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Temperature regulates splicing efficiency of the cold-inducible RNA-binding protein gene Cirbp.

Gotic I, Omidi S, Fleury-Olela F, Molina N, Naef F, Schibler U.

Genes Dev. 2016 Sep 1;30(17):2005-17. doi: 10.1101/gad.287094.116.


Revealing Assembly of a Pore-Forming Complex Using Single-Cell Kinetic Analysis and Modeling.

Bischofberger M, Iacovache I, Boss D, Naef F, van der Goot FG, Molina N.

Biophys J. 2016 Apr 12;110(7):1574-81. doi: 10.1016/j.bpj.2016.02.035.


Circadian and feeding rhythms differentially affect rhythmic mRNA transcription and translation in mouse liver.

Atger F, Gobet C, Marquis J, Martin E, Wang J, Weger B, Lefebvre G, Descombes P, Naef F, Gachon F.

Proc Natl Acad Sci U S A. 2015 Nov 24;112(47):E6579-88. doi: 10.1073/pnas.1515308112.


Structure of silent transcription intervals and noise characteristics of mammalian genes.

Zoller B, Nicolas D, Molina N, Naef F.

Mol Syst Biol. 2015 Jul 27;11(7):823. doi: 10.15252/msb.20156257.


The effect of chronic shoulder pain on maximal force of shoulder abduction.

Naef F, Grace S, Crowley-McHattan Z, Hardy D, McLeod A.

J Bodyw Mov Ther. 2015 Jul;19(3):410-6. doi: 10.1016/j.jbmt.2014.08.005.


CAST: An automated segmentation and tracking tool for the analysis of transcriptional kinetics from single-cell time-lapse recordings.

Blanchoud S, Nicolas D, Zoller B, Tidin O, Naef F.

Methods. 2015 Sep 1;85:3-11. doi: 10.1016/j.ymeth.2015.04.023.


Quantitative analysis and modeling probe polarity establishment in C. elegans embryos.

Blanchoud S, Busso C, Naef F, Gönczy P.

Biophys J. 2015 Feb 17;108(4):799-809. doi: 10.1016/j.bpj.2014.12.022.


Two distinct promoter architectures centered on dynamic nucleosomes control ribosomal protein gene transcription.

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.

Genes Dev. 2014 Aug 1;28(15):1695-709. doi: 10.1101/gad.244434.114. Erratum in: Genes Dev. 2014 Oct 1;28(19):2188.


Robust synchronization of coupled circadian and cell cycle oscillators in single mammalian cells.

Bieler J, Cannavo R, Gustafson K, Gobet C, Gatfield D, Naef F.

Mol Syst Biol. 2014 Jul 15;10:739. doi: 10.15252/msb.20145218.


Non-circadian expression masking clock-driven weak transcription rhythms in U2OS cells.

Hoffmann J, Symul L, Shostak A, Fischer T, Naef F, Brunner M.

PLoS One. 2014 Jul 9;9(7):e102238. doi: 10.1371/journal.pone.0102238.


Characteristic bimodal profiles of RNA polymerase II at thousands of active mammalian promoters.

Quinodoz M, Gobet C, Naef F, Gustafson KB.

Genome Biol. 2014 Jun 12;15(6):R85. doi: 10.1186/gb-2014-15-6-r85.


Circadian clock-dependent and -independent rhythmic proteomes implement distinct diurnal functions in mouse liver.

Mauvoisin D, Wang J, Jouffe C, Martin E, Atger F, Waridel P, Quadroni M, Gachon F, Naef F.

Proc Natl Acad Sci U S A. 2014 Jan 7;111(1):167-72. doi: 10.1073/pnas.1314066111.


Stimulus-induced modulation of transcriptional bursting in a single mammalian gene.

Molina N, Suter DM, Cannavo R, Zoller B, Gotic I, Naef F.

Proc Natl Acad Sci U S A. 2013 Dec 17;110(51):20563-8. doi: 10.1073/pnas.1312310110.


Analysis of precision in chemical oscillators: implications for circadian clocks.

d'Eysmond T, De Simone A, Naef F.

Phys Biol. 2013 Oct;10(5):056005. doi: 10.1088/1478-3975/10/5/056005.


A chemostat array enables the spatio-temporal analysis of the yeast proteome.

Dénervaud N, Becker J, Delgado-Gonzalo R, Damay P, Rajkumar AS, Unser M, Shore D, Naef F, Maerkl SJ.

Proc Natl Acad Sci U S A. 2013 Sep 24;110(39):15842-7. doi: 10.1073/pnas.1308265110.


Absolute quantification of transcription factors during cellular differentiation using multiplexed targeted proteomics.

Simicevic J, Schmid AW, Gilardoni PA, Zoller B, Raghav SK, Krier I, Gubelmann C, Lisacek F, Naef F, Moniatte M, Deplancke B.

Nat Methods. 2013 Jun;10(6):570-6. doi: 10.1038/nmeth.2441.


The circadian clock coordinates ribosome biogenesis.

Jouffe C, Cretenet G, Symul L, Martin E, Atger F, Naef F, Gachon F.

PLoS Biol. 2013;11(1):e1001455. doi: 10.1371/journal.pbio.1001455.


Genome-wide RNA polymerase II profiles and RNA accumulation reveal kinetics of transcription and associated epigenetic changes during diurnal cycles.

Le Martelot G, Canella D, Symul L, Migliavacca E, Gilardi F, Liechti R, Martin O, Harshman K, Delorenzi M, Desvergne B, Herr W, Deplancke B, Schibler U, Rougemont J, Guex N, Hernandez N, Naef F; CycliX Consortium..

PLoS Biol. 2012;10(11):e1001442. doi: 10.1371/journal.pbio.1001442.


Circadian Dbp transcription relies on highly dynamic BMAL1-CLOCK interaction with E boxes and requires the proteasome.

Stratmann M, Suter DM, Molina N, Naef F, Schibler U.

Mol Cell. 2012 Oct 26;48(2):277-87. doi: 10.1016/j.molcel.2012.08.012.


Cold-inducible RNA-binding protein modulates circadian gene expression posttranscriptionally.

Morf J, Rey G, Schneider K, Stratmann M, Fujita J, Naef F, Schibler U.

Science. 2012 Oct 19;338(6105):379-83. doi: 10.1126/science.1217726.

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