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Items: 1 to 20 of 45

1.

The Rosa genome provides new insights into the domestication of modern roses.

Raymond O, Gouzy J, Just J, Badouin H, Verdenaud M, Lemainque A, Vergne P, Moja S, Choisne N, Pont C, Carrère S, Caissard JC, Couloux A, Cottret L, Aury JM, Szécsi J, Latrasse D, Madoui MA, François L, Fu X, Yang SH, Dubois A, Piola F, Larrieu A, Perez M, Labadie K, Perrier L, Govetto B, Labrousse Y, Villand P, Bardoux C, Boltz V, Lopez-Roques C, Heitzler P, Vernoux T, Vandenbussche M, Quesneville H, Boualem A, Bendahmane A, Liu C, Le Bris M, Salse J, Baudino S, Benhamed M, Wincker P, Bendahmane M.

Nat Genet. 2018 Jun;50(6):772-777. doi: 10.1038/s41588-018-0110-3. Epub 2018 Apr 30.

PMID:
29713014
2.

From correlation to causation: analysis of metabolomics data using systems biology approaches.

Rosato A, Tenori L, Cascante M, De Atauri Carulla PR, Martins Dos Santos VAP, Saccenti E.

Metabolomics. 2018;14(4):37. doi: 10.1007/s11306-018-1335-y. Epub 2018 Feb 27. Review.

3.

Data processing, multi-omic pathway mapping, and metabolite activity analysis using XCMS Online.

Forsberg EM, Huan T, Rinehart D, Benton HP, Warth B, Hilmers B, Siuzdak G.

Nat Protoc. 2018 Apr;13(4):633-651. doi: 10.1038/nprot.2017.151. Epub 2018 Mar 1.

4.

Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data.

Marco-Ramell A, Palau-Rodriguez M, Alay A, Tulipani S, Urpi-Sarda M, Sanchez-Pla A, Andres-Lacueva C.

BMC Bioinformatics. 2018 Jan 2;19(1):1. doi: 10.1186/s12859-017-2006-0.

5.

New Strategies and Challenges in Lung Proteomics and Metabolomics. An Official American Thoracic Society Workshop Report.

Bowler RP, Wendt CH, Fessler MB, Foster MW, Kelly RS, Lasky-Su J, Rogers AJ, Stringer KA, Winston BW; American Thoracic Society Workgroup on Metabolomics and Proteomics.

Ann Am Thorac Soc. 2017 Dec;14(12):1721-1743. doi: 10.1513/AnnalsATS.201710-770WS.

PMID:
29192815
6.

MetaNetter 2: A Cytoscape plugin for ab initio network analysis and metabolite feature classification.

Burgess KEV, Borutzki Y, Rankin N, Daly R, Jourdan F.

J Chromatogr B Analyt Technol Biomed Life Sci. 2017 Dec 15;1071:68-74. doi: 10.1016/j.jchromb.2017.08.015. Epub 2017 Sep 23.

7.

MetExploreViz: web component for interactive metabolic network visualization.

Chazalviel M, Frainay C, Poupin N, Vinson F, Merlet B, Gloaguen Y, Cottret L, Jourdan F.

Bioinformatics. 2017 Sep 15. doi: 10.1093/bioinformatics/btx588. [Epub ahead of print]

8.

PiMP my metabolome: an integrated, web-based tool for LC-MS metabolomics data.

Gloaguen Y, Morton F, Daly R, Gurden R, Rogers S, Wandy J, Wilson D, Barrett M, Burgess K.

Bioinformatics. 2017 Dec 15;33(24):4007-4009. doi: 10.1093/bioinformatics/btx499.

9.

MUFINS: multi-formalism interaction network simulator.

Wu H, von Kamp A, Leoncikas V, Mori W, Sahin N, Gevorgyan A, Linley C, Grabowski M, Mannan AA, Stoy N, Stewart GR, Ward LT, Lewis DJM, Sroka J, Matsuno H, Klamt S, Westerhoff HV, McFadden J, Plant NJ, Kierzek AM.

NPJ Syst Biol Appl. 2016 Nov 17;2:16032. doi: 10.1038/npjsba.2016.32. eCollection 2016.

