Centre intégratif de génomique

Equipe principale | CIG Services communs | Groupe Benton | Groupe Fajas | Groupe Fankhauser | Groupe Franken | Groupe Gambetta | Groupe Gatfield | Groupe Larsch | Groupe Michalik | Groupe Reymond | Groupe Roignant | Groupe van Leeuwen | Groupe Vastenhouw | Groupe Vjestica | Plateforme de biostatistique | Plateforme Genomics Technologies Facility (GTF) | Plateforme Protein Analysis Facility (PAF)
Publications | Mémoires et thèses

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40 publications

2019 | 2018 | 2017 | 2016 | 2015 | 2014 | 2013 | 2012 | 2011 | 2010 | 2008 | 2007 | 2006 | 2005 |
How to Recruit the Correct RNA Polymerase? Lessons from snRNA Genes.
Dergai O., Hernandez N., 2019/06. Trends in genetics, 35 (6) pp. 457-469. Peer-reviewed.
Metabolic programming a lean phenotype by deregulation of RNA polymerase III.
Willis I.M., Moir R.D., Hernandez N., 2018/11/27. Proceedings of the National Academy of Sciences of the United States of America, 115 (48) pp. 12182-12187. Peer-reviewed.
Cycles of gene expression and genome response during mammalian tissue regeneration.
Rib L., Villeneuve D., Minocha S., Praz V., Hernandez N., Guex N., Herr W., CycliX Consortium, 2018/09/12. Epigenetics & chromatin, 11 (1) p. 52. Peer-reviewed.
Mechanism of selective recruitment of RNA polymerases II and III to snRNA gene promoters.
Dergai O., Cousin P., Gouge J., Satia K., Praz V., Kuhlman T., Lhôte P., Vannini A., Hernandez N., 2018/05/01. Genes & development, 32 (9-10) pp. 711-722. Peer-reviewed.
Molecular mechanisms of Bdp1 in TFIIIB assembly and RNA polymerase III transcription initiation.
Gouge J., Guthertz N., Kramm K., Dergai O., Abascal-Palacios G., Satia K., Cousin P., Hernandez N., Grohmann D., Vannini A., 2017/07/25. Nature communications, 8 (1) p. 130. Peer-reviewed.
Diurnal regulation of RNA polymerase III transcription is under the control of both the feeding-fasting response and the circadian clock.
Mange F., Praz V., Migliavacca E., Willis I.M., Schütz F., Hernandez N., CycliX Consortium, 2017/06. Genome research, 27 (6) pp. 973-984. Peer-reviewed.
A transcribed enhancer dictates mesendoderm specification in pluripotency.
Alexanian M., Maric D., Jenkinson S.P., Mina M., Friedman C.E., Ting C.C., Micheletti R., Plaisance I., Nemir M., Maison D. et al., 2017. Nature Communications, 8 (1) p. 1806. Peer-reviewed.
Transcriptional interference by RNA polymerase III affects expression of the Polr3e gene.
Yeganeh M., Praz V., Cousin P., Hernandez N., 2017. Genes and Development, 31 (4) pp. 413-421. Peer-reviewed.
tRNA biology in the omics era: Stress signalling dynamics and cancer progression.
Orioli A., 2017. BioEssays, 39 (3) p. 1. Peer-reviewed.
Human MAF1 targets and represses active RNA polymerase III genes by preventing recruitment rather than inducing long-term transcriptional arrest.
Orioli A., Praz V., Lhôte P., Hernandez N., 2016/03. Genome research, 26 (5) pp. 624-635. Peer-reviewed.
Loss of the RNA polymerase III repressor MAF1 confers obesity resistance.
Bonhoure N., Byrnes A., Moir R.D., Hodroj W., Preitner F., Praz V., Marcelin G., Chua S.C., Martinez-Lopez N., Singh R. et al., 2015. Genes and Development, 29 (9) pp. 934-947.
Population Variation and Genetic Control of Modular Chromatin Architecture in Humans.
