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Items: 1 to 50 of 190

1.

The subcellular organisation of Saccharomyces cerevisiae.

Nightingale DJ, Geladaki A, Breckels LM, Oliver SG, Lilley KS.

Curr Opin Chem Biol. 2018 Nov 29;48:86-95. doi: 10.1016/j.cbpa.2018.10.026. [Epub ahead of print] Review.

2.

A Bayesian mixture modelling approach for spatial proteomics.

Crook OM, Mulvey CM, Kirk PDW, Lilley KS, Gatto L.

PLoS Comput Biol. 2018 Nov 27;14(11):e1006516. doi: 10.1371/journal.pcbi.1006516. eCollection 2018 Nov.

3.

Ethylene Receptors, CTRs and EIN2 Target Protein Identification and Quantification Through Parallel Reaction Monitoring During Tomato Fruit Ripening.

Mata CI, Fabre B, Parsons HT, Hertog MLATM, Van Raemdonck G, Baggerman G, Van de Poel B, Lilley KS, Nicolaï BM.

Front Plant Sci. 2018 Nov 8;9:1626. doi: 10.3389/fpls.2018.01626. eCollection 2018.

4.

Proteomic responses of HepG2 cell monolayers and 3D spheroids to selected hepatotoxins.

Hurrell T, Lilley KS, Cromarty AD.

Toxicol Lett. 2019 Jan;300:40-50. doi: 10.1016/j.toxlet.2018.10.030. Epub 2018 Oct 28.

PMID:
30381255
5.

Early Responses to Severe Drought Stress in the Arabidopsis thaliana Cell Suspension Culture Proteome.

Alqurashi M, Chiapello M, Bianchet C, Paolocci F, Lilley KS, Gehring C.

Proteomes. 2018 Oct 2;6(4). pii: E38. doi: 10.3390/proteomes6040038.

6.

Identification of the RNA polymerase I-RNA interactome.

Piñeiro D, Stoneley M, Ramakrishna M, Alexandrova J, Dezi V, Juke-Jones R, Lilley KS, Cain K, Willis AE.

Nucleic Acids Res. 2018 Nov 16;46(20):11002-11013. doi: 10.1093/nar/gky779.

7.

Negative feedback via RSK modulates Erk-dependent progression from naïve pluripotency.

Nett IR, Mulas C, Gatto L, Lilley KS, Smith A.

EMBO Rep. 2018 Aug;19(8). pii: e45642. doi: 10.15252/embr.201745642. Epub 2018 Jun 12.

8.

Ciprofloxacin binding to GyrA causes global changes in the proteome of Pseudomonas aeruginosa.

Jedrey H, Lilley KS, Welch M.

FEMS Microbiol Lett. 2018 Jul 1;365(13). doi: 10.1093/femsle/fny134.

9.

The Parkinson's Disease-Linked Protein DJ-1 Associates with Cytoplasmic mRNP Granules During Stress and Neurodegeneration.

Repici M, Hassanjani M, Maddison DC, Garção P, Cimini S, Patel B, Szegö ÉM, Straatman KR, Lilley KS, Borsello T, Outeiro TF, Panman L, Giorgini F.

Mol Neurobiol. 2018 Apr 19. doi: 10.1007/s12035-018-1084-y. [Epub ahead of print]

10.

Proteomic Comparison of Various Hepatic Cell Cultures for Preclinical Safety Pharmacology.

Hurrell T, Segeritz CP, Vallier L, Lilley KS, Cromarty AD.

Toxicol Sci. 2018 Jul 1;164(1):229-239. doi: 10.1093/toxsci/kfy084.

PMID:
29635369
11.

Co-complex protein membership evaluation using Maximum Entropy on GO ontology and InterPro annotation.

Armean IM, Lilley KS, Trotter MWB, Pilkington NCV, Holden SB.

Bioinformatics. 2018 Jun 1;34(11):1884-1892. doi: 10.1093/bioinformatics/btx803.

