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Pre - 2012

Uromodulin exclusion list improves urinary exosomal protein identification. Hiemstra TF, Charles PD, Hester SS, Karet FE, Lilley KS J Biomol Tech. 2011 Dec;22(4):136-45. 

Taming the isobaric tagging elephant in the room in quantitative proteomics. Christoforou A, Lilley KS Nat Methods 2011 Oct 28;8(11):911-3. doi: 10.1038/nmeth.1736. 

LC-MS/MS methods for absolute quantification and identification of proteins associated with chimeric plant oil bodies.Capuano F, Bond NJ, Gatto L, Beaudoin F, Napier JA, Benvenuto E, Lilley KS, Baschieri S Anal Chem. 2011 Dec 15;83(24):9267-72. Epub 2011 Nov 16. 

In Vivo Analyses of the Roles of Essential Omp85-Related Proteins in the Chloroplast Outer Envelope Membrane. Huang WH, Ling QH, Bedard J, Lilley K, Jarvis P Plant Physiology 2011 Sept Volume: 157 Issue: 1 Pages: 147-159 DOI: 10.1104/pp.111.181891 

Method for suppressing non-specific protein interactions observed with affinity resins. Rees JS, Lilley KS. Methods. 2011 Aug;54(4):407-12. Epub 2011 Jun 22. 

ABRF-PRG07: advanced quantitative proteomics study. Falick AM, Lane WS, Lilley KS, MacCoss MJ, Phinney BS, Sherman NE, Weintraub ST, Witkowska HE, Yates NA. J Biomol Tech. 2011 Apr;22(1):21-6. 

In vivo analysis of proteomes and interactomes using Parallel Affinity Capture (iPAC) coupled to mass spectrometry. Rees JS, Lowe N, Armean IM, Roote J, Johnson G, Drummond E, Spriggs H, Ryder E, Russell S, St Johnston D, Lilley KS. Mol Cell Proteomics. 2011 Jun;10(6):M110.002386. Epub 2011 Mar 29. 

Proteomics of cryoprotective dehydration in Megaphorura arctica Tullberg 1876 (Onychiuridae: Collembola). Thorne MA, Worland MR, Feret R, Deery MJ, Lilley KS, Clark MS. Insect Mol Biol. 2011 Jun;20(3):303-10. doi: 10.1111/j.1365-2583.2010.01062.x. Epub 2010 Dec 29. 

The ABRF Proteomics Research Group studies: educational exercises for qualitative and quantitative proteomic analyses.Friedman DB, Andacht TM, Bunger MK, Chien AS, Hawke DH, Krijgsveld J, Lane WS, Lilley KS, MacCoss MJ, Moritz RL, Settlage RE, Sherman NE, Weintraub ST, Witkowska HE, Yates NA, Turck CW. Proteomics. 2011 Apr;11(8):1371-81. doi: 10.1002/pmic.201000736. Epub 2011 Mar 11. 

Challenges for proteomics core facilities. Lilley KS, Deery MJ, Gatto L. Proteomics. 2011 Mar;11(6):1017-25. doi: 10.1002/pmic.201000693. Epub 2011 Feb 16.

Organelle proteomics experimental designs and analysis. Laurent Gatto, Juan Antonio Vizcaíno, Henning Hermjakob, Wolfgang Huber and Kathryn S. Lilley. Proteomics. 2010 Nov 2 

The Drosophila melanogaster sperm proteome-II (DmSP-II) Wasbrough ER, Dorus S, Hester S, Howard-Murkin J, Lilley K, Wilkin E, Polpitiya A, Petritis K, Karr TL Journal of Proteomics 2010 Oct Volume: 73 Issue: 11 Special Issue: SI Pages: 2171-2185 DOI: 10.1016/j.jprot.2010.09.002 

Genomic tagging reveals a random association of endogenous PtdIns5P 4-kinases IIalpha and IIbeta and a partial nuclear localisation of the IIalpha isoform. Wang M, Bond NJ, Letcher AJ, Richardson JP, Lilley KS, Irvine RF, Clarke JH. Biochem J. 2010 Jun 23. 

