basset-Seguin N, Chaabene RB, Santoni FA, Andrianova MA, Guipponi M, Garieri M, Verdan C, Grosdemange K, Sumara O, Eilers M, Aifantis I, Michielin O, de Sauvage FJ, Antonarakis SE, Nikolaev SI. Genomic analysis identifies new drivers and progression pathways in skin basal cell carcinoma. Nat Genet. 2016 Apr;48(4):398-406. Pubmed
  • Buhler S, Nunes JM, Sanchez-Mazas A. HLA class I molecular variation and peptide-binding properties suggest a model of joint divergent asymmetric selection. Immunogenetics. 2016 Jul;68(6-7):401-16. Pubmed
  • Chera S, Herrera PL. Regeneration of pancreatic insulin-producing cells by in situ adaptive cell conversion. Curr Opin Genet Dev. 2016 Oct;40:1-10. Pubmed
  • Cigliola V, Thorel F, Chera S, Herrera PL. Stress-induced adaptive islet cell identity changes. Diabetes Obes Metab. 2016 Sep;18 Suppl 1:87-96. Pubmed
  • Collart MA. The Ccr4-Not complex is a key regulator of eukaryotic gene expression. Wiley Interdiscip Rev RNA. 2016 Jul;7(4):438-54. Pubmed
  • Damond N, Thorel F, Moyers JS, Charron MJ, Vuguin PM, Powers AC, Herrera PL. Blockade of glucagon signaling prevents or reverses diabetes onset only if residual β-cells persist. Elife. 2016 Apr 19;5:e13828. Pubmed
  • de Barsy M, Frandi A, Panis G, Théraulaz L, Pillonel T, Greub G, Viollier PH. Regulatory (pan-)genome of an obligate intracellular pathogen in the PVC superphylum. ISME J. 2016 Sep;10(9):2129-44. Pubmed
  • Denay G, Chahtane H, Tichtinsky G, Parcy F. A flower is born: an update on Arabidopsis floral meristem formation. Curr Opin Plant Biol. 2016 Oct 6;35:15-22. Pubmed
  • Eltschinger S, Loewith R. TOR complexes and the maintenance of cellular homeostasis. Trends Cell Biol. 2016 Feb;26(2):148-59. Pubmed
  • Fabbiano S, Suárez-Zamorano N, Rigo D, Veyrat-Durebex C, Stevanovic Dokic A, Colin DJ, Trajkovski M. Caloric restriction leads to browning of white adipose tissue through type 2 immune signaling. Cell Metab. 2016 Sep 13;24(3):434-46. Pubmed
  • Ferreira PG, Oti M, Barann M, Wieland T, Ezquina S, Friedländer MR, Rivas MA, Esteve-Codina A; GEUVADIS Consortium, Rosenstiel P, Strom TM, Lappalainen T, Guigó R, Sammeth M. Sequence variation between 462 human individuals fine-tunes functional sites of RNA processing. Sci Rep. 2016 Sep 12;6:32406. Pubmed
  • Fokstuen S, Makrythanasis P, Hammar E, Guipponi M, Ranza E, Varvagiannis K, Santoni FA, Albarca-Aguilera M, Poleggi ME, Couchepin F, Brockmann C, Mauron A, Hurst SA, Moret C, Gehrig C, Vannier A, Bevillard J, Araud T, Gimelli S, Stathaki E, Paoloni-Giacobino A, Bottani A, Sloan-Béna F, Sizonenko LD, Mostafavi M, Hamamy H, Nouspikel T, Blouin JL, Antonarakis SE. Experience of a multidisciplinary task force with exome sequencing for Mendelian disorders. Hum Genomics. 2016 Jun 28;10(1):24. Pubmed
  • Gaubitz C, Prouteau M, Kusmider B, Loewith R. TORC2 structure and function. Trends Biochem Sci. 2016 Jun;41(6):532-45. Pubmed
  • Glastonbury CA, Viñuela A, Buil A, Halldorsson GH, Thorleifsson G, Helgason H, Thorsteinsdottir U, Stefansson K, Dermitzakis ET, Spector TD, Small KS. Adiposity-dependent regulatory effects on multi-tissue transcriptomes. Am J Hum Genet. 2016 Sep 1;99(3):567-79. Pubmed
  • Guerrera D, Shah J, Vasileva E, Sluysmans S, Méan I, Jond L, Poser I, Mann M, Hyman AA, Citi S. PLEKHA7 recruits PDZD11 to adherens junctions to stabilize nectins. J Biol Chem. 2016 May 20;291(21):11016-29. Pubmed
  • Gupta I, Villanyi Z, Kassem S, Hughes C, Panasenko OO, Steinmetz LM, Collart MA. Translational capacity of a cell is determined during transcription elongation via the Ccr4-Not complex. Cell Rep. 2016 May 24;15(8):1782-94. Pubmed
  • Henrichfreise B, Brunke M, Viollier PH. Bacterial surfaces: the wall that SEDS built. Curr Biol. 2016 Nov 7;26(21):R1158-R1160. Pubmed
  • Janakiraman B, Mignolet J, Narayanan S, Viollier PH, Radhakrishnan SK. In-phase oscillation of global regulons is orchestrated by a pole-specific organizer. Proc Natl Acad Sci U S A. 2016 Nov 1;113(44):12550-12555. Pubmed
  • Job G, Brugger C, Xu T, Lowe BR, Pfister Y, Qu C, Shanker S, Baños Sanz JI, Partridge JF, Schalch T. SHREC silences heterochromatin via distinct remodeling and deacetylation modules. Mol Cell. 2016 Apr 21;62(2):207-21. Pubmed
  • Kirkpatrick CL, Martins D, Redder P, Frandi A, Mignolet J, Chapalay JB, Chambon M, Turcatti G, Viollier PH. Growth control switch by a DNA-damage-inducible toxin–antitoxin system in Caulobacter crescentus. Nat Microbiol. 2016 Feb 22;1:16008. Pubmed
  • Klöckner A, Bühl H, Viollier P, Henrichfreise B. Deconstructing the chlamydial cell wall. In ‘Current Topics in Microbiology and Immunology’, Springer, Berlin, Heidelberg, 2016: 1-33. Pubmed
  • Ligeiro D, Buhler S, Abecasis M, Abade O, Sanchez-Mazas A, da Silva MG, Trindade H. KIR genotypic diversity in Portuguese and analysis of KIR gene allocation after allogeneic hematopoietic stem cell transplantation. HLA. 2016 May;87(5):375-80. Pubmed
