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Items: 24

1.

Interoperable and scalable data analysis with microservices: Applications in Metabolomics.

Emami Khoonsari P, Moreno P, Bergmann S, Burman J, Capuccini M, Carone M, Cascante M, de Atauri P, Foguet C, Gonzalez-Beltran A, Hankemeier T, Haug K, He S, Herman S, Johnson D, Kale N, Larsson A, Neumann S, Peters K, Pireddu L, Rocca-Serra P, Roger P, Rueedi R, Ruttkies C, Sadawi N, Salek RM, Sansone SA, Schober D, Selivanov V, Thévenot EA, van Vliet M, Zanetti G, Steinbeck C, Kultima K, Spjuth O.

Bioinformatics. 2019 Mar 9. pii: btz160. doi: 10.1093/bioinformatics/btz160. [Epub ahead of print]

PMID:
30851093
2.

PhenoMeNal: processing and analysis of metabolomics data in the cloud.

Peters K, Bradbury J, Bergmann S, Capuccini M, Cascante M, de Atauri P, Ebbels TMD, Foguet C, Glen R, Gonzalez-Beltran A, Günther UL, Handakas E, Hankemeier T, Haug K, Herman S, Holub P, Izzo M, Jacob D, Johnson D, Jourdan F, Kale N, Karaman I, Khalili B, Emami Khonsari P, Kultima K, Lampa S, Larsson A, Ludwig C, Moreno P, Neumann S, Novella JA, O'Donovan C, Pearce JTM, Peluso A, Piras ME, Pireddu L, Reed MAC, Rocca-Serra P, Roger P, Rosato A, Rueedi R, Ruttkies C, Sadawi N, Salek RM, Sansone SA, Selivanov V, Spjuth O, Schober D, Thévenot EA, Tomasoni M, van Rijswijk M, van Vliet M, Viant MR, Weber RJM, Zanetti G, Steinbeck C.

Gigascience. 2019 Feb 1;8(2). pii: giy149. doi: 10.1093/gigascience/giy149.

3.

Metabolomics fingerprint of coffee species determined by untargeted-profiling study using LC-HRMS.

Souard F, Delporte C, Stoffelen P, Thévenot EA, Noret N, Dauvergne B, Kauffmann JM, Van Antwerpen P, Stévigny C.

Food Chem. 2018 Apr 15;245:603-612. doi: 10.1016/j.foodchem.2017.10.022. Epub 2017 Oct 12.

PMID:
29287415
4.

The future of metabolomics in ELIXIR.

van Rijswijk M, Beirnaert C, Caron C, Cascante M, Dominguez V, Dunn WB, Ebbels TMD, Giacomoni F, Gonzalez-Beltran A, Hankemeier T, Haug K, Izquierdo-Garcia JL, Jimenez RC, Jourdan F, Kale N, Klapa MI, Kohlbacher O, Koort K, Kultima K, Le Corguillé G, Moreno P, Moschonas NK, Neumann S, O'Donovan C, Reczko M, Rocca-Serra P, Rosato A, Salek RM, Sansone SA, Satagopam V, Schober D, Shimmo R, Spicer RA, Spjuth O, Thévenot EA, Viant MR, Weber RJM, Willighagen EL, Zanetti G, Steinbeck C.

Version 2. F1000Res. 2017 Sep 6 [revised 2017 Jan 1];6. pii: ELIXIR-1649. doi: 10.12688/f1000research.12342.2. eCollection 2017.

5.

proFIA: a data preprocessing workflow for flow injection analysis coupled to high-resolution mass spectrometry.

Delabrière A, Hohenester UM, Colsch B, Junot C, Fenaille F, Thévenot EA.

Bioinformatics. 2017 Dec 1;33(23):3767-3775. doi: 10.1093/bioinformatics/btx458.

PMID:
29036359
6.