Identification of S-nitrosated mitochondrial proteins by S-nitrosothiol Difference In Gel Electrophoresis (SNO-DIGE): implications for the regulation of mitochondrial function by reversible S-nitrosation. Chouchani E, Hurd T, Nadtochiy SM, Brookes PS, Fearnley IM, Lilley KS, Smith RA, Murphy MP. Biochem J. 2010 Jun 10. 

Nutrient control of eukaryote cell growth: a systems biology study in yeast. Gutteridge A, Pir P, Castrillo JI, Charles PD, Lilley KS, Oliver SG. BMC Biol. 2010 May 24;8:68. 

Addressing accuracy and precision issues in iTRAQ quantitation. Karp NA, Huber W, Sadowski PG, Charles PD, Hester SV, Lilley KS. Mol Cell Proteomics. 2010 Apr 10. 

Mutation of nfxB Causes Global Changes in the Physiology and Metabolism of Pseudomonas aeruginosa. Stickland HG, Davenport PW, Lilley KS, Griffin JL, Welch M. J Proteome Res. 2010 Apr 21. 

Mutations in rpsL that confer streptomycin resistance show pleiotropic effects on virulence and the production of a carbapenem antibiotic in Erwinia carotovora. Barnard AM, Simpson NJ, Lilley KS, Salmond GP. Microbiology. 2010 Apr;156(Pt 4):1030-9. 

Measurement of protein synthesis using heavy water labeling and peptide mass spectrometry: Discrimination between major histocompatibility complex allotypes. De Riva A, Deery MJ, McDonald S, Lund T, Busch R. Anal Biochem. 2010 Aug;403(1-2):1-12. 

Proteomic analysis of peach fruit mesocarp softening and chilling injury using difference gel electrophoresis (DIGE). Nilo R, Saffie C, Lilley K, Baeza-Yates R, Cambiazo V, Campos-Vargas R, González M, Meisel LA, Retamales J, Silva H, Orellana A. BMC Genomics. 2010 Jan 18;11:43.

Proteomic analysis reveals the role of synaptic vesicle cycling in sustaining the suprachiasmatic circadian clock. M. J. Deery, E.S. Maywood, J.C. Chesham, M. Sladek, N.A. Karp, E.W. Green, P.D. Charles, A.B. Reddy, C.P. Kyriacou, K.S. Lilley, M.H. Hastings. Current Biology. 2009 19(23), 2031-2036. 

Mapping organelle proteins and protein complexes in Drosophila melanogasterTan D, Dvinge H, Christoforou A, Bertone P, Martinez Arias A, Lilley KS. J Proteome Res. Jun;8(6):2667-78. 

The organelle proteome of the DT40 Lymphocyte cell line. Hall SL, Hester S, Griffin JL, Lilley KS, Jackson AP. Mol Cell Proteomics. Jun;8(6):1295-305. 

The phage abortive infection system, ToxIN, functions as a protein-RNA toxin-antitoxin pair. Fineran PC, Blower TR, Foulds IJ, Humphreys DP, Lilley KS, Salmond GP. Proc Natl Acad Sci U S A. 2009 20;106(3):894-9. 

MRMaid: the web-based tool for designing multiple reaction monitoring (MRM) transitions. Mead JA, Bianco L, Ottone V, Barton C, Kay RG, Lilley KS, Bond NJ, Bessant C. Mol Cell Proteomics. 2009 8(4):696-705. 

Biofilms and type III secretion are not mutually exclusive in Pseudomonas aeruginosaMikkelsen H, Bond NJ, Skindersoe ME, Givskov M, Lilley KS, Welch M. Microbiology. 2009 155(Pt 3):687-98. 

Measuring redox changes to mitochondrial protein thiols with redox difference gel electrophoresis (redox-DIGE). Hurd TR, James AM, Lilley KS, Murphy MP. Methods Enzymol. 2009 456:343-61. 

Investigating sample pooling strategies for DIGE experiments to address biological variability. Karp NA and Lilley KS. Proteomics. 2009 Jan;9(2):388-97. 

Drosophila Larp associates with poly(A)-binding protein and is required for male fertility and syncytial embryo development. Blagden SP, Gatt MK, Archambault V, Lada K, Ichihara K, *Lilley KS*, Inoue YH, Glover DM. Dev Biol. 2009 334(1):186-97. 