Waszak S.M., Delaneau O., Gschwind A.R., Kilpinen H., Raghav S.K., Witwicki R.M., Orioli A., Wiederkehr M., Panousis N.I., Yurovsky A. et al., 2015. Cell, 162 (5) pp. 1039-1050. Peer-reviewed.
Redox Signaling by the RNA Polymerase III TFIIB-Related Factor Brf2.
Gouge J., Satia K., Guthertz N., Widya M., Thompson A.J., Cousin P., Dergai O., Hernandez N., Vannini A., 2015. Cell, 163 (6) pp. 1375-1387.
Gene duplication and neofunctionalization: POLR3G and POLR3GL.
Renaud M., Praz V., Vieu E., Florens L., Washburn M.P., L'hôte P., Hernandez N., 2014. Genome Research, 24 (1) pp. 37-51.
Genome-wide analysis of SREBP1 activity around the clock reveals its combined dependency on nutrient and circadian signals.
Gilardi F., Migliavacca E., Naldi A., Baruchet M., Canella D., Le Martelot G., Guex N., Desvergne B., CycliX Consortium, 2014. PLoS Genetics, 10 (3) pp. e1004155. Peer-reviewed.
Quantifying ChIP-seq data: a spiking method providing an internal reference for sample-to-sample normalization.
Bonhoure N., Bounova G., Bernasconi D., Praz V., Lammers F., Canella D., Willis I.M., Herr W., Hernandez N., Delorenzi M. et al., 2014. Genome Research, 24 (7) pp. 1157-1168. Peer-reviewed.
Coordinated effects of sequence variation on DNA binding, chromatin structure, and transcription.
Kilpinen H., Waszak S.M., Gschwind A.R., Raghav S.K., Witwicki R.M., Orioli A., Migliavacca E., Wiederkehr M., Gutierrez-Arcelus M., Panousis N.I. et al., 2013. Science, 342 (6159) pp. 744-747.
HCFC1 is a common component of active human CpG-island promoters and coincides with ZNF143, THAP11, YY1, and GABP transcription factor occupancy.
Michaud J., Praz V., James Faresse N., Jnbaptiste C.K., Tyagi S., Schütz F., Herr W., 2013. Genome Research, 23 (6) pp. 907-916.
A multiplicity of factors contributes to selective RNA polymerase III occupancy of a subset of RNA polymerase III genes in mouse liver.
Canella D., Bernasconi D., Gilardi F., LeMartelot G., Migliavacca E., Praz V., Cousin P., Delorenzi M., Hernandez N., CycliX Consortium, 2012. Genome Research, 22 (4) pp. 666-680. Peer-reviewed.
Alu expression in human cell lines and their retrotranspositional potential.
Oler A.J., Traina-Dorge S., Derbes R.S., Canella D., Cairns B.R., Roy-Engel A.M., 2012. Mobile DNA, 3 (1) p. 11.
Eeny meeny miny moe, catch a transcript by the toe, or how to enumerate eukaryotic transcripts.
Strick T.R., Hernandez N., 2012. Genes and Development, 26 (15) pp. 1643-1647.
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. et al., 2012. PLoS Biology, 10 (11) pp. e1001442. Peer-reviewed.
Genomic Study of RNA Polymerase II and III SNAP(c)-Bound Promoters Reveals a Gene Transcribed by Both Enzymes and a Broad Use of Common Activators.
James Faresse N., Canella D., Praz V., Michaud J., Romascano D., Hernandez N., 2012. PLoS Genetics, 8 (11) pp. e1003028.
Nanopore detection of single molecule RNAP-DNA transcription complex.
Raillon C., Cousin P., Traversi F., Garcia-Cordero E., Hernandez N., Radenovic A., 2012. Nano Letters, 12 (3) pp. 1157-1164.
MAF1: a new target of mTORC1.
Michels A.A., 2011. Biochemical Society Transactions, 39 (2) pp. 487-491. Peer-reviewed.
Widespread occurrence of non-canonical transcription termination by human RNA polymerase III.