Create, run, share, publish, and reference your LC-MS, FIA-MS, GC-MS, and NMR data analysis workflows with the Workflow4Metabolomics 3.0 Galaxy online infrastructure for metabolomics.

Guitton Y, Tremblay-Franco M, Le Corguillé G, Martin JF, Pétéra M, Roger-Mele P, Delabrière A, Goulitquer S, Monsoor M, Duperier C, Canlet C, Servien R, Tardivel P, Caron C, Giacomoni F, Thévenot EA.

Int J Biochem Cell Biol. 2017 Dec;93:89-101. doi: 10.1016/j.biocel.2017.07.002. Epub 2017 Jul 12.

PMID:
28710041
7.

biosigner: A New Method for the Discovery of Significant Molecular Signatures from Omics Data.

Rinaudo P, Boudah S, Junot C, Thévenot EA.

Front Mol Biosci. 2016 Jun 21;3:26. doi: 10.3389/fmolb.2016.00026. eCollection 2016.

9.

Analysis of the Human Adult Urinary Metabolome Variations with Age, Body Mass Index, and Gender by Implementing a Comprehensive Workflow for Univariate and OPLS Statistical Analyses.

Thévenot EA, Roux A, Xu Y, Ezan E, Junot C.

J Proteome Res. 2015 Aug 7;14(8):3322-35. doi: 10.1021/acs.jproteome.5b00354. Epub 2015 Jul 2.

PMID:
26088811
10.

Gene delivery to the spinal cord using MRI-guided focused ultrasound.

Weber-Adrian D, Thévenot E, O'Reilly MA, Oakden W, Akens MK, Ellens N, Markham-Coultes K, Burgess A, Finkelstein J, Yee AJ, Whyne CM, Foust KD, Kaspar BK, Stanisz GJ, Chopra R, Hynynen K, Aubert I.

Gene Ther. 2015 Jul;22(7):568-77. doi: 10.1038/gt.2015.25. Epub 2015 Apr 23.

11.

Workflow4Metabolomics: a collaborative research infrastructure for computational metabolomics.

Giacomoni F, Le Corguillé G, Monsoor M, Landi M, Pericard P, Pétéra M, Duperier C, Tremblay-Franco M, Martin JF, Jacob D, Goulitquer S, Thévenot EA, Caron C.

Bioinformatics. 2015 May 1;31(9):1493-5. doi: 10.1093/bioinformatics/btu813. Epub 2014 Dec 19.

12.

Safety and pharmacokinetics of the CIME combination of drugs and their metabolites after a single oral dosing in healthy volunteers.

Lenuzza N, Duval X, Nicolas G, Thévenot E, Job S, Videau O, Narjoz C, Loriot MA, Beaune P, Becquemont L, Mentré F, Funck-Brentano C, Alavoine L, Arnaud P, Delaforge M, Bénech H.

Eur J Drug Metab Pharmacokinet. 2016 Apr;41(2):125-38. doi: 10.1007/s13318-014-0239-0. Epub 2014 Dec 3.

PMID:
25465228
13.

Amyloid-β plaque reduction, endogenous antibody delivery and glial activation by brain-targeted, transcranial focused ultrasound.

Jordão JF, Thévenot E, Markham-Coultes K, Scarcelli T, Weng YQ, Xhima K, O'Reilly M, Huang Y, McLaurin J, Hynynen K, Aubert I.

Exp Neurol. 2013 Oct;248:16-29. doi: 10.1016/j.expneurol.2013.05.008. Epub 2013 May 21.

14.

Targeted delivery of self-complementary adeno-associated virus serotype 9 to the brain, using magnetic resonance imaging-guided focused ultrasound.

Thévenot E, Jordão JF, O'Reilly MA, Markham K, Weng YQ, Foust KD, Kaspar BK, Hynynen K, Aubert I.

Hum Gene Ther. 2012 Nov;23(11):1144-55. doi: 10.1089/hum.2012.013. Epub 2012 Oct 15.

15.