Gel-based proteomics approach to the study of metabolic changes in pear tissue during storage. Pedreschi R, Hertog M, Robben J, *Lilley KS*, Karp NA, Baggerman G, Vanderleyden J, Nicolaï B. J Agric Food Chem. 2009 12;57(15):6997-7004.

Sequestration of Polo kinase to microtubules by phosphopriming-independent binding to Map205 is relieved by phosphorylation at a CDK site in mitosis. Archambault V, D'Avino PP, Deery MJ, Lilley KS, Glover DM. Genes Dev. 2008 1;22(19):2707-20. 

Optimizing the difference gel electrophoresis (DIGE) technology. Friedman DB, Lilley KS. Methods Mol Biol. 2008 428:93-124. 

Sub-cellular localization of membrane proteins. Sadowski, PG, Groen AJ, Dupree P and Lilley KS. Proteomics. 2008 8(19):3991-4011. 

A proteomics approach to membrane trafficking. Groen AJ, de Vries SC, Lilley KS. Plant Physiol. 2008 Aug;147(4):1584-9. 

Identification of internal ribosome entry segment (IRES)-trans-acting factors for the Myc family of IRESs. Cobbold LC, Spriggs KA, Haines SJ, Dobbyn HC, Hayes C, de Moor CH, Lilley KS, Bushell M, Willis AE. Mol Cell Biol. 2008 28(1):40-9. 

Comparison of DIGE and post-stained gel electrophoresis with both traditional and SameSpots analysis for quantitative proteomics. Karp NA, Feret R, Rubtsov DV, Lilley KS Proteomics 2008 Mar; 8(5):948-60 

Identification by 2-D DIGE of apoplastic proteins regulated by oligogalacturonides in Arabidopsis thaliana. Casasoli M, Spadoni S, Lilley KS, Cervone F, De Lorenzo G, Mattei B. Proteomics. 2008 Mar;8(5):1042-54 

Proteomic analysis of the EhV-86 virion Allen MJ, Howard JA, Lilley KS, Wilson WH. Proteome Sci. 2008 Mar 17;6(1):11 

Interaction between Anillin and RacGAP50C connects the actomyosin contractile ring with spindle microtubules at the cell division site. D'Avino PP, Takeda T, Capalbo L, Zhang W, Lilley KS, Laue ED, Glover DM. J Cell Sci. 2008 121(Pt 8):1151-8. 

A combined metabolomic and proteomic investigation of the effects of a failure to express dystrophin in the mouse heart. Gulston MK, Rubtsov DV, Atherton HJ, Clarke K, Davies KE, Lilley KS, Griffin JL. J Proteome Res. 2008 7(5):2069-77. 

Determination of genuine residents of plant endomembrane organelles using isotope tagging and multivariate statistics. Lilley KS, Dunkley TP. Methods Mol Biol. 2008;432:373-87. 

Isolation and preparation of chloroplasts from Arabidopsis thaliana plants. Kubis SE, Lilley KS, Jarvis P. Methods Mol Biol2008;425:171-86. 

DsbA plays a critical and multi-faceted role in the production of secreted virulence factors by the phytopathogen, Erwinia carotovora subsp. atroseptica Coulthurst SJ, Lilley KS, Hedley PE, Liu H, Toth IK, Salmond GP. J Biol Chem. 2008 Jun 18. 283(35):23739-53 

Independent protein-profiling studies show a decrease in apolipoprotein A1 levels in schizophrenia CSF, brain and peripheral tissues. Huang JT, Wang L, Prabakaran S, Wengenroth M, Lockstone HE, Koethe D, Gerth CW, Gross S, Schreiber D, *Lilley K,* Wayland M, Oxley D, Leweke FM, Bahn S. Mol Psychiatry. 2008 13(12):1118-28. 

Guidelines for reporting the use of gel electrophoresis in proteomics. Gibson F, Anderson L, Babnigg G, Baker M, Berth M, Binz PA, Borthwick A, Cash P, Day BW, Friedman DB, Garland D, Gutstein HB, Hoogland C, Jones NA, Khan A, Klose J, Lamond AI, Lemkin PF, *Lilley KS*, Minden J, Morris NJ, Paton NW, Pisano MR, Prime JE, Rabilloud T, Stead DA, Taylor CF, Voshol H, Wipat A, Jones AR. Nat Biotechnol. 2008 26(8):863-4. 

