2D DIGE Citations

Citations

Published Papers

Comparative study of protein and mRNA expression during osteoclastogenesis. Czupalla C, Mansukoski H, Pursche T, Krause E, Hoflack B. Proteomics 5, 3868-75 (2005).

Proteomic profiling and neurodegeneration in west-nile-virus-infected neurons. Dhingra V, Li Q, Allison AB, Stallknecht DE, Fu ZF. J Biomed Biotechnol 2005, 271-9 (2005).

Statistical challenges in the analysis of two-dimensional difference gel electrophoresis experiments using DeCyder™. Fodor IK, Nelson DO, Alegria-Hartman M, Robbins K, Langlois RG, Turteltaub KW, Corzett TH, McCutchen-Maloney SL. Bioinformatics 21, 3733-40 (2005).

Proteomic analysis of carbohydrate catabolism and regulation in the marine bacterium Rhodopirellula baltica. Gade D, Gobom J, Rabus R. Proteomics 5, 3672-83 (2005), in press.

Combined Proteomics and Pathways Analysis of Collecting Duct Reveals a Protein Regulatory Network Activated in Vasopressin Escape. Hoorn EJ, Hoffert JD, Knepper MA. J Am Soc Nephrol 16, 2852-63 (2005).

Impact of Replicate Types on Proteomic Expression Analysis. Karp NA, Spencer M, Lindsay H, O'dell K, Lilley KS. J Proteome Res 4, 1867-1871 (2005).

Rheumatology: a close encounter with proteomics. Tilleman K, Deforce D, Elewaut D. Rheumatology (Oxford) 44, 1217-26 (2005).

Comparative proteomic analysis using samples obtained with laser microdissection and saturation dye labelling. Wilson KE, Marouga R, Prime JE, Pashby DP, Orange PR, Crosier S, Keith AB, Lathe R, Mullins J, Estibeiro P, Bergling H, Hawkins E, Morris CM. Proteomics 5, 3851-8 (2005).

Characterization of proteins in human pancreatic cancer serum using differential gel electrophoresis and tandem mass spectrometry. Yu KH, Rustgi AK, Blair IA. J Proteome Res 4, 1742-51 (2005).

Proteomic expression analysis of colorectal cancer by two-dimensional differential gel electrophoresis. Alfonso P, Nunez A, Madoz-Gurpide J, Lombardia L, Sanchez L, Casal JI. Proteomics 5, 2602-11 (2005).

PCOTH, a novel gene overexpressed in prostate cancers, promotes prostate cancer cell growth through phosphorylation of oncoprotein TAF-Ibeta/SET. Anazawa Y, Nakagawa H, Furihara M, Ashida S, Tamura K, Yoshioka H, Shuin T, Fujioka T, Katagiri T, Nakamura Y. Cancer Res 65, 4578-86 (2005).

Protein identification by Mass Spectrometry: Issues to be considered. Baldwin MA. Mol Cell Proteomics 3, 1-9 (2004).

Proteomic characterization of harvested pseudopodia with differential gel electrophoresis and specific antibodies. Beckner ME, Chen X, An J, Day BW Pollack IF. Lab Invest 85, 316-27 (2005).

Holistic differential analysis of embryo-induced alterations in the proteome of bovine endometrium in the preattachment period. Berendt FJ, Frohlich T, Schmidt SE, Reichenbach HD, Wolf E, Arnold GJ.5, 2551-60 (2005).

Metabolic labelling of proteins for proteomics. Beynon RJ, Pratt JM. Mol Cell Proteomics 4, 857-72 (2005).

Characterization and quantitation of membrane proteomes using multidimensional MS-based proteomic technologies. Blonder J, Conrads TP, Veenstra TD. Expert Rev Proteomics 1, 153-163 (2004).

Analysis of detergent-resistant membranes in Arabidopsis. evidence for plasma membrane lipid rafts. Borner GH, Sherrier DJ, Weimar T, Michaelson LV, Hawkins ND, Macaskill A, Napier JA, Beale MH, Lilley KS, Dupree P. Plant Physiol 137, 104-16 (2005).

Identification of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A proteomic and genomic analysis. Borner GH, Lilley KS, Stevens TJ, Dupree P. Plant Physiology 132, 568-577 (2003).

A proteomic approach for the discovery of protease substrates. Bredemeyer AJ, Lewis RM, Malone JP, Davis AE, Gross J, Townsend RR, Ley TJ. Proc Natl Acad Sci USA 101, 11785-11790 (2004).

Albumin depletion method for improved plasma glycoprotein analysis by two-dimensional difference gel electrophoresis. Brzeski H, Katenhusen RA, Sullivan AG, Russell S, George A, Somiari RI, Shriver C. Biotechniques 35, 1128-1132 (2003).

Insect resistance to Bacillus thuringiensis: Alterations in the Indianmeal moth larval gut proteome. Candas M, Loseva O, Oppert B, Kosaraju P, Bulla LA Jr. Molecular and Cellular Proteomics 2, 19-28 (2003).

Proteomic analysis of redox- and ErbB2-dependent changes in mammary luminal epithelial cells using cysteine- and lysine-labelling two-dimensional difference gel electrophoresis. Chan HL, Gharbi S, Gaffney PR, Cramer R, Waterfield MD, Timms JF. Proteomics 5, 2908-26 (2005).