12.

Stat3-mediated alterations in lysosomal membrane protein composition.

Lloyd-Lewis B, Krueger CC, Sargeant TJ, D'Angelo ME, Deery MJ, Feret R, Howard JA, Lilley KS, Watson CJ.

J Biol Chem. 2018 Mar 23;293(12):4244-4261. doi: 10.1074/jbc.RA118.001777. Epub 2018 Jan 17.

13.

Trans-acting translational regulatory RNA binding proteins.

Harvey RF, Smith TS, Mulroney T, Queiroz RML, Pizzinga M, Dezi V, Villenueva E, Ramakrishna M, Lilley KS, Willis AE.

Wiley Interdiscip Rev RNA. 2018 May;9(3):e1465. doi: 10.1002/wrna.1465. Epub 2018 Jan 17. Review.

14.

N-terminomics reveals control of Arabidopsis seed storage proteins and proteases by the Arg/N-end rule pathway.

Zhang H, Gannon L, Hassall KL, Deery MJ, Gibbs DJ, Holdsworth MJ, van der Hoorn RAL, Lilley KS, Theodoulou FL.

New Phytol. 2018 May;218(3):1106-1126. doi: 10.1111/nph.14909. Epub 2017 Nov 23.

15.

Mass spectrometry approaches to study plant endomembrane trafficking.

Parsons HT, Lilley KS.

Semin Cell Dev Biol. 2018 Aug;80:123-132. doi: 10.1016/j.semcdb.2017.10.014. Epub 2017 Nov 13. Review.

PMID:
29042236
16.

Multiple marker abundance profiling: combining selected reaction monitoring and data-dependent acquisition for rapid estimation of organelle abundance in subcellular samples.

Hooper CM, Stevens TJ, Saukkonen A, Castleden IR, Singh P, Mann GW, Fabre B, Ito J, Deery MJ, Lilley KS, Petzold CJ, Millar AH, Heazlewood JL, Parsons HT.

Plant J. 2017 Dec;92(6):1202-1217. doi: 10.1111/tpj.13743. Epub 2017 Nov 20.

17.

Spectral Libraries for SWATH-MS Assays for Drosophila melanogaster and Solanum lycopersicum.

Fabre B, Korona D, Mata CI, Parsons HT, Deery MJ, Hertog MLATM, Nicolaï BM, Russell S, Lilley KS.

Proteomics. 2017 Nov;17(21). doi: 10.1002/pmic.201700216.

18.

Glareosin: a novel sexually dimorphic urinary lipocalin in the bank vole, Myodes glareolus.

Loxley GM, Unsworth J, Turton MJ, Jebb A, Lilley KS, Simpson DM, Rigden DJ, Hurst JL, Beynon RJ.

Open Biol. 2017 Sep;7(9). pii: 170135. doi: 10.1098/rsob.170135.

19.

A subcellular map of the human proteome.

Thul PJ, Åkesson L, Wiking M, Mahdessian D, Geladaki A, Ait Blal H, Alm T, Asplund A, Björk L, Breckels LM, Bäckström A, Danielsson F, Fagerberg L, Fall J, Gatto L, Gnann C, Hober S, Hjelmare M, Johansson F, Lee S, Lindskog C, Mulder J, Mulvey CM, Nilsson P, Oksvold P, Rockberg J, Schutten R, Schwenk JM, Sivertsson Å, Sjöstedt E, Skogs M, Stadler C, Sullivan DP, Tegel H, Winsnes C, Zhang C, Zwahlen M, Mardinoglu A, Pontén F, von Feilitzen K, Lilley KS, Uhlén M, Lundberg E.

Science. 2017 May 26;356(6340). pii: eaal3321. doi: 10.1126/science.aal3321. Epub 2017 May 11.

PMID:
28495876
20.

Using hyperLOPIT to perform high-resolution mapping of the spatial proteome.