  • Lugli N, Kamileri I, Keogh A, Malinka T, Sarris ME, Talianidis I, Schaad O, Candinas D, Stroka D, Halazonetis TD. R-spondin 1 and noggin facilitate expansion of resident stem cells from non-damaged gallbladders. EMBO Rep. 2016 May;17(5):769-79. Pubmed
  • Makhlouf AM, Chitikova Z, Pusztaszeri M, Berczy M, Delucinge-Vivier C, Triponez F, Meyer P, Philippe J, Dibner C. Identification of CHEK1, SLC26A4, c-KIT, TPO and TG as new biomarkers for human follicular thyroid carcinoma. Oncotarget. 2016 Jul 19;7(29):45776-45788. Pubmed
  • Makrythanasis P, Guipponi M, Santoni FA, Zaki M, Issa MY, Ansar M, Hamamy H, Antonarakis SE. Exome sequencing discloses KALRN homozygous variant as likely cause of intellectual disability and short stature in a consanguineous pedigree. Hum Genomics. 2016 Jul 16;10(1):26. Pubmed
  • Mignolet J, Holden S, Bergé M, Panis G, Eroglu E, Théraulaz L, Manley S, Viollier PH. Functional dichotomy and distinct nanoscale assemblies of a cell cycle-controlled bipolar zinc-finger regulator. Elife. 2016 Dec 23;5. pii: e18647. Pubmed
  • Nicastro N, Ranza E, Antonarakis SE, Horvath J. Pure Progressive Ataxia and Palatal Tremor (PAPT) associated with a new Polymerase Gamma (POLG) mutation. Cerebellum. 2016 Dec;15(6):829-831. Pubmed
  • Ongen H, Buil A, Brown AA, Dermitzakis ET, Delaneau O. Fast and efficient QTL mapper for thousands of molecular phenotypes. Bioinformatics. 2016 May 15;32(10):1479-85. Pubmed
  • Petrenko V, Saini C, Perrin L, Dibner C. Parallel measurement of circadian clock gene expression and hormone secretion in human primary cell cultures. J Vis Exp. 2016 Nov 11;(117). Pubmed
  • Piskurewicz U, Iwasaki M, Susaki D, Megies C, Kinoshita T, Lopez-Molina L. Dormancy-specific imprinting underlies maternal inheritance of seed dormancy in Arabidopsis thaliana. Elife. 2016 Dec 22;5. pii: e19573. Pubmed
  • Rivera-Rivera CJ, Montoya-Burgos JI. LS3: a method for improving phylogenomic inferences when evolutionary rates are heterogeneous among taxa. Mol Biol Evol. 2016 Jun;33(6):1625-34. Pubmed
  • Romòn I, Montes C, Ligeiro D, Trindade H, Sanchez-Mazas A, Nunes JM, Buhler S. Mapping the HLA diversity of the Iberian Peninsula. Hum Immunol. 2016 Oct;77(10):832-40. Pubmed
  • Saini C, Petrenko V, Pulimeno P, Giovannoni L, Berney T, Hebrok M, Howald C, Dermitzakis ET, Dibner C. A functional circadian clock is required for proper insulin secretion by human pancreatic islet cells. Diabetes Obes Metab. 2016 Apr;18(4):355-65. Pubmed
  • Schossleitner K, Rauscher S, Gröger M, Friedl HP, Finsterwalder R, Habertheuer A, Sibilia M, Brostjan C, Födinger D, Citi S, Petzelbauer P. Evidence that cingulin regulates endothelial barrier function in vitro and in vivo. Arterioscler Thromb Vasc Biol. 2016 Apr;36(4):647-54. Pubmed
  • Shah J, Guerrera D, Vasileva E, Sluysmans S, Bertels E, Citi S. PLEKHA7: Cytoskeletal adaptor protein at center stage in junctional organization and signaling. Int J Biochem Cell Biol. 2016 Jun;75:112-6. Pubmed
  • Shyian M, Mattarocci S, Albert B, Hafner L, Lezaja A, Costanzo M, Boone C, Shore D. Budding yeast Rif1 controls genome integrity by inhibiting rDNA replication. PLoS Genet. 2016 Nov 7;12(11):e1006414. Pubmed
  • Styles EB, Founk KJ, Zamparo LA, Sing TL, Altintas D, Ribeyre C, Ribaud V, Rougemont J, Mayhew D, Costanzo M, Usaj M, Verster AJ, Koch EN, Novarina D, Graf M, Luke B, Muzi-Falconi M, Myers CL, Mitra RD, Shore D, Brown GW, Zhang Z, Boone C1, Andrews BJ. Exploring quantitative yeast phenomics with single-cell analysis of DNA damage foci. Cell Syst. 2016 Sep 28;3(3):264-277.e10. Pubmed
  • Telley L, Govindan S, Prados J, Stevant I, Nef S, Dermitzakis E, Dayer A, Jabaudon D. Sequential transcriptional waves direct the differentiation of newborn neurons in the mouse neocortex. Science. 2016 Mar 25;351(6280):1443-6. Pubmed
  • Tilbrook K, Dubois M, Crocco CD, Yin R, Chappuis R, Allorent G, Schmid-Siegert E, Goldschmidt-Clermont M, Ulm R. UV-B perception and acclimation in Chlamydomonas reinhardtii. Plant Cell. 2016 Apr;28(4):966-83. Pubmed
  • Trajkovski M, Wollheim CB. Microbial signals to the brain control weight. Nature. 2016 Jun 8;534(7606):185-7. Pubmed
  • Villanyi Z, Collart MA. Building on the Ccr4-Not architecture. Bioessays. 2016 Oct;38(10):997-1002. Pubmed
  • Vogg MC, Wenger Y, Galliot B. How somatic adult tissues develop organizer activity. Curr Top Dev Biol. 2016;116:391-414. Pubmed
  • Wenger Y, Buzgariu W, Galliot B. Loss of neurogenesis in Hydra leads to compensatory regulation of neurogenic and neurotransmission genes in epithelial cells. Philos Trans R Soc Lond B Biol Sci. 2016 Jan 5;371(1685):20150040. Pubmed

2015

  • Ardissone S, Viollier PH. Interplay between flagellation and cell cycle control in Caulobacter. Curr Opin Microbiol. 2015 Oct 15;28:83-92. Pubmed