2-D DIGE Analysis of Liver and Red Blood Cells Provides Further Evidence for Oxidative Stress in Schizophrenia. Prabakaran. S., Wengenroth, M., Lockstone, H.E, Lilley, K, Leweke,F.M. and Bahn S.(2007) J. Prot Res. 6 (1) 141-149 

Inter-relationships between colonies, biofilms, and planktonic cells of Pseudomonas aeruginosa. Mikkelsen H, Duck Z, Lilley KS, Welch M. J Bacteriol. 2007 Mar;189(6):2411-6 

Multiple protein phosphatases are required for mitosis in Drosophila. Chen F, Archambault V, Kar A, Lio' P, D'Avino PP, Sinka R, Lilley K, Laue ED, Deak P, Capalbo L, Glover DM. Curr Biol. 2007 Feb 20;17(4):293-303. 

Proteomic complex detection using sedimentation. Hartman NT, Sicilia F, Lilley KS, Dupree P. Anal Chem. 2007 Mar 1;79(5):2078-83. 

Identification of clock genes using difference gel electrophoresis. Karp NA, Lilley KS. Methods Mol Biol. 2007;362:265-87. 

Experimental and statistical considerations to avoid false conclusions in proteomic studies using differential in-gel electrophoresis. Karp NA, McCormick PS, Russell MR, Lilley KS. Mol Cell Proteomics 2007 Aug;6(8):1354-64 

Detection of ros-sensitive thiol proteins by redox-difference gel electrophoresis (redox-dige): Implications for mitochondrial redox signalling. Hurd TR, Prime TA, Harbour ME, Lilley KS, Murphy MP. J Biol Chem. 2007 Jul 27;282(30):22040-51 

Recruitment of Polo Kinase to the Spindle Midzone during Cytokinesis Requires the Feo/Klp3A Complex. D'Avino PP, Archambault V, Przewloka MR, Zhang W, Lilley KS, Laue E, Glover DM. PLoS ONE. 2007 

Glucocorticoid signaling synchronizes the liver circadian transcriptome. Reddy AB, Maywood ES, Karp NA, King VM, Inoue Y, Gonzalez FJ, Lilley KS, Kyriacou CP, Hastings MH. Hepatology. 2007 45(6):1478-88. 

Molecular Analysis of Core Kinetochore Composition and Assembly in Drosophila melanogaster. Przewloka MR, Zhang W, Costa P, Archambault V, D'Avino PP, Lilley KS, Laue ED, McAinsh AD, Glover DM. PLoS ONE. 2007 

Nuclear Phospholipase C Gamma: Punctate Distribution and Association with the Promyelocytic Leukemia Protein. Ferguson BJ, Dovey CL, Lilley K, Wyllie AH, Rich T Journal of Proteome Research 2007 6(1):141-9 

Comparative proteomic analysis reveals differential expression of Hsp25 following the directed differentiation of mouse embryonic stem cells. Battersby A, Jones RD, Lilley KS, McFarlane RJ, Braig HR, Allen ND, Wakeman JA. Biochim Biophys Acta. 2007 1773(2):147-56. 

A comprehensive Growth control of the eukaryotic cell: a systems biology study in yeast. Castrillo JI, Zeef LA, Hoyle DC, Zhang N, Hayes A, Gardner DCJ, Cornell MJ, Petty J, Hakes L, Wardleworth L, Rash B, Brown M, Dunn WB, Broadhurst D, Hart SR, Jackson CS, O'Donoghue K, Hester S, Dunkley T, Swainston N. Li P, Gaskell SJ, Paton NW, Lilley KS, Kell DB, Oliver SG. Journal of Biology. 2007 6: 4 