10.

A methodology for elucidating regulatory mechanisms leading to changes in lipid profiles.

Casbas Pinto F, Ravipati S, Barrett DA, Hodgman TC.

Metabolomics. 2017;13(7):81. doi: 10.1007/s11306-017-1214-y. Epub 2017 May 29.

11.

MetaboSignal: a network-based approach for topological analysis of metabotype regulation via metabolic and signaling pathways.

Rodriguez-Martinez A, Ayala R, Posma JM, Neves AL, Gauguier D, Nicholson JK, Dumas ME.

Bioinformatics. 2017 Mar 1;33(5):773-775. doi: 10.1093/bioinformatics/btw697.

12.

Metabolomics with Nuclear Magnetic Resonance Spectroscopy in a Drosophila melanogaster Model of Surviving Sepsis.

Bakalov V, Amathieu R, Triba MN, Clément MJ, Reyes Uribe L, Le Moyec L, Kaynar AM.

Metabolites. 2016 Dec 21;6(4). pii: E47. doi: 10.3390/metabo6040047.

13.

A Resource Allocation Trade-Off between Virulence and Proliferation Drives Metabolic Versatility in the Plant Pathogen Ralstonia solanacearum.

Peyraud R, Cottret L, Marmiesse L, Gouzy J, Genin S.

PLoS Pathog. 2016 Oct 12;12(10):e1005939. doi: 10.1371/journal.ppat.1005939. eCollection 2016 Oct.

14.

MetaboTools: A Comprehensive Toolbox for Analysis of Genome-Scale Metabolic Models.

Aurich MK, Fleming RM, Thiele I.

Front Physiol. 2016 Aug 3;7:327. doi: 10.3389/fphys.2016.00327. eCollection 2016.

15.

A Combinatorial Algorithm for Microbial Consortia Synthetic Design.

Julien-Laferrière A, Bulteau L, Parrot D, Marchetti-Spaccamela A, Stougie L, Vinga S, Mary A, Sagot MF.

Sci Rep. 2016 Jul 4;6:29182. doi: 10.1038/srep29182.

16.

ArthropodaCyc: a CycADS powered collection of BioCyc databases to analyse and compare metabolism of arthropods.

Baa-Puyoulet P, Parisot N, Febvay G, Huerta-Cepas J, Vellozo AF, Gabaldón T, Calevro F, Charles H, Colella S.

Database (Oxford). 2016 May 30;2016. pii: baw081. doi: 10.1093/database/baw081. Print 2016.

17.

A Laser Dissection-RNAseq Analysis Highlights the Activation of Cytokinin Pathways by Nod Factors in the Medicago truncatula Root Epidermis.

Jardinaud MF, Boivin S, Rodde N, Catrice O, Kisiala A, Lepage A, Moreau S, Roux B, Cottret L, Sallet E, Brault M, Emery RJ, Gouzy J, Frugier F, Gamas P.

Plant Physiol. 2016 Jul;171(3):2256-76. doi: 10.1104/pp.16.00711. Epub 2016 May 23.

18.

Bisphenol A Exposure Disrupts Neurotransmitters Through Modulation of Transaminase Activity in the Brain of Rodents.

Zalko D, Soto AM, Canlet C, Tremblay-Franco M, Jourdan F, Cabaton NJ.

Endocrinology. 2016 May;157(5):1736-9. doi: 10.1210/en.2016-1207. No abstract available.

19.

Metabolomics: beyond biomarkers and towards mechanisms.

Johnson CH, Ivanisevic J, Siuzdak G.

Nat Rev Mol Cell Biol. 2016 Jul;17(7):451-9. doi: 10.1038/nrm.2016.25. Epub 2016 Mar 16.

20.

A Computational Solution to Automatically Map Metabolite Libraries in the Context of Genome Scale Metabolic Networks.

Merlet B, Paulhe N, Vinson F, Frainay C, Chazalviel M, Poupin N, Gloaguen Y, Giacomoni F, Jourdan F.

Front Mol Biosci. 2016 Feb 16;3:2. doi: 10.3389/fmolb.2016.00002. eCollection 2016.

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