  • Bartošová-Sojková P, Oppenheim RD, Soldati-Favre D, Lukeš J. Epicellular apicomplexans: parasites "On the way in". PLoS Pathog. 2015 Sep 24;11(9):e1005080. Pubmed
  • Belin D, Plaia G, Boulfekhar Y, Silva F. Escherichia coli SecG is required for residual export mediated by mutant signal sequences and for SecY-SecE complex stability. J Bacteriol. 2015 Feb;197(3):542-52. Pubmed
  • Bender T, Pena G, Martinou JC. Regulation of mitochondrial pyruvate uptake by alternative pyruvate carrier complexes. EMBO J. 2015 Apr 1;34(7):911-24. Pubmed
  • Borel C, Ferreira PG, Santoni F, Delaneau O, Fort A, Popadin KY, Garieri M, Falconnet E, Ribaux P, Guipponi M, Padioleau I, Carninci P, Dermitzakis ET, Antonarakis SE. Biased allelic expression in human primary fibroblast single cells. Am J Hum Genet. 2015 Jan 8;96(1):70-80. Pubmed
  • Brault V, Duchon A, Romestaing C, Sahun I, Pothion S, Karout M, Borel C, Dembele D, Bizot JC, Messaddeq N, Sharp AJ, Roussel D, Antonarakis SE, Dierssen M, Hérault Y. Opposite phenotypes of muscle strength and locomotor function in mouse models of partial trisomy and monosomy 21 for the proximal Hspa13-App region. PLoS Genet. 2015 Mar 24;11(3):e1005062. Pubmed
  • Buzgariu W, Al Haddad S, Tomczyk S, Wenger Y, Galliot B. Multi-functionality and plasticity characterize epithelial cells in Hydra. Tissue Barriers. 2015 Jul 15;3(4):e1068908. Pubmed
  • Castelnuovo M, Stutz F. Role of chromatin, environmental changes and single cell heterogeneity in non-coding transcription and gene regulation. Curr Opin Cell Biol. 2015 Jun;34:16-22. Pubmed
  • Castonguay E, White SA, Kagansky A, St-Cyr DJ, Castillo AG, Brugger C, White R, Bonilla C, Spitzer M, Earnshaw WC, Schalch T, Ekwall K, Tyers M, Allshire RC. Panspecies small-molecule disruptors of heterochromatin-mediated transcriptional gene silencing. Mol Cell Biol. 2015 Feb;35(4):662-74. Pubmed
  • Chentouf A, Dahdouh A, Guipponi M, Oubaiche ML, Chaouch M, Hamamy H, Antonarakis SE. Familial epilepsy in Algeria: Clinical features and inheritance profiles. Seizure. 2015 Sep;31:12-8. Pubmed
  • De Giorgi J, Piskurewicz U, Loubery S, Utz-Pugin A, Bailly C, Mène-Saffrané L, Lopez-Molina L. An endosperm-associated cuticle is required for Arabidopsis seed viability, dormancy and early control of germination. PLoS Genet. 2015 Dec 17;11(12):e1005708. Pubmed
  • Di D, Sanchez-Mazas A, Currat M. Computer simulation of human leukocyte antigen genes supports two main routes of colonization by human populations in East Asia. BMC Evol Biol. 2015 Nov 4;15:240. Pubmed
  • Dieudonné FX, O’Connor PB, Gubler-Jaquier P, Yasrebi H, Conne B, Nikolaev S, Antonarakis S, Baranov PV, Curran J. The effect of heterogeneous Transcription Start Sites (TSS) on the translatome: implications for the mammalian cellular phenotype. BMC Genomics. 2015 Nov 21;16:986. Pubmed
  • Dos Santos Francisco R, Buhler S, Nunes JM, Bitarello BD, França GS, Meyer D, Sanchez-Mazas A. HLA supertype variation across populations: new insights into the role of natural selection in the evolution of HLA-A and HLA-B polymorphisms. Immunogenetics. 2015 Nov;67(11-12):651-63. Pubmed
  • Gaubitz C, Oliveira TM, Prouteau M, Leitner A, Karuppasamy M, Konstantinidou G, Rispal D, Eltschinger S, Robinson GC, Thore S, Aebersold R, Schaffitzel C, Loewith R. Molecular basis of the rapamycin insensitivity of Target Of Rapamycin Complex 2. Mol Cell. 2015 Jun 18;58(6):977-88. Pubmed
  • GTEx Consortium. The Genotype-Tissue Expression (GTEx) pilot analysis: multitissue gene regulation in humans. Science. 2015 May 8;348(6235):648-60. Pubmed
  • Guipponi M, Chentouf A, Webling KE, Freimann K, Crespel A, Nobile C, Lemke JR, Hansen J, Dorn T, Lesca G, Ryvlin P, Hirsch E, Rudolf G, Rosenberg DS, Weber Y, Becker F, Helbig I, Muhle H, Salzmann A, Chaouch M, Oubaiche ML, Ziglio S, Gehrig C, Santoni F, Pizzato M, Langel Ü, Antonarakis SE. Galanin pathogenic mutations in temporal lobe epilepsy. Hum Mol Genet. 2015 Jun 1;24(11):3082-91. Pubmed
  • Gutierrez-Arcelus M, Ongen H, Lappalainen T, Montgomery SB, Buil A, Yurovsky A, Bryois J, Padioleau I, Romano L, Planchon A, Falconnet E, Bielser D, Gagnebin M, Giger T, Borel C, Letourneau A, Makrythanasis P, Guipponi M, Gehrig C, Antonarakis SE, Dermitzakis ET. Tissue-specific effects of genetic and epigenetic variation on gene regulation and splicing. PLoS Genet. 2015 Jan 29;11(1):e1004958. Pubmed
  • Jacquier N, Frandi A, Viollier PH, Greub G. Disassembly of a medial transenvelope structure by antibiotics during intracellular division. Chem Biol. 2015 Sep 17;22(9):1217-27. Pubmed
  • Jacquier N, Viollier PH, Greub G. The role of peptidoglycan in chlamydial cell division: towards resolving the chlamydial anomaly. FEMS Microbiol Rev. 2015 Mar;39(2):262-75. Pubmed
  • Joshi KK, Bergé M, Radhakrishnan SK, Viollier PH, Chien P. An adaptor hierarchy regulates proteolysis during a bacterial cell cycle. Cell. 2015 Oct 8;163(2):419-31. Pubmed