Mulvey CM, Breckels LM, Geladaki A, Britovšek NK, Nightingale DJH, Christoforou A, Elzek M, Deery MJ, Gatto L, Lilley KS.

Nat Protoc. 2017 Jun;12(6):1110-1135. doi: 10.1038/nprot.2017.026. Epub 2017 May 4.

PMID:
28471460
21.

Selective Proteomic Proximity Labeling Assay Using Tyramide (SPPLAT): A Quantitative Method for the Proteomic Analysis of Localized Membrane-Bound Protein Clusters.

Rees JS, Li XW, Perrett S, Lilley KS, Jackson AP.

Curr Protoc Protein Sci. 2017 Apr 3;88:19.27.1-19.27.18. doi: 10.1002/cpps.27.

PMID:
28369668
22.

Tracking the embryonic stem cell transition from ground state pluripotency.

Kalkan T, Olova N, Roode M, Mulas C, Lee HJ, Nett I, Marks H, Walker R, Stunnenberg HG, Lilley KS, Nichols J, Reik W, Bertone P, Smith A.

Development. 2017 Apr 1;144(7):1221-1234. doi: 10.1242/dev.142711. Epub 2017 Feb 7.

23.

Time, space, and disorder in the expanding proteome universe.

Minde DP, Dunker AK, Lilley KS.

Proteomics. 2017 Apr;17(7). doi: 10.1002/pmic.201600399. Epub 2017 Mar 20.

24.

A Bioconductor workflow for processing and analysing spatial proteomics data.

Breckels LM, Mulvey CM, Lilley KS, Gatto L.

Version 2. F1000Res. 2016 Dec 28 [revised 2018 Jan 1];5:2926. doi: 10.12688/f1000research.10411.2. eCollection 2016.

25.

In-depth characterization of the tomato fruit pericarp proteome.

Mata CI, Fabre B, Hertog ML, Parsons HT, Deery MJ, Lilley KS, Nicolaï BM.

Proteomics. 2017 Jan;17(1-2). doi: 10.1002/pmic.201600406.

PMID:
27957804
26.

SWATH-MS dataset of heat-shock treated Drosophila melanogaster embryos.

Fabre B, Korona D, Nightingale DJ, Russell S, Lilley KS.

Data Brief. 2016 Nov 16;9:991-995. eCollection 2016 Dec.

27.

SWATH-MS data of Drosophila melanogaster proteome dynamics during embryogenesis.

Fabre B, Korona D, Nightingale DJ, Russell S, Lilley KS.

Data Brief. 2016 Oct 24;9:771-775. eCollection 2016 Dec.

28.

The metabolic background is a global player in Saccharomyces gene expression epistasis.

Alam MT, Zelezniak A, Mülleder M, Shliaha P, Schwarz R, Capuano F, Vowinckel J, Radmanesfahar E, Krüger A, Calvani E, Michel S, Börno S, Christen S, Patil KR, Timmermann B, Lilley KS, Ralser M.

Nat Microbiol. 2016 Feb 1;1:15030. doi: 10.1038/nmicrobiol.2015.30.

29.

Phosphorylation of the dimeric cytoplasmic domain of the phytosulfokine receptor, PSKR1.

Muleya V, Marondedze C, Wheeler JI, Thomas L, Mok YF, Griffin MD, Manallack DT, Kwezi L, Lilley KS, Gehring C, Irving HR.

Biochem J. 2016 Oct 1;473(19):3081-98. doi: 10.1042/BCJ20160593. Epub 2016 Aug 3.

PMID:
27487840
30.

The RNA-binding protein repertoire of Arabidopsis thaliana.

Marondedze C, Thomas L, Serrano NL, Lilley KS, Gehring C.

Sci Rep. 2016 Jul 11;6:29766. doi: 10.1038/srep29766.

31.

Learning from Heterogeneous Data Sources: An Application in Spatial Proteomics.

