Naldi A - Search Results

1

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. Gilardi F, et al. Among authors: naldi a. PLoS Genet. 2014 Mar 6;10(3):e1004155. doi: 10.1371/journal.pgen.1004155. eCollection 2014 Mar. PLoS Genet. 2014. PMID: 24603613 Free PMC article.

2

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. Le Martelot G, et al. PLoS Biol. 2012;10(11):e1001442. doi: 10.1371/journal.pbio.1001442. Epub 2012 Nov 27. PLoS Biol. 2012. PMID: 23209382 Free PMC article.

3

System analysis of cross-talk between nuclear receptors reveals an opposite regulation of the cell cycle by LXR and FXR in human HepaRG liver cells.

Wigger L, Casals-Casas C, Baruchet M, Trang KB, Pradervand S, Naldi A, Desvergne B. Wigger L, et al. Among authors: naldi a. PLoS One. 2019 Aug 22;14(8):e0220894. doi: 10.1371/journal.pone.0220894. eCollection 2019. PLoS One. 2019. PMID: 31437187 Free PMC article.

4

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. Canella D, et al. Genome Res. 2012 Apr;22(4):666-80. doi: 10.1101/gr.130286.111. Epub 2012 Jan 27. Genome Res. 2012. PMID: 22287103 Free PMC article.

5

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 IM, Herr W, Hernandez N, Delorenzi M; CycliX Consortium. Bonhoure N, et al. Genome Res. 2014 Jul;24(7):1157-68. doi: 10.1101/gr.168260.113. Epub 2014 Apr 7. Genome Res. 2014. PMID: 24709819 Free PMC article.

6

Sex Dimorphism of Nonalcoholic Fatty Liver Disease (NAFLD) in Pparg-Null Mice.

Schiffrin M, Winkler C, Quignodon L, Naldi A, Trötzmüller M, Köfeler H, Henry H, Parini P, Desvergne B, Gilardi F. Schiffrin M, et al. Among authors: naldi a. Int J Mol Sci. 2021 Sep 15;22(18):9969. doi: 10.3390/ijms22189969. Int J Mol Sci. 2021. PMID: 34576136 Free PMC article.

7

Cooperative development of logical modelling standards and tools with CoLoMoTo.

Naldi A, Monteiro PT, Müssel C; Consortium for Logical Models and Tools; Kestler HA, Thieffry D, Xenarios I, Saez-Rodriguez J, Helikar T, Chaouiya C. Naldi A, et al. Bioinformatics. 2015 Apr 1;31(7):1154-9. doi: 10.1093/bioinformatics/btv013. Epub 2015 Jan 25. Bioinformatics. 2015. PMID: 25619997

8

Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle.

Fauré A, Naldi A, Chaouiya C, Thieffry D. Fauré A, et al. Among authors: naldi a. Bioinformatics. 2006 Jul 15;22(14):e124-31. doi: 10.1093/bioinformatics/btl210. Bioinformatics. 2006. PMID: 16873462

9

Logical modelling of gene regulatory networks with GINsim.

Chaouiya C, Naldi A, Thieffry D. Chaouiya C, et al. Among authors: naldi a. Methods Mol Biol. 2012;804:463-79. doi: 10.1007/978-1-61779-361-5_23. Methods Mol Biol. 2012. PMID: 22144167

10

Automated inference of Boolean models from molecular interaction maps using CaSQ.

Aghamiri SS, Singh V, Naldi A, Helikar T, Soliman S, Niarakis A. Aghamiri SS, et al. Among authors: naldi a. Bioinformatics. 2020 Aug 15;36(16):4473-4482. doi: 10.1093/bioinformatics/btaa484. Bioinformatics. 2020. PMID: 32403123 Free PMC article.

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