  • Jourdain AA, Koppen M, Rodley CD, Maundrell K, Gueguen N, Reynier P, Guaras AM, Enriquez JA, Anderson P, Simarro M, Martinou JC. A mitochondria-specific isoform of FASTK is present in mitochondrial RNA granules and regulates gene expression and function. Cell Rep. 2015 Feb 24;10(7):1110-21. Pubmed
  • Kang J, Yim S, Choi H, Kim A, Lee KP, Lopez-Molina L, Martinoia E, Lee Y. Abscisic acid transporters cooperate to control seed germination. Nat Commun. 2015 Sep 3;6:8113. Pubmed
  • Korhonen HM, Yadav RP, Da Ros M, Chalmel F, Zimmermann C, Toppari J, Nef S, Kotaja N. DICER regulates the formation and maintenance of cell-cell junctions in the mouse seminiferous epithelium. Biol Reprod. 2015 Dec;93(6):139. Pubmed
  • Kourtidis A, Ngok SP, Pulimeno P, Feathers RW, Carpio LR, Baker TR, Carr JM, Yan IK, Borges S, Perez EA, Storz P, Copland JA, Patel T, Thompson EA, Citi S, Anastasiadis PZ. Distinct E-cadherin-based complexes regulate cell behaviour through miRNA processing or Src and p120 catenin activity. Nat Cell Biol. 2015 Sep;17(9):1145-57. Pubmed
  • Kubik S, Bruzzone MJ, Jacquet P, Falcone JL, Rougemont J, Shore D. Nucleosome stability distinguishes two different promoter types at all protein-coding genes in yeast. Mol Cell. 2015 Nov 5;60(3):422-34. Pubmed
  • Legrand N, Jaquier-Gubler P, Curran J. The impact of the phosphomimetic eIF2αS/D on global translation, reinitiation and the integrated stress response is attenuated in N2a cells. Nucleic Acids Res. 2015 Sep 30;43(17):8392-404. Pubmed
  • Letourneau A, Cobellis G, Fort A, Santoni F, Garieri M, Falconnet E, Ribaux P, Vannier A, Guipponi M, Carninci P, Borel C, Antonarakis SE. HSA21 Single-Minded 2 (Sim2) binding sites co-localize with super-enhancers and pioneer transcription factors in pluripotent mouse ES cells. PLoS One. 2015 May 8;10(5):e0126475. Pubmed
  • Longoni P, Douchi D, Cariti F, Fucile G, Goldschmidt-Clermont M. Phosphorylation of the Light-harvesting complex II isoform Lhcb2 is central to state transitions. Plant Physiol. 2015 Dec;169(4):2874-83. Pubmed
  • Lukowski SW, Fish RJ, Martin-Levilain J, Gonelle-Gispert C, Bühler LH, Maechler P, Dermitzakis ET, Neerman-Arbez M. Integrated analysis of mRNA and miRNA expression in response to interleukin-6 in hepatocytes. Genomics. 2015 Aug;106(2):107-15. Pubmed
  • Melé M, Ferreira PG, Reverter F, DeLuca DS, Monlong J, Sammeth M, Young TR, Goldmann JM, Pervouchine DD, Sullivan TJ, Johnson R, Segrè AV, Djebali S, Niarchou A, GTEx Consortium, Wright FA, Lappalainen T, Calvo M, Getz G, Dermitzakis ET, Ardlie KG, Guigó R. The human transcriptome across tissues and individuals. Science. 2015 May 8;348(6235):660-5. Pubmed
  • Ongen H, Dermitzakis ET. Alternative splicing QTLs in European and African populations. Am J Hum Genet. 2015 Oct 1;97(4):567-75. Pubmed
  • Panis G, Murray SR, Viollier PH. Versatility of global transcriptional regulators in alpha-Proteobacteria: from essential cell cycle control to ancillary functions. FEMS Microbiol Rev. 2015 Jan;39(1):120-33. Pubmed
  • Pini F, De Nisco NJ, Ferri L, Penterman J, Fioravanti A, Brilli M, Mengoni A, Bazzicalupo M, Viollier PH, Walker GC, Biondi EG. Cell cycle control by the master regulator CtrA in Sinorhizobium meliloti. PLoS Genet. 2015 May 15;11(5):e1005232. Pubmed
  • Quilodrán CS, Montoya-Burgos JI, Currat M. Modelling interspecific hybridization with genome exclusion to identify conservation actions: the case of native and invasive Pelophylax waterfrogs. Evol Appl. 2015 Feb;8(2):199-210. Pubmed
  • Rispal D, Eltschinger S, Stahl M, Vaga S, Bodenmiller B, Abraham Y, Filipuzzi I, Movva NR, Aebersold R, Helliwell SB, Loewith R. Target of rapamycin complex 2 regulates actin polarization and endocytosis via multiple pathways. J Biol Chem. 2015 Jun 12;290(24):14963-78. Pubmed
  • Rivas MA, Pirinen M, Conrad DF, Lek M, Tsang EK, Karczewski KJ, Maller JB, Kukurba KR, DeLuca DS, Fromer M, Ferreira PG, Smith KS, Zhang R, Zhao F, Banks E, Poplin R, Ruderfer DM, Purcell SM, Tukiainen T, Minikel EV, Stenson PD, Cooper DN, Huang KH, Sullivan TJ, Nedzel J, GTEx Consortium, Geuvadis Consortium, Bustamante CD, Li JB, Daly MJ, Guigo R, Donnelly P, Ardlie K, Sammeth M, Dermitzakis ET, McCarthy MI, Montgomery SB, Lappalainen T, MacArthur DG. Effect of predicted protein-truncating genetic variants on the human transcriptome. Science. 2015 May 8;348(6235):666-9. Pubmed
  • Rosa A, Chande A, Ziglio S, De Sanctis V, Bertorelli R, Goh SL, McCauley SM, Nowosielska A, Antonarakis SE, Luban J, Santoni FA, Pizzato M. HIV-1 Nef promotes infection by excluding SERINC5 from virion incorporation. Nature. 2015 Oct 8;526(7572):212-7. Pubmed
  • Sailani MR, Santoni FA, Letourneau A, Borel C, Makrythanasis P, Hibaoui Y, Popadin K, Bonilla X, Guipponi M, Gehrig C, Vannier A, Carre-Pigeon F, Feki A, Nizetic D, Antonarakis SE. DNA-methylation patterns in trisomy 21 using cells from monozygotic twins. PLoS One. 2015 Aug 28;10(8):e0135555. Pubmed