Breckels LM, Holden SB, Wojnar D, Mulvey CM, Christoforou A, Groen A, Trotter MW, Kohlbacher O, Lilley KS, Gatto L.

PLoS Comput Biol. 2016 May 13;12(5):e1004920. doi: 10.1371/journal.pcbi.1004920. eCollection 2016 May.

32.

Analysis of Drosophila melanogaster proteome dynamics during embryonic development by a combination of label-free proteomics approaches.

Fabre B, Korona D, Groen A, Vowinckel J, Gatto L, Deery MJ, Ralser M, Russell S, Lilley KS.

Proteomics. 2016 Aug;16(15-16):2068-80. doi: 10.1002/pmic.201500482. Epub 2016 May 10.

33.

Impact of Azithromycin on the Quorum Sensing-Controlled Proteome of Pseudomonas aeruginosa.

Swatton JE, Davenport PW, Maunders EA, Griffin JL, Lilley KS, Welch M.

PLoS One. 2016 Jan 25;11(1):e0147698. doi: 10.1371/journal.pone.0147698. eCollection 2016.

34.

A draft map of the mouse pluripotent stem cell spatial proteome.

Christoforou A, Mulvey CM, Breckels LM, Geladaki A, Hurrell T, Hayward PC, Naake T, Gatto L, Viner R, Martinez Arias A, Lilley KS.

Nat Commun. 2016 Jan 12;7:8992. doi: 10.1038/ncomms9992.

35.

A Quantitative Phosphoproteome Analysis of cGMP-Dependent Cellular Responses in Arabidopsis thaliana.

Marondedze C, Groen AJ, Thomas L, Lilley KS, Gehring C.

Mol Plant. 2016 Apr 4;9(4):621-3. doi: 10.1016/j.molp.2015.11.007. Epub 2015 Nov 30. No abstract available.

36.

Analysis of temperature-mediated changes in the wine yeast Saccharomyces bayanus var uvarum. An oenological study of how the protein content influences wine quality.

Muñoz-Bernal E, Deery MJ, Rodríguez ME, Cantoral JM, Howard J, Feret R, Natera R, Lilley KS, Fernández-Acero FJ.

Proteomics. 2016 Feb;16(4):576-92. doi: 10.1002/pmic.201500137. Epub 2016 Jan 25.

PMID:
26621492
37.

Sex-Related Differences in Rat Choroid Plexus and Cerebrospinal Fluid: A cDNA Microarray and Proteomic Analysis.

Quintela T, Marcelino H, Deery MJ, Feret R, Howard J, Lilley KS, Albuquerque T, Gonçalves I, Duarte AC, Santos CR.

J Neuroendocrinol. 2016 Jan;28(1). doi: 10.1111/jne.12340.

PMID:
26606900
38.

Drosophila Ionotropic Receptor 25a mediates circadian clock resetting by temperature.

Chen C, Buhl E, Xu M, Croset V, Rees JS, Lilley KS, Benton R, Hodge JJ, Stanewsky R.

Nature. 2015 Nov 26;527(7579):516-20. doi: 10.1038/nature16148. Epub 2015 Nov 18.

PMID:
26580016
39.

Focus on Quantitative Proteomics.

Lilley KS, Beynon RJ, Eyers CE, Hubbard SJ.

Proteomics. 2015 Sep;15(18):3101-3. doi: 10.1002/pmic.201570163. No abstract available.

PMID:
26372724
40.

Protein Neighbors and Proximity Proteomics.

Rees JS, Li XW, Perrett S, Lilley KS, Jackson AP.

Mol Cell Proteomics. 2015 Nov;14(11):2848-56. doi: 10.1074/mcp.R115.052902. Epub 2015 Sep 8. Review.

41.

α-Klotho Expression in Human Tissues.

Lim K, Groen A, Molostvov G, Lu T, Lilley KS, Snead D, James S, Wilkinson IB, Ting S, Hsiao LL, Hiemstra TF, Zehnder D.

