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This folder holds the following references to publications, sorted by year and author.

There are 39 references in this bibliography folder.

Lambert, M, Terrone, S, Giraud, G, Benoit-Pilven, C, Cluet, D, Combaret, V, Mortreux, F, Auboeuf, D, and Bourgeois, CF (2018).
The RNA helicase DDX17 controls the transcriptional activity of REST and the expression of proneural microRNAs in neuronal differentiation.
Nucleic Acids Res.

Richard, M, Chuffart, F, Duplus-Bottin, H, Pouyet, F, Spichty, M, Fulcrand, E, Entrevan, M, Barthelaix, A, Springer, M, Jost, D, and Yvert, G (2018).
Assigning function to natural allelic variation via dynamic modeling of gene network induction.
Mol Syst Biol, 14(1):e7803.

Herbette, M, Mercier, MG, Michal, F, Cluet, D, Burny, C, Yvert, G, Robert, VJ, and Palladino, F (2017).
The C. elegans SET-2/SET1 histone H3 Lys4 (H3K4) methyltransferase preserves genome stability in the germline.
DNA Repair (Amst), 57:139-150.

Rossi, M, Spichty, M, Attorri, L, Distante, C, Nervi, C, Salvati, S, and Vitelli, L (2017).
Eicosapentaenoic acid modulates the synergistic action of CREB1 and ID/E2A family members in the rat pup brain and mouse embryonic stem cells.
Biochim Biophys Acta, 1860(8):870-884.

Spencer, A, Yu, L, Guili, V, Reynaud, F, Ding, Y, Ma, J, Jullien, J, Koubi, D, Gauthier, E, Cluet, D, Falk, J, Castellani, V, Yuan, C, and Rudkin, BB (2017).
Nerve Growth Factor Signaling from Membrane Microdomains to the Nucleus: Differential Regulation by Caveolins.
Int J Mol Sci, 18(4).

Fast, DE, Zalibera, M, Lauer, A, Eibel, A, Schweigert, C, Kelterer, A, Spichty, M, Neshchadin, D, Voll, D, Ernst, H, Liang, Y, Dietliker, K, Unterreiner, A, Barner-Kowollik, C, Grutzmacher, H, and Gescheidt, G (2016).
Bis(mesitoyl)phosphinic acid: photo-triggered release of metaphosphorous acid in solution.
Chem Commun (Camb), 52(64):9917-20.

Cluet, D, Stebe, P, Riche, S, Spichty, M, and Delattre, M (2014).
Automated high-throughput quantification of mitotic spindle positioning from DIC movies of Caenorhabditis embryos.
PLoS One, 9(4):e93718.

Cluet, D, Stebe, P, Riche, S, Spichty, M, and Delattre, M (2014).
Automated high-throughput quantification of mitotic spindle positioning from DIC movies of Caenorhabditis embryos.
PLoS One, 9(4):e93718.

Zalibera, M, Stébé, P, Dietliker, K, Grützmacher, H, Spichty, M, and Gescheidt, G (2014).
The Redox Chemistry of Mono-and Bis (acyl) phosphane Oxides
European Journal of Organic Chemistry, 2014(2):331–337.

Dibenedetto, S, Cluet, D, Stebe, P, Baumle, V, Leault, J, Terreux, R, Bickle, M, Chassey, BDE, Mikaelian, I, Colas, P, Spichty, M, Zoli, M, and Rudkin, BB (2013).
Calcineurin A versus NS5A-TP2/HD domain containing 2: a case study of site-directed low-frequency random mutagenesis for dissecting target specificity of peptide aptamers.
Mol Cell Proteomics, 12(7):1939-52.

Dibenedetto, S, Cluet, D, Stebe, P, Baumle, V, Leault, J, Terreux, R, Bickle, M, Chassey, BDE, Mikaelian, I, Colas, P, Spichty, M, Zoli, M, and Rudkin, BB (2013).
Calcineurin A versus NS5A-TP2/HD domain containing 2: a case study of site-directed low-frequency random mutagenesis for dissecting target specificity of peptide aptamers.
Mol Cell Proteomics, 12(7):1939-52.

Mocquet, V, Neusiedler, J, Rende, F, Cluet, D, Robin, J, Terme, J, Duc Dodon, M, Wittmann, J, Morris, C, Le Hir, H, Ciminale, V, and Jalinot, P (2012).
The human T-lymphotropic virus type 1 tax protein inhibits nonsense-mediated mRNA decay by interacting with INT6/EIF3E and UPF1.
J Virol, 86(14):7530-43.

Morris, C, Tomimatsu, N, Richard, DJ, Cluet, D, Burma, S, Khanna, KK, and Jalinot, P (2012).
INT6/EIF3E interacts with ATM and is required for proper execution of the DNA damage response in human cells.
Cancer Res, 72(8):2006-16.

Rao, F and Spichty, M (2012).
Thermodynamics and kinetics of large-time-step molecular dynamics.
J Comput Chem, 33(5):475-83.

Meguellati, K, Ladame, S, and Spichty, M (2011).
A conceptually improved TD-DFT approach for predicting the maximum absorption wavelength of cyanine dyes
Dyes and Pigments, 90(2):114–118.

Meguellati, K, Spichty, M, and Ladame, S (2010).
Synthesis, spectroscopic and DNA alkylating properties of malondialdehyde (MDA) bis-imine fluorescent adducts.
Mol Biosyst, 6(9):1694-9.

Spichty, M, Cecchini, M, and Karplus, M (2010).
Conformational free-energy difference of a miniprotein from nonequilibrium simulations
The Journal of Physical Chemistry Letters, 1(13):1922–1926.

Cecchini, M, Krivov, SV, Spichty, M, and Karplus, M (2009).
Calculation of free-energy differences by confinement simulations. Application to peptide conformers.
J Phys Chem B, 113(29):9728-40.

Meguellati, K, Spichty, M, and Ladame, S (2009).
Reversible synthesis and characterization of dynamic imino analogues of trimethine and pentamethine cyanine dyes.
Org Lett, 11(5):1123-6.

Spichty, M, Taly, A, Hagn, F, Kessler, H, Barluenga, S, Winssinger, N, and Karplus, M (2009).
The HSP90 binding mode of a radicicol-like E-oxime determined by docking, binding free energy estimations, and NMR 15N chemical shifts.
Biophys Chem, 143(3):111-23.

Maragakis, P, Spichty, M, and Karplus, M (2008).
A differential fluctuation theorem.
J Phys Chem B, 112(19):6168-74.

Spichty, M, Kulicke, KJ, Neuburger, M, Schaffner, S, and Mueller, JF (2008).
Heterobimetallic Bisphosphonate Titanium Complexes: Carbene-Like Carbanions?
European journal of inorganic chemistry, 2008(32):5024–5028.

Chabadel, A, Banon-Rodriguez, I, Cluet, D, Rudkin, BB, Wehrle-Haller, B, Genot, E, Jurdic, P, Anton, IM, and Saltel, F (2007).
CD44 and beta3 integrin organize two functionally distinct actin-based domains in osteoclasts.
Mol Biol Cell, 18(12):4899-910.

Maragakis, P, Spichty, M, and Karplus, M (2006).
Optimal estimates of free energies from multistate nonequilibrium work data.
Phys Rev Lett, 96(10):100602.

Cluet, D, Bertsch, C, Beyer, C, Gloeckler, L, Erhardt, M, Gut, J, Galzi, J, and Aubertin, A (2005).
Detection of human immunodeficiency virus type 1 Nef and CD4 physical interaction in living human cells by using bioluminescence resonance energy transfer.
J Virol, 79(13):8629-36.

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