The minimum information about a proteomics experiment (MIAPE). Taylor CF, Paton NW, Lilley KS, Binz PA, Julian RK Jr, Jones AR, Zhu W, Apweiler R, Aebersold R, Deutsch EW, Dunn MJ, Heck AJ, Leitner A, Macht M, Mann M, Martens L, Neubert TA, Patterson SD, Ping P, Seymour SL, Souda P, Tsugita A, Vandekerckhove J, Vondriska TM, Whitelegge JP, Wilkins MR, Xenarios I, Yates JR 3rd, Hermjakob H. Nat Biotechnol. 2007 25(8):887-93 

FlyMine: an integrated database for Drosophila and Anopheles genomics. Lyne R, Smith R, Rutherford K, Wakeling M, Varley A, Guillier F, Janssens H, Ji W, McLaren P, North P, Rana D, Riley T, Sullivan J, Watkins X, Woodbridge M, Lilley K, Russell S, Ashburner M, Mizuguchi K, Micklem G. Genome Biol. 2007 8(7):R129 

The association of biomolecular resource facilities proteomics research group 2006 study: relative protein quantitation. Turck CW, Falick AM, Kowalak JA, Lane WS, Lilley KS, Phinney BS, Weintraub ST, Witkowska HE, Yates NA. Mol Cell. Proteomics. 2007 6(8):1291-8 

Virulence and prodigiosin antibiotic biosynthesis in Serratia are regulated pleiotropically by the GGDEF/EAL domain protein, PigX. Fineran PC, Williamson NR, Lilley KS, Salmond GP. J Bacteriol. 2007 189 (21) 7653-62 

Design and analysis issues in quantitative proteomics studies Proteomics. Karp, NA, Lilley KS. Proteomics. 2007 7(S1):42-50 

Plant organelle proteomics. Lilley KS, Dupree, P Curr. Opin. Plant Biol. 2007 10 (6) 594-9

Genetic and proteomic analysis of the role of luxS in the enteric phytopathogen, Erwinia carotovora. Coulthurst SJ, Lilley,KS and Salmond GPC. Mol. Plant Path. 2006 7 (1) :31-45. 

Methods of Quantitative Proteomics and their application to plant organelle characterization. Lilley KS and Dupree P. Journal of Experimental Botany. 2006 57(7):1493-9. 

TNP-8N3-ADP Photoaffinity Labeling of Two Na,K-ATPase Sequences under Separate Na + plus K + Control. Ward DG, Taylor, M, Lilley KS, Cavieres JD. J. Biol. Chem. 2006 45(10):3460-71 

Mapping the Arabidopsis Organelle Proteome. Dunkley, TPJ., Hester S., Shadforth, IP, Runions, J, Weimar, T, Hanton, SL, Griffin, JL, Bessant C, Brandizzi ,F, Hawes, C, Watson, RB, Dupree P and Lilley KS. Prot. Natl. Acad. Sci. 2006 25;103(17):6518-23 

Differential gel electrophoresis and transgenic mitochondrial calcium reporters demonstrate spatiotemporal filtering in calcium control of mitochondria. (2006) Terhzaz S, Southall TD, Lilley KS, Kean L, Allan AK, Davies SA, Dow JA. J Biol Chem. 2006 281(27):18849-58

Circadian orchestration of the hepatic proteome. Reddy AB, Karp NA, Maywood ES, Sage EA, Deery M, O'Neill JS, Wong GK, Chesham J, Odell M, Lilley KS, Kyriacou CP, Hastings MH. Curr Biol. 2006 16(11):1107-15. 

The tip-link antigen, a protein associated with the transduction complex of sensory hair cells, is protocadherin-15. Ahmed ZM, Goodyear R, Riazuddin S, Lagziel A, Legan PK, Behra M, Burgess SM, Lilley KS, Wilcox ER, Riazuddin S, Griffith AJ, Frolenkov GI, Belyantseva IA, Richardson GP, Friedman TB. J Neurosci. 2006 26(26):7022-34 

Plant endoplasmin supports the protein secretory pathway and has a role in proliferating tissues. Klein EM, Mascheroni L, Pompa A, Ragni L, Weimar T, Lilley KS, Dupree P, Vitale A. Plant J. 2006 48(5):657-73. 

Comparative proteomics of clathrin-coated vesicles. Borner GH, Harbour M, Hester S, Lilley KS and Robinson MS. J Cell Biol. 2006 175(4):571-8. 