J Clin Endocrinol Metab. 2015 Oct;100(10):E1308-18. doi: 10.1210/jc.2015-1800. Epub 2015 Aug 17.

42.

The chicken B-cell line DT40 proteome, beadome and interactomes.

Rees JS, Lilley KS, Jackson AP.

Data Brief. 2015 Jan 13;3:29-33. doi: 10.1016/j.dib.2014.12.006. eCollection 2015 Jun.

43.

Dynamic Proteomic Profiling of Extra-Embryonic Endoderm Differentiation in Mouse Embryonic Stem Cells.

Mulvey CM, Schröter C, Gatto L, Dikicioglu D, Fidaner IB, Christoforou A, Deery MJ, Cho LT, Niakan KK, Martinez-Arias A, Lilley KS.

Stem Cells. 2015 Sep;33(9):2712-25. doi: 10.1002/stem.2067. Epub 2015 Jun 23.

44.

Selective Proteomic Proximity Labeling Assay Using Tyramide (SPPLAT): A Quantitative Method for the Proteomic Analysis of Localized Membrane-Bound Protein Clusters.

Rees JS, Li XW, Perrett S, Lilley KS, Jackson AP.

Curr Protoc Protein Sci. 2015 Apr 1;80:19.27.1-18. doi: 10.1002/0471140864.ps1927s80.

PMID:
25829300
45.

Analysis of Quality-Related Parameters in Mature Kernels of Polygalacturonase Inhibiting Protein (PGIP) Transgenic Bread Wheat Infected with Fusarium graminearum.

Masci S, Laino P, Janni M, Botticella E, Di Carli M, Benvenuto E, Danieli PP, Lilley KS, Lafiandra D, D'Ovidio R.

J Agric Food Chem. 2015 Apr 22;63(15):3962-9. doi: 10.1021/jf506003t. Epub 2015 Apr 9.

PMID:
25823882
46.

Quantitative proteomics analysis of the Arg/N-end rule pathway of targeted degradation in Arabidopsis roots.

Zhang H, Deery MJ, Gannon L, Powers SJ, Lilley KS, Theodoulou FL.

Proteomics. 2015 Jul;15(14):2447-57. doi: 10.1002/pmic.201400530. Epub 2015 Apr 17.

47.

SILAC-iPAC: a quantitative method for distinguishing genuine from non-specific components of protein complexes by parallel affinity capture.

Rees JS, Lilley KS, Jackson AP.

J Proteomics. 2015 Feb 6;115:143-56. doi: 10.1016/j.jprot.2014.12.006. Epub 2014 Dec 20.

48.

Mep72, a metzincin protease that is preferentially secreted by biofilms of Pseudomonas aeruginosa.

Passmore IJ, Nishikawa K, Lilley KS, Bowden SD, Chung JC, Welch M.

J Bacteriol. 2015 Feb 15;197(4):762-73. doi: 10.1128/JB.02404-14. Epub 2014 Dec 8.

49.

Toward a comprehensive map of the effectors of rab GTPases.

Gillingham AK, Sinka R, Torres IL, Lilley KS, Munro S.

Dev Cell. 2014 Nov 10;31(3):358-373. doi: 10.1016/j.devcel.2014.10.007. Epub 2014 Nov 10.

50.

Analysis of the expression patterns, subcellular localisations and interaction partners of Drosophila proteins using a pigP protein trap library.

Lowe N, Rees JS, Roote J, Ryder E, Armean IM, Johnson G, Drummond E, Spriggs H, Drummond J, Magbanua JP, Naylor H, Sanson B, Bastock R, Huelsmann S, Trovisco V, Landgraf M, Knowles-Barley S, Armstrong JD, White-Cooper H, Hansen C, Phillips RG; UK Drosophila Protein Trap Screening Consortium, Lilley KS, Russell S, St Johnston D.

Development. 2014 Oct;141(20):3994-4005. doi: 10.1242/dev.111054.

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