  • Sanselicio S, Bergé M, Théraulaz L, Radhakrishnan SK, Viollier PH. Topological control of the Caulobacter cell cycle circuitry by a polarized single-domain PAS protein. Nat Commun. 2015 May 8;6:7005. Pubmed
  • Sanselicio S, Viollier PH. Convergence of alarmone and cell cycle signaling from trans-encoded sensory domains. MBio. 2015 Oct 20;6(5). pii: e01415-15. Pubmed
  • Santoni FA, Makrythanasis P, Antonarakis SE. CATCHing putative causative variants in consanguineous families. BMC Bioinformatics. 2015 Sep 28;16:310. Pubmed
  • Texari L, Stutz F. Sumoylation and transcription regulation at nuclear pores. Chromosoma. 2015 Mar;124(1):45-56. Pubmed
  • Tille JC, Ho L, Shah J, Seyde O, McKee TA, Citi S. The expression of the zonula adhaerens protein PLEKHA7 is strongly decreased in high grade ductal and lobular breast carcinomas. PLoS One. 2015 Aug 13;10(8):e0135442. Pubmed
  • Tymoshenko S, Oppenheim RD, Agren R, Nielsen J, Soldati-Favre D, Hatzimanikatis V. Metabolic needs and capabilities of Toxoplasma gondii through combined computational and experimental analysis. PLoS Comput Biol. 2015 May 22;11(5):e1004261. Pubmed
  • Tzika AC, Ullate-Agote A, Grbic D, Milinkovitch MC. Reptilian Transcriptomes v2.0: an extensive resource for Sauropsida genomics and transcriptomics. Genome Biol Evol. 2015 Jul 1;7(6):1827-41. Pubmed
  • Villanyi Z, Collart MA. Ccr4-Not is at the core of the eukaryotic gene expression circuitry. Biochem Soc Trans. 2015 Dec;43(6):1253-8. Pubmed
  • Waszak SM, Delaneau O, Gschwind AR, Kilpinen H, Raghav SK, Witwicki RM, Orioli A, Wiederkehr M, Panousis NI, Yurovsky A, Romano-Palumbo L, Planchon A, Bielser D, Padioleau I, Udin G, Thurnheer S, Hacker D, Hernandez N, Reymond A, Deplancke B, Dermitzakis ET. Population variation and genetic control of modular chromatin architecture in humans. Cell. 2015 Aug 27;162(5):1039-50. Pubmed
  • Weiss B, Curran JA. CAP(+) selection: A combined chemical-enzymatic strategy for efficient eukaryotic messenger RNA enrichment via the 5′ cap. Anal Biochem. 2015 Sep 1;484:72-4. Pubmed

2014

  • Ardissone S, Fumeaux C, Bergé M, Beaussart A, Théraulaz L, Radhakrishnan SK, Dufrêne YF, Viollier PH. Cell cycle constraints on capsulation and bacteriophage susceptibility. eLife 2014 Nov 25;3:e03587. Pubmed
  • Bryois J, Buil A, Evans DM, Kemp JP, Montgomery SB, Conrad DF, Ho KM, Ring S, Hurles M, Deloukas P, Davey Smith G, Dermitzakis ET. Cis and trans effects of human genomic variants on gene expression. PLoS Genet. 2014 Jul 10;10(7):e1004461. Pubmed
  • Callier P, Calvel P, Matevossian A, Makrythanasis P, Bernard P, Kurosaka H, Vannier A, Thauvin-Robinet C, Borel C, Mazaud-Guittot S, Rolland A, Desdoits-Lethimonier C, Guipponi M, Zimmermann C, Stévant I, Kuhne F, Conne B, Santoni F, Lambert S, Huet F, Mugneret F, Jaruzelska J, Faivre L, Wilhelm D, Jégou B, Trainor PA, Resh MD, Antonarakis SE, Nef S. Loss of function mutation in the palmitoyl-transferase HHAT leads to syndromic 46,XY disorder of sex development by impeding Hedgehog protein palmitoylation and signaling. PLoS Genet. 2014 May 1;10(5):e1004340. Pubmed
  • Castelnuovo M, Zaugg JB, Guffanti E, Maffioletti A, Camblong J, Xu Z, Clauder-Münster S, Steinmetz LM, Luscombe NM, Stutz F. Role of histone modifications and early termination in pervasive transcription and antisense-mediated gene silencing in yeast. Nucleic Acids Res. 2014 Apr;42(7):4348-62. Pubmed
  • Collart MA, Reese JC. Gene expression as a circular process: Cross-talk between transcription and mRNA degradation in eukaryotes. RNA Biol. 2014 Apr 1;11(4):320-3. Pubmed
  • Excoffier L, Quilodran CS, Currat M. Models of hybridization during range expansions and their application to recent human evolution. In ‘Cultural Developments in the Eurasian Paleolithic and the Origin of Anatomically Modern Humans’, edited by Derevianko AP & Shunkov M, Department of the Institute of Archaeology and Ethnography SB RAS, Novosibirsk, Russia, 2014: 122-137. Access to full text
  • Feaga HA, Viollier PH, Keiler KC. Release of nonstop ribosomes is essential. MBio. 2014 Nov 11;5(6). pii: e01916-14. Pubmed
  • Fiebig A, Herrou J, Fumeaux C, Radhakrishnan SK, Viollier PH, Crosson S. A cell cycle and nutritional checkpoint controlling bacterial surface adhesion. PLoS Genet. 2014 Jan;10(1):e1004101. Pubmed
  • Fish RJ, Di Sanza C, Neerman-Arbez M. Targeted mutation of zebrafish fga models human congenital afibrinogenemia. Blood. 2014 Apr 3;123(14):2278-81. Pubmed
  • Frandi A, Jacquier N, Théraulaz L, Greub G, Viollier PH. FtsZ-independent septal recruitment and function of cell wall remodelling enzymes in chlamydial pathogens. Nat Commun. 2014 Jun 23;5:4200. Pubmed