Orioli A., Pascali C., Quartararo J., Diebel K.W., Praz V., Romascano D., Percudani R., van Dyk L.F., Hernandez N., Teichmann M. et al., 2011. Nucleic Acids Research, 39 (13) pp. 5499-5512.
mTORC1 directly phosphorylates and regulates human MAF1.
Michels A.A., Robitaille A.M., Buczynski-Ruchonnet D., Hodroj W., Reina J.H., Hall M.N., Hernandez N., 2010/08. Molecular and cellular biology, 30 (15) pp. 3749-3757. Peer-reviewed.
Defining the RNA polymerase III transcriptome: Genome-wide localization of the RNA polymerase III transcription machinery in human cells.
Canella D., Praz V., Reina J.H., Cousin P., Hernandez N., 2010. Genome Research, 20 (6) pp. 710-721. Peer-reviewed.
Mitotic functions for SNAP45, a subunit of the small nuclear RNA-activating protein complex SNAPc.
Shanmugam M., Hernandez N., 2008. Journal of Biological Chemistry, 283 (21) pp. 14845-14846. Peer-reviewed.
Phosphorylation by casein kinase 2 facilitates rRNA gene transcription by promoting dissociation of TIF-IA from elongating RNA polymerase I.
Bierhoff H., Dundr M., Michels A.A., Grummt I., 2008. Molecular and Cellular Biology, 28 (16) pp. 4988-4998. Peer-reviewed.
RNA-driven cyclin-dependent kinase regulation: when CDK9/cyclin T subunits of P-TEFb meet their ribonucleoprotein partners.
Michels A.A., Bensaude O., 2008. Biotechnology Journal, 3 (8) pp. 1022-1032. Peer-reviewed.
Identification of novel functional TBP-binding sites and general factor repertoires.
Denissov S., van Driel M., Voit R., Hekkelman M., Hulsen T., Hernandez N., Grummt I., Wehrens R., Stunnenberg H., 2007/02. EMBO Journal, 26 (4) pp. 944-954. Peer-reviewed.
CHD8 associates with human Staf and contributes to efficient U6 RNA polymerase III transcription.
Yuan C.C., Zhao X., Florens L., Swanson S.K., Washburn M.P., Hernandez N., 2007. Molecular and Cellular Biology, 27 (24) pp. 8729-8738. Peer-reviewed.
On a roll for new TRF targets.
Reina J.H., Hernandez N., 2007. Genes and Development, 21 (22) pp. 2855-2860. Peer-reviewed.
A role for Yin Yang-1 (YY1) in the assembly of snRNA transcription complexes.
Emran F., Florens L., Ma B., Swanson S.K., Washburn M.P., Hernandez N., 2006. Gene, 377 pp. 96-108. Peer-reviewed.
Actin's latest act: polymerizing to facilitate transcription?
Vieu E., Hernandez N., 2006. Nature Cell Biology, 8 (7) pp. 650-651. Peer-reviewed.
Does Pol I talk to Pol II? Coordination of RNA polymerases in ribosome biogenesis.
Michels A.A., Hernandez N., 2006. Genes and Development, 20 (15) pp. 1982-1985.
Maf1, a new player in the regulation of human RNA polymerase III transcription.
Reina J.H., Azzouz T.N., Hernandez N., 2006. PLoS ONE, 1 pp. e134. Peer-reviewed.
Artificial zinc finger fusions targeting Sp1-binding sites and the trans-activator-responsive element potently repress transcription and replication of HIV-1.
Kim Y.S., Kim J.M., Jung D.L., Kang J.E., Lee S., Kim J.S., Seol W., Shin H.C., Kwon H.S., Van Lint C. et al., 2005. Journal of Biological Chemistry, 280 (22) pp. 21545-21552. Peer-reviewed.
Structure-function analysis of the human TFIIB-related factor II protein reveals an essential role for the C-terminal domain in RNA polymerase III transcription.
Saxena A., Ma B., Schramm L., Hernandez N., 2005. Molecular and Cellular Biology, 25 (21) pp. 9406-9418. Peer-reviewed.
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