Can a cocktail designed for phenotyping pharmacokinetics and metabolism enzymes in human be used efficiently in rat?

Videau O, Pitarque S, Troncale S, Hery P, Thévenot E, Delaforge M, Bénech H.

Xenobiotica. 2012 Apr;42(4):349-54. doi: 10.3109/00498254.2011.625453. Epub 2012 Feb 9.

PMID:
22321050
16.

p21-Activated kinase 3 (PAK3) protein regulates synaptic transmission through its interaction with the Nck2/Grb4 protein adaptor.

Thévenot E, Moreau AW, Rousseau V, Combeau G, Domenichini F, Jacquet C, Goupille O, Amar M, Kreis P, Fossier P, Barnier JV.

J Biol Chem. 2011 Nov 18;286(46):40044-59. doi: 10.1074/jbc.M111.262246. Epub 2011 Sep 23.

17.

In vitro primary human and animal cell-based blood-brain barrier models as a screening tool in drug discovery.

Lacombe O, Videau O, Chevillon D, Guyot AC, Contreras C, Blondel S, Nicolas L, Ghettas A, Bénech H, Thevenot E, Pruvost A, Bolze S, Krzaczkowski L, Prévost C, Mabondzo A.

Mol Pharm. 2011 Jun 6;8(3):651-63. doi: 10.1021/mp1004614. Epub 2011 Apr 15.

PMID:
21438632
18.

Biochemical and analytical development of the CIME cocktail for drug fate assessment in humans.

Videau O, Delaforge M, Levi M, Thévenot E, Gal O, Becquemont L, Beaune P, Bénech H.

Rapid Commun Mass Spectrom. 2010 Aug 30;24(16):2407-19. doi: 10.1002/rcm.4641.

PMID:
20658680
19.

The four mammalian splice variants encoded by the p21-activated kinase 3 gene have different biological properties.

Kreis P, Rousseau V, Thévenot E, Combeau G, Barnier JV.

J Neurochem. 2008 Aug;106(3):1184-97. doi: 10.1111/j.1471-4159.2008.05474.x. Epub 2008 May 27.

20.

The p21-activated kinase 3 implicated in mental retardation regulates spine morphogenesis through a Cdc42-dependent pathway.

Kreis P, Thévenot E, Rousseau V, Boda B, Muller D, Barnier JV.

J Biol Chem. 2007 Jul 20;282(29):21497-506. Epub 2007 May 30.

21.

Disruption of the nonneuronal tph1 gene demonstrates the importance of peripheral serotonin in cardiac function.

Côté F, Thévenot E, Fligny C, Fromes Y, Darmon M, Ripoche MA, Bayard E, Hanoun N, Saurini F, Lechat P, Dandolo L, Hamon M, Mallet J, Vodjdani G.

Proc Natl Acad Sci U S A. 2003 Nov 11;100(23):13525-30. Epub 2003 Nov 3.

22.

Targeting conditional gene modification into the serotonin neurons of the dorsal raphe nucleus by viral delivery of the Cre recombinase.

Thévenot E, Côté F, Colin P, He Y, Leblois H, Perricaudet M, Mallet J, Vodjdani G.

Mol Cell Neurosci. 2003 Sep;24(1):139-47.

PMID:
14550775
23.

Involvement of NF-Y and Sp1 in basal and cAMP-stimulated transcriptional activation of the tryptophan hydroxylase (TPH ) gene in the pineal gland.

Côté F, Schussler N, Boularand S, Peirotes A, Thévenot E, Mallet J, Vodjdani G.

J Neurochem. 2002 May;81(4):673-85.

24.

Is RE1/NRSE a common cis-regulatory sequence for ChAT and VAChT genes?

De Gois S, Houhou L, Oda Y, Corbex M, Pajak F, Thévenot E, Vodjdani G, Mallet J, Berrard S.

J Biol Chem. 2000 Nov 24;275(47):36683-90.

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