Quantitative proteomic approach to study subcellular localization of membrane proteins. Sadowski, PG Dunkley, TPJ, Shadforth, IP,Griffin, JL, Dupree, P, Bessant, C, and Lilley, KS. Nature Protocols. 2006 1 1778 - 1789 

Differentiation of Isomeric N-Glycan Structures by Normal-Phase Liquid Chromatography-MALDI-TOF/TOF Tandem Mass Spectrometry. Maslen, S.; Sadowski, P.; Adam, A.; Lilley, K.; Stephens, E. Anal Chem. 2006 15;78(24):8491-8.

Application of Partial Least Squares Discriminant Analysis to Two Dimensional difference gel studies in expression proteomics. Natasha A. Karp, Julian L. Griffin, and Kathryn S. Lilley. Proteomics. 2005 5 (1): 81-90 

Identification of a New Quorum-Sensing-Controlled Virulence Factor in Erwinia carotovora subsp. atroseptica Secreted via the Type II Targeting Pathway. M. Corbett, S. Virtue, K. Bell, P. Birch, T. Burr, L. Hyman, K. Lilley, S. Poock, I. Toth, and G. Salmond. MPMI. 2005 18 (4): 334-342 

Analysis of detergent-resistant membranes in Arabidopsis. Evidence for plasma membrane lipid rafts Borner GHH. Sherrier DJ, Weimar T, Michaelson LV, Hawkins ND, MacAskill A, Napier JA, Beale MH, Lilley KS, Dupree P. Plant Physiology. 2005 137 (1): 104-116 

Maximising sensitivity for detecting changes in protein expression: experimental design using Minimal CyDyes. Karp, N.A. , and Lilley, K.S. Proteomics. 2005 5 (12):3105 

Impact of replicate types on proteomic expression analysis. Karp, N.A., Spencer, M., Lindsay, H, O´Dell, K. and Lilley, K.S. J. Prot. Res. 2005 4: 1867 

Confident Protein Identification Using the Average Peptide Score Method Coupled with Search-specific, Ab-initio Thresholds. Shadforth, I., Dunkley, T.P.J., Lilley, K.S., Crowther, D. and Bessant, C. Rapid Communications in Mass Spectrometry. 2005 19 : 3363-3368 

i-Tracker: For quantitative proteomics using iTRAQTMShadforth, I., Dunkley, T.P.J., Lilley, K.S. and Bessant, C. BMC Genomics. 2006 6: 145 -150

SETH1 and SETH2, two components of the glycosylphospatidylinositol anchor biosynthetic pathway, are required for pollen germination and tube growth in Arabidopsis. Lalanne, E., Honys, D., Johnson, A., Borner, G.H.H., Lilley, K.S., Dupree, P., Grossniklaus, U., and Twell, D. The Plant Cell. (2004) 16: 229-240 

Detecting a significant change in protein expression by Differential In-gel Analysis of 2-D Difference Gel Electrophoresis. Natasha A Karp, David P Kreil, and Kathryn S Lilley. Proteomics. (2004) 4 (5) 1421-1432 

Protein profiling of human post-mortem brain using 2-dimensional fluorescence difference gel electrophoresis (2-D DIGE). Jane E. Swatton, Sudhakaran Prabakaran, Natasha A. Karp, Kathryn S. Lilley and Sabine Bahn. Molecular Psychiatry. (2004) 9 (2): 128-143 

DNA microarray normalization methods can remove bias from differential protein expression analysis of 2-D difference gel electrophoresis results. Kreil, D.P.,Karp, N.A., and Lilley, K.S. Bioinformatics. (2004) 20(13) 2026-2034 

An integrative functional genomics approach reveals impaired brain energy metabolism in Schizophrenia. Prabakaran,. S., Swatton, J., Ryan, M., Huffaker, S., Griffin, J., Wayland, M., Freeman,, T., Dudridge, F., Lilley, K.S., Karp,,N.A., Hester, S., Tkachev, D., Mimmack, M.L., Huang J. T.-J., Yolken, R. H.,.Webster, M. J, Torrey, F. and Bahn, S. Molecular Psychiatry. (2004) 9 (7): 684-697 

A proteomics method for determining the sub-cellular location of membrane proteins in Arabidopsis thaliana. Dunkley T.P.J., Dupree P., Watson R.B., Lilley K.S. Biochem Soc Trans.(2004) 32 :520-523 

Functional Specialization amongst the Arabidopsis Toc159 Family of Chloroplast Protein Import Receptor. Kubis, S., Patel., R., Combe, J., Bedard, J., Kovacheva, S. , Lilley, K., Biehl, A., Leister, D., Rios, G., Koncz, C., and Jarvis P., Plant Cell. (2004) 16 (8): 2059-2077. 

