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2015

Gatto L, Hansen KD, Hoopmann MR, Hermjakob H, Kohlbacher O and Beyer, A Testing and validation of computational methods for mass spectrometry. J Proteome Res. 2015. doi: 10.1002/stem.2067.

Gatto L, Breckels LM, Naake T and Gibb S Visualisation of proteomics data using R and Bioconductor. Proteomics. 2015 Feb 18. doi:10.1002/pmic.201400392.

Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, et al. Orchestrating high-throughput genomic analysis with Bioconductor. Nat Methods. 2015 Jan 29;12(2):115-21 doi:10.1038/nmeth.3252.

Chen C, Buhl, E, Xu, M, Croset, V, Rees, JS, Lilley KS, Benton, R, Hodge JL, Stanewsky, R.Drosophila Ionotropic Receptor 25a mediates circadian clock resetting by temperature Nature 2015, 2015 Nov 18. doi: 10.1038/nature16148

Lilley KS, Beynon RJ, Eyers CE, Hubbard SJ. Focus on Quantitative Proteomics. Proteomics. 2015 Sep;15(18):3101-3. doi: 10.1002/pmic.201570163.

Rees JS, Li XW, Perrett S, Lilley KS, Jackson AP. Protein Neighbors and Proximity Proteomics. Mol Cell Proteomics. 2015 Nov;14(11):2848-56. doi: 10.1074/mcp.R115.052902. Epub 2015 Sep 8. Review.

Lim K, Groen A, Molostvov G, Lu T, Lilley KS, Snead D, James S, Wilkinson IB, Ting S, Hsiao LL, Hiemstra TF, Zehnder D.α-Klotho Expression in Human Tissues. J Clin Endocrinol Metab. 2015 Oct;100(10):E1308-18. doi: 10.1210/jc.2015-1800. Epub 2015 Aug 17.

Rees JS, Lilley KS, Jackson AP. The chicken B-cell line DT40 proteome, beadome and interactomes. Data Brief. 2015 Jan 13;3:29-33. doi: 10.1016/j.dib.2014.12.006. eCollection 2015 Jun.

Mulvey CM, Schröter C, Gatto L, Dikicioglu D, Fidaner IB, Christoforou A, Deery MJ, Cho LT, Niakan KK, Martinez-Arias A, Lilley KS. Dynamic Proteomic Profiling of Extra-Embryonic Endoderm Differentiation in Mouse Embryonic Stem Cells. Stem Cells. 2015 Sep;33(9):2712-25. doi: 10.1002/stem.2067. Epub 2015 Jun 23.

Rees JS, Li XW, Perrett S, Lilley KS, Jackson AP. Selective Proteomic Proximity Labeling Assay Using Tyramide (SPPLAT): A Quantitative Method for the Proteomic Analysis of Localized Membrane-Bound Protein Clusters. Curr Protoc Protein Sci. 2015 Apr 1;80:19.27.1-19.27.18. doi: 10.1002/0471140864.ps1927s80.

Masci S, Laino P, Janni M, Botticella E, Di Carli M, Benvenuto E, Danieli PP, Lilley KS, Lafiandra D, D'Ovidio R. Analysis of Quality-Related Parameters in Mature Kernels of Polygalacturonase Inhibiting Protein (PGIP) Transgenic Bread Wheat Infected with Fusarium graminearumJ Agric Food Chem. 2015 Apr 22;63(15):3962-9. doi: 10.1021/jf506003t. Epub 2015 Apr 9.

Zhang H, Deery MJ, Gannon L, Powers SJ, Lilley KS, Theodoulou FL. Quantitative proteomics analysis of the Arg/N-end rule pathway of targeted degradation in Arabidopsis roots. Proteomics. 2015 Jul;15(14):2447-57. doi: 10.1002/pmic.201400530. Epub 2015 Apr 17.

Marondedze C, Wong A, Groen A, Serrano N, Jankovic B, Lilley K, Gehring C, Thomas L. Exploring the Arabidopsis proteome: influence of protein solubilization buffers on proteome coverage. Int J Mol Sci. 2014 Dec 31;16(1):857-70. doi: 10.3390/ijms16010857.

Rees JS, Lilley KS, Jackson AP. SILAC-iPAC: a quantitative method for distinguishing genuine from non-specific components of protein complexes by parallel affinity capture. J Proteomics. 2015 Feb 6;115:143-56. doi: 10.1016/j.jprot.2014.12.006. Epub 2014 Dec 20.

Passmore IJ, Nishikawa K, Lilley KS, Bowden SD, Chung JC, Welch M. Mep72, a metzincin protease that is preferentially secreted by biofilms of Pseudomonas aeruginosaJ Bacteriol. 2015 Feb 15;197(4):762-73. doi: 10.1128/JB.02404-14. Epub 2014 Dec 8.