  • Fumeaux C, Radhakrishnan SK, Ardissone S, Théraulaz L, Frandi A, Martins D, Nesper J, Abel S, Jenal U, Viollier PH. Cell cycle transition from S-phase to G1 in Caulobacter is mediated by ancestral virulence regulators. Nat Commun. 2014 Jun 18;5:4081. Pubmed
  • Gannagé-Yared MH, Makrythanasis P, Chouery E, Sobacchi C, Mehawej C, Santoni FA, Guipponi M, Antonarakis SE, Hamamy H, Mégarbané A. Exome sequencing reveals a mutation in DMP1 in a family with familial sclerosing bone dysplasia. Bone. 2014 Nov;68:142-5. Pubmed
  • Griffeth RJ, Bianda V, Nef S. The emerging role of insulin-like growth factors in testis development and function. Basic Clin Androl. 2014 Aug 18;24:12. Pubmed
  • Guipponi M, Santoni FA, Setola V, Gehrig C, Rotharmel M, Cuenca M, Guillin O, Dikeos D, Georgantopoulos G, Papadimitriou G, Curtis L, Méary A, Schürhoff F, Jamain S, Avramopoulos D, Leboyer M, Rujescu D, Pulver A, Campion D, Siderovski DP, Antonarakis SE. Exome sequencing in 53 sporadic cases of schizophrenia identifies 18 putative candidate genes. PLoS One. 2014 Nov 24;9(11):e112745. Pubmed
  • Halter D, Collart MA, Panasenko OO. The Not4 E3 ligase and CCR4 deadenylase play distinct roles in protein quality control. PLoS One. 2014 Jan 17;9(1):e86218. Pubmed
  • Hibaoui Y, Grad I, Letourneau A, Sailani MR, Dahoun S, Santoni FA, Gimelli S, Guipponi M, Pelte MF, Béna F, Antonarakis SE, Feki A. Modelling and rescuing neurodevelopmental defect of Down syndrome using induced pluripotent stem cells from monozygotic twins discordant for trisomy 21. EMBO Mol Med. 2014 Feb;6(2):259-77. Pubmed
  • Hibaoui Y, Grad I, Letourneau A, Santoni FA, Antonarakis SE, Feki A. Data in brief: Transcriptome analysis of induced pluripotent stem cells from monozygotic twins discordant for trisomy 21. Genom Data. 2014 Aug 1;2:226-9. Pubmed
  • Jacquier N, Frandi A, Pillonel T, Viollier P, Greub G. Cell wall precursors are required to organize the chlamydial division septum. Nat Commun. 2014 Apr 8;5:3578. Pubmed
  • Kirkpatrick CL, Viollier PH. Synthetic interaction between the TipN polarity factor and an AcrAB-family efflux pump implicates cell polarity in bacterial drug resistance. Chem Biol. 2014 May 22;21(5):657-65. Pubmed
  • Knight B, Kubik S, Ghosh B, Bruzzone MJ, Geertz M, Martin V, Dénervaud N, Jacquet P, Ozkan B, Rougemont J, Maerkl SJ, Naef F, Shore D. Two distinct promoter architectures centered on dynamic nucleosomes control ribosomal protein gene transcription. Genes Dev. 2014 Aug 1;28(15):1695-709. Pubmed
  • Legrand N, Araud T, Conne B, Kuijpers O, Jaquier-Gubler P, Curran J. An AUG codon conserved for protein function rather than translational initiation: the story of the protein sElk1. PLoS One. 2014 Jul 18;9(7):e102890. Pubmed
  • Letourneau A, Santoni FA, Bonilla X, Sailani MR, Gonzalez D, Kind J, Chevalier C, Thurman R, Sandstrom RS, Hibaoui Y, Garieri M, Popadin K, Falconnet E, Gagnebin M, Gehrig C, Vannier A, Guipponi M, Farinelli L, Robyr D, Migliavacca E, Borel C, Deutsch S, Feki A, Stamatoyannopoulos JA, Herault Y, van Steensel B, Guigo R, Antonarakis SE. Domains of genome-wide gene expression dysregulation in Down’s syndrome. Nature. 2014 Apr 17;508(7496):345-50. Pubmed
  • Linder P, Lemeille S, Redder P. Transcriptome-wide analyses of 5′-ends in RNase J mutants of a gram-positive pathogen reveal a role in RNA maturation, regulation and degradation. PLoS Genet. 2014 Feb 27;10(2):e1004207. Pubmed
  • MacArthur DG, Manolio TA, Dimmock DP, Rehm HL, Shendure J, Abecasis GR, Adams DR, Altman RB, Antonarakis SE, Ashley EA, Barrett JC, Biesecker LG, Conrad DF, Cooper GM, Cox NJ, Daly MJ, Gerstein MB, Goldstein DB, Hirschhorn JN, Leal SM, Pennacchio LA, Stamatoyannopoulos JA, Sunyaev SR, Valle D, Voight BF, Winckler W, Gunter C. Guidelines for investigating causality of sequence variants in human disease. Nature. 2014 Apr 24;508(7497):469-76. Pubmed
  • Nikolaev SI, Garieri M, Santoni F, Falconnet E, Ribaux P, Guipponi M, Murray A, Groet J, Giarin E, Basso G, Nizetic D, Antonarakis SE. Frequent cases of RAS-mutated Down syndrome acute lymphoblastic leukaemia lack JAK2 mutations. Nat Commun. 2014 Aug 8;5:4654. Pubmed
  • Nikolaev S, Santoni F, Garieri M, Makrythanasis P, Falconnet E, Guipponi M, Vannier A, Radovanovic I, Bena F, Forestier F, Schaller K, Dutoit V, Clement-Schatlo V, Dietrich PY, Antonarakis SE. Extrachromosomal driver mutations in glioblastoma and low-grade glioma. Nat Commun. 2014 Dec 4;5:5690. Pubmed
  • Nunes JM, Buhler S, Roessli D, Sanchez-Mazas A; HLA-net 2013 collaboration. The HLA-net GENE[RATE] pipeline for effective HLA data analysis and its application to 145 population samples from Europe and neighbouring areas. Tissue Antigens. 2014 May;83(5):307-23. Pubmed
  • Ongen H, Andersen CL, Bramsen JB, Oster B, Rasmussen MH, Ferreira PG, Sandoval J, Vidal E, Whiffin N, Planchon A, Padioleau I, Bielser D, Romano L, Tomlinson I, Houlston RS, Esteller M, Orntoft TF, Dermitzakis ET. Putative cis-regulatory drivers in colorectal cancer. Nature. 2014 Aug 7;512(7512):87-90. Pubmed