Specific changes in the Arabidopsis proteome in response to bacterial challenge: differentiating basal and R-gene mediated resistanceJones. AME, Thomas V, Truman B, Lilley K, Mansfield J, Grant M. Phytochemistry. 2004 65 (12): 1805-1816 

Localization of Organelle Proteins by Isotope Tagging (LOPIT). Dunkley T.P.J., Watson R., Griffin J.L., Dupree P. and Lilley K.S. Mol. Cell. Proteomics. (2004) 4 (11) 1128-1134 

PEDRo: A database for storing, searching and disseminating experimental proteomics data. Garwood K, McLaughlin T, Garwood C, Joens S, Morrison N, Taylor CF, Carroll K, Evans C, Whetton AD, Hart S, Stead D, Yin Z, Brown AJP, Hesketh A, Chater K, Hansson L, Mewissen M, Ghazal P, Howard J, Lilley KS, Gaskell SJ, Brass A, Hubbard SJ, Oliver SG, Paton NW. BMC Genomics. (2004) 5: art. no. 68 SEP 17 2004

Characterisation of the Necrotic protein that regulates Toll mediated immune response in Drosophila. Robertson, A.S., Belgorey, D., Lilley, K.S., Lomas, D.A., Gubb, D., and Dafforn, T.R. J. Biol. Chem. (2003) 278 (8 ) 6175-6180 

A Systematic Approach to Modelling, Capturing and Disseminating Proteomics Experimental Data. Taylor CF , Paton NW, Garwood KL , Kirby PL , Stead DA ,Yin Z , Deutsch E , Selway L, Walker J , Riba–Garcia I , Mohammed S , Deery MJ , Howard JA , Dunkley T, Shaw A, Aebersold R , Lilley KS , Roepstorff P , Yates JR III , Kell D, Brass A, Brown A , Cash P , Gaskell S , Hubbard S and, Oliver SG. Nat. Biotech. (2003) 21 (3) 247-254 

Protein Profiling using 2D DIGE. Lilley K.S. Current Protocols in Protein Science. (J. Wiley and Sons, Inc.) Editors Coligan JE,Dunn, BM, Speicher, DW and Wingfield PT. (2003) 

GPI-Anchored proteins in Arabidopsis. Borner, G.H.H., Stevens, T., Lilley, K.S. and Dupree. P Plant Physiol. (2003) 132 568-577 

The Arabidopsis ppi mutant is specifically defective in the expression, chloroplast import, and accumulation of photosynthetic proteins. Kubis, S., Baldwin, A., Patel, R., Razzaq, A., Dupree, P., Lilley, K., Kurth, J., Leister, D and Jarvis, P. The Plant Cell. (2003) 15 1-14 

Proteomics in Drosophila melanogaster. Lilley, K.S. and Griffiths, D.R. Briefings in Functional Genomics and Proteomics. (2003) 2 106-113 

Ubiquitination of a -synuclein in Lewy bodies is a pathological event not associated with impairment of proteasome function. George K.Tofaris, Azam Razzaq, Bernardino Ghetti, Kathryn Lilley and Maria Grazia Spillantini. J. Biol. Chem. (2003) 278 (45): 44405-44411

Two-dimensional gel electrophoresis: recent advances in sample preparation, detection and quantitation. Lilley, K.S., Razzaq, A. and Dupree, P. Current Opinion in Chemical Biology. (2002) 6, 46-50 . 

Precuon scanning for detection and structural characterisation of heterogeneous glycopeptide mixture. Ritchie, M.A., Deery, M.J., Lilley, K.S and Gill, A.C. JASMS. (2002) 13 (9)1065-1077