  • Oppenheim RD, Creek DJ, Macrae JI, Modrzynska KK, Pino P, Limenitakis J, Polonais V, Seeber F, Barrett MP, Billker O, McConville MJ, Soldati-Favre D. BCKDH: the missing link in apicomplexan mitochondrial metabolism is required for full virulence of Toxoplasma gondii and Plasmodium berghei. PLoS Pathog. 2014 Jul 17;10(7):e1004263. Pubmed
  • Pouchelon G, Gambino F, Bellone C, Telley L, Vitali I, Lüscher C, Holtmaat A, Jabaudon D. Modality-specific thalamocortical inputs instruct the identity of postsynaptic L4 neurons. Nature. 2014 Jul 24;511(7510):471-4. Pubmed
  • Quilodrán CS, Currat M, Montoya-Burgos JI. A general model of distant hybridization reveals the conditions for extinction in Atlantic salmon and brown trout. PLoS One. 2014 Jul 8;9(7):e101736. Pubmed
  • Sanchez-Mazas A, Meyer D. The relevance of HLA sequencing in population genetics studies. J Immunol Res. 2014;2014:971818. Pubmed
  • Santoni FA, Makrythanasis P, Nikolaev S, Guipponi M, Robyr D, Bottani A, Antonarakis SE. Simultaneous identification and prioritization of variants in familial, de novo, and somatic genetic disorders with VariantMaster. Genome Res. 2014 Feb;24(2):349-55. Pubmed
  • Ullate-Agote A, Milinkovitch MC, Tzika AC. The genome sequence of the corn snake (Pantherophis guttatus), a valuable resource for EvoDevo studies in squamates. Int J Dev Biol. 2014;58(10-12):881-8. Pubmed
  • Villanyi Z, Ribaud V, Kassem S, Panasenko OO, Pahi Z, Gupta I, Steinmetz L, Boros I, Collart MA. The Not5 subunit of the ccr4-not complex connects transcription and translation. PLoS Genet. 2014 Oct 23;10(10):e1004569. Pubmed
  • Wenger Y, Buzgariu W, Reiter S, Galliot B. Injury-induced immune responses in Hydra. Semin Immunol. 2014 Jul 30. pii: S1044-5323(14)00061-X. Pubmed

2013

  • Castelnuovo M, Rahman S, Guffanti E, Infantino V, Stutz F, Zenklusen D. Bimodal expression of PHO84 is modulated by early termination of antisense transcription. Nat Struct Mol Biol. 2013 Jul;20(7):851-8. Pubmed
  • Castelnuovo M, Stutz F. Gene loops and HDACs to promote transcription directionality. Nucleus. 2013 Mar-Apr;4(2):92-4. Pubmed
  • Collart MA. The NOT4 RING E3 ligase: a relevant player in cotranslational quality control. ISRN Mol Biol. 2013 Jan 21;2013:548359. Pubmed
  • Collart M, Panasenko O, Nikolaev S. The Not3/5 subunit of the Ccr4-Not complex: A central regulator of gene expression that integrates signals between the cytoplasm and the nucleus in eukaryotic cells. Cell Signal. 2013 Apr;25(4):743-51. Pubmed
  • C’t Hoen PA, Friedländer MR, Almlöf J, Sammeth M, Pulyakhina I, Anvar SY, Laros JF, Buermans HP, Karlberg O, Brännvall M; GEUVADIS Consortium, den Dunnen JT, van Ommen GJ, Gut IG, Guigó R, Estivill X, Syvänen AC, Dermitzakis ET, Lappalainen T. Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories. Nat Biotechnol. 2013 Nov;31(11):1015-22. Pubmed
  • Davis NJ, Cohen Y, Sanselicio S, Fumeaux C, Ozaki S, Luciano J, Guerrero-Ferreira RC, Wright ER, Jenal U, Viollier PH. De- and repolarization mechanism of flagellar morphogenesis during a bacterial cell cycle. Genes Dev. 2013 Sep 15;27(18):2049-62. Pubmed
  • De la Rossa A, Bellone C, Golding B, Vitali I, Moss J, Toni N, Lüscher C, Jabaudon D. In vivo reprogramming of circuit connectivity in postmitotic neocortical neurons. Nat Neurosci. 2013 Feb;16(2):193-200. Pubmed
  • Guillemot L, Spadaro D, Citi S. The junctional proteins cingulin and paracingulin modulate the expression of tight junction protein genes through GATA-4. PLoS ONE 2013 Feb;8(2):e55873. Pubmed
  • Gutierrez-Arcelus M, Lappalainen T, Montgomery SB, Buil A, Ongen H, Yurovsky A, Bryois J, Giger T, Romano L, Planchon A, Falconnet E, Bielser D, Gagnebin M, Padioleau I, Borel C, Letourneau A, Makrythanasis P, Guipponi M, Gehrig C, Antonarakis SE, Dermitzakis ET. Passive and active DNA methylation and the interplay with genetic variation in gene regulation. Elife. 2013 Jun 4;2:e00523. Pubmed
  • Jourdain AA, Koppen M, Wydro M, Rodley CD, Lightowlers RN, Chrzanowska-Lightowlers ZM, Martinou JC. GRSF1 regulates RNA processing in mitochondrial RNA granules. Cell Metab. 2013 Mar 5;17(3):399-410. Pubmed
  • Lappalainen T, Sammeth M, Friedländer MR, C’t Hoen PA, Monlong J, Rivas MA, Gonzàlez-Porta M, Kurbatova N, Griebel T, Ferreira PG, Barann M, Wieland T, Greger L, van Iterson M, Almlöf J, Ribeca P, Pulyakhina I, Esser D, Giger T, Tikhonov A, Sultan M, Bertier G, MacArthur DG, Lek M, Lizano E, Buermans HP, Padioleau I, Schwarzmayr T, Karlberg O, Ongen H, Kilpinen H, Beltran S, Gut M, Kahlem K, Amstislavskiy V, Stegle O, Pirinen M, Montgomery SB, Donnelly P, McCarthy MI, Flicek P, Strom TM; Geuvadis Consortium, Lehrach H, Schreiber S, Sudbrak R, Carracedo A, Antonarakis SE, Häsler R, Syvänen AC, van Ommen GJ, Brazma A, Meitinger T, Rosenstiel P, Guigó R, Gut IG, Estivill X, Dermitzakis ET; Geuvadis Consortium. Transcriptome and genome sequencing uncovers functional variation in humans. Nature. 2013 Sep 26;501(7468):506-11. Pubmed
  • Murray SM, Panis G, Fumeaux C, Viollier PH, Howard M. Computational and genetic reduction of a cell cycle to its simplest, primordial components. PLoS Biol. 2013 Dec;11(12):e1001749. Pubmed
  • Nica AC, Ongen H, Irminger JC, Bosco D, Berney T, Antonarakis SE, Halban PA, Dermitzakis ET. Cell-type, allelic, and genetic signatures in the human pancreatic beta cell transcriptome. Genome Res. 2013 Sep;23(9):1554-62. Pubmed
  • Nikolaev SI, Santoni F, Vannier A, Falconnet E, Giarin E, Basso G, Hoischen A, Veltman JA, Groet J, Nizetic D, Antonarakis SE. Exome sequencing identifies putative drivers of progression of transient myeloproliferative disorder to AMKL in infants with Down syndrome. Blood. 2013 Jul 25;122(4):554-61. Pubmed
  • Oun S, Redder P, Didier JP, François P, Corvaglia AR, Buttazzoni E, Giraud C, Girard M, Schrenzel J, Linder P. The CshA DEAD-box RNA helicase is important for quorum sensing control in Staphylococcus aureus. RNA Biol. 2013 Jan;10(1):157-65. Pubmed
  • Pitetti J-L, Calvel P, Romero Y, Conne B, Truong V, Papaioannou MD, Schaad O, Docquier M, Herrera PL, Wilhelm D, Nef S. Insulin and IGF1 receptors are essential for XX and XY gonadal differentiation and adrenal development in mice. PLoS Genet. 2013 Jan;9(1):e1003160. Pubmed
  • Popadin K, Gutierrez-Arcelus M, Dermitzakis ET, Antonarakis SE. Genetic and epigenetic regulation of human lincRNA gene expression. Am J Hum Genet. 2013 Dec 5;93(6):1015-26. Pubmed
  • Popadin KY, Nikolaev SI, Junier T, Baranova M, Antonarakis SE. Purifying selection in mammalian mitochondrial protein-coding genes is highly effective and congruent with evolution of nuclear genes. Mol Biol Evol. 2013 Feb;30(2): 347-355. Pubmed
  • Rihs TA, Tomescu MI, Britz J, Rochas V, Custo A, Schneider M, Debbané M, Eliez S, Michel CM. Altered auditory processing in frontal and left temporal cortex in 22q11.2 deletion syndrome: A group at high genetic risk for schizophrenia. Psychiatry Res. 2013 May 30;212(2):141-9. Pubmed
  • Sailani MR, Makrythanasis P, Valsesia A, Santoni FA, Deutsch S, Popadin K, Borel C, Migliavacca E, Sharp AJ, Duriaux Sail G, Falconnet E, Rabionet K, Serra-Juhé C, Vicari S, Laux D, Grattau Y, Dembour G, Megarbane A, Touraine R, Stora S, Kitsiou S, Fryssira H, Chatzisevastou-Loukidou C, Kanavakis E, Merla G, Bonnet D, Pérez-Jurado LA, Estivill X, Delabar JM, Antonarakis SE. The complex SNP and CNV genetic architecture of the increased risk of congenital heart defects in Down syndrome. Genome Res. 2013 Sep;23(9):1410-21. Pubmed
  • Sanchez-Mazas A, Buhler S, Nunes JM. A new HLA map of Europe: Regional genetic variation and its implication for peopling history, disease-association studies and tissue transplantation. Hum Hered. 2013;76(3-4):162-77. Pubmed
  • Shi T, Bunker RD, Mattarocci S, Ribeyre C, Faty M, Gut H, Scrima A, Rass U, Rubin SM, Shore D, Thomä NH. Rif1 and Rif2 shape telomere function and architecture through multivalent Rap1 interactions. Cell. 2013 Jun 6;153(6):1340-53. Pubmed
  • Steijger T, Abril JF, Engström PG, Kokocinski F; RGASP Consortium, Abril JF, Akerman M, Alioto T, Ambrosini G, Antonarakis SE, Behr J, Bertone P. Assessment of transcript reconstruction methods for RNA-seq. Nat Methods. 2013 Dec;10(12):1177-84. Pubmed
  • Storelli N, Peduzzi S, Saad MM, Frigaard NU, Perret X, Tonolla M. CO2 assimilation in the chemocline of Lake Cadagno is dominated by a few types of phototrophic purple sulfur bacteria. FEMS Microbiol Ecol. 2013 May;84(2):421-32. Pubmed
  • Texari L, Dieppois G, Vinciguerra P, Contreras MP, Groner A, Letourneau A, Stutz F. The nuclear pore regulates GAL1 gene transcription by controlling the localization of the SUMO protease Ulp1. Mol Cell. 2013 Sep 26;51(6):807-18. Pubmed
  • Vorjohann S, Pitetti JL, Nef S, Gonelle-Gispert C, Buhler L, Fish RJ, Neerman-Arbez M. DNA methylation profiling of the fibrinogen gene landscape in human cells and during mouse and zebrafish development. PLoS One. 2013 Aug 21;8(8):e73089. Pubmed
  • Wenger Y, Galliot B. Punctuated emergences of genetic and phenotypic innovations in eumetazoan, bilaterian, euteleostome, and hominidae ancestors. Genome Biol Evol. 2013 Jan;5(10):1949-68. Pubmed
  • Wenger Y, Galliot B. RNAseq versus genome-predicted transcriptomes: a large population of novel transcripts identified in an Illumina-454 Hydra transcriptome. BMC Genomics. 2013 Mar 25;14:204. Pubmed

2012

  • Andrés-Barrao C, Saad MM, Chappuis ML, Boffa M, Perret X, Ortega Pérez R, Barja F. Proteome analysis of Acetobacter pasteurianus during acetic acid fermentation. J Proteomics. 2012 Mar 16;75(6):1701-17. Pubmed
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