Application of two-dimensional difference gel electrophoresis to studying bone marrow macrophages and their in vivo responses to ionizing radiation. Chen C, Boylan MT, Evans CA, Whetton AD, Wright EG. J Proteome Res 5, 1371-80 (2005).

Proteomic analysis of human serum by two-dimensional differential gel electrophoresis after depletion of high-abundant proteins. Chromy BA, Gonzales AD, Perkins J, Choi MW, Corzett MH, Chang BC, Corzett CH, McCutchen-Maloney SL. J Proteome Res 3, 1120-7 (2004).

Protein Profiling of Mouse Livers with Peroxisome Proliferator-Activated Receptor Activation. Chu R, Lim H, Brumfield L, Liu H, Herring C, Ulintz P, Reddy JK, Davison M. Mol Cell Biol 24, 6288-6297 (2004).

Identification of a new quorum-sensing-controlled virulence factor in Erwinia carotovora subsp. atroseptica secreted via the type II targeting pathway. Corbett M, Virtue S, Bell K, Birch P, Burr T, Hyman L, Lilley K, Poock S, Toth I, Salmond G. Mol Plant Microbe Interact 18, 334-42 (2005).

Proteomics techniques and their application to haematology. Cristea IM, Gaskell SJ, Whetton AD. Blood 103, 3624-3634 (2004).

Proteomic Strategies and Their Application in Studies of Renal Function. Cutillas P, Burlingame A, Unwin R. News Physiol Sci 19, 114-119 (2004).

Proteomic analysis identifies immunophilin FKBP52 as a downstream target of Hoxa10 in the periimplantation mouse uterus. Daikoku T, Tranguch S, Friedman DB, Das SK, Smith DF, Dey SK. Mol Endocrinol 19, 683-97 (2005).

Heat shock protein 27 is the major differentially phosphorylated protein Involved in renal epithelial cellular stress response and controls focal adhesion organization and apoptosis. de Graauw M, Tijdens I, Cramer R, Corless S, Timms JF, van de Water B. J Biol Chem 280, 29885-98 (2005).

Difference in mass analysis using labeled lysines (DIMAL-K): A new efficient proteomic quantification method applied to the analysis of astrocytic secretomes. Delcourt N, Jouin P, Poncet J, Demey E, Mauger E, Bockaert J, Marin P, Galeotti N. Mol Cell Proteomics 4, 1085-94 (2005).

Targeted proteomics using immunoblotting technique for studying dysregulation of ion transporters in renal disorders. Ecelbarger CA. Expert Rev Proteomics 1, 219-227 (2004).

Proteomic analysis of proteins altered by dibenzoylmethane in human prostatic cancer LNCaP cells. Frazier MC, Jackson KM, Jankowska-Stephens E, Anderson MG, Harris WB. Proteomics 4, 2814-21 (2004).

Distinct proteomic profiles of amphetamine self-administration transitional states. Freeman WM, Brebner K, Amara SG, Reed MS, Pohl J, Phillips AG. 5, 203-14 (2005).

Proteomics for protein expression profiling in neuroscience. Freeman WM, Hemby SE. Neurochem Res 29, 1065-81 (2004).

Identification of post-translational modifications that occur during sperm maturation using difference in two-dimensional gel electrophoresis. Baker MA, Witherdin R, Hetherington L, Cunningham-Smith K, Aitken RJ. Proteomics 5, 1003-1012 (2005).

Proteome analysis of human colon cancer by two-dimensional difference gel electrophoresis and mass spectrometry. Friedman DB, Hill S, Keller JW, Merchant NB, Levy SE, Coffey RJ, Caprioli RM. Proteomics 4, 793-811 (2004).

Proteomic study of human hepatocellular carcinoma using two-dimensional difference gel electrophoresis with saturation cysteine dye. Fujii K, Kondo T, Yokoo H, Yamada T, Iwatsuki K, Hirohashi S. Proteomics 5, 1411-1422 (2005).

Growth phase dependent regulation of protein composition in Rhodopirellula baltica. Gade D, Stuhrmann T, Reinhardt R, Rabus R. Environ Microbiol 7, 1074-84 (2005).

Evaluation of Two-Dimensional Difference Gel Electrophoresis for Protein Profiling. Soluble Proteins of the Marine Bacterium PIRELLULA sp. Strain 1. Gade D, Thiermann J, Markowsky D, Rabus R. J Mol Microbiol Biotechnol. 5, 240-251 (2003).

Yeast Asc1p and Mammalian RACK1 Are Functionally Orthologous Core 40S Ribosomal Proteins That Repress Gene Expression. Gerbasi VR, Weaver CM, Hill S, Friedman DB, Link AJ. Mol Cell Biol 24, 8276-8287 (2004).

Evaluation of 2-D differential gel electrophoresis for proteomic expression analysis of a model breast cancer cell system. Gharbi S, Gaffney P, Yang A, Zvelebil MJ, Cramer R, Waterfield MD, Timms JF. Molecular and Cellular Proteomics 1, 91-98 (2002).

Toward a biological network for atherosclerosis. Ghazalpour A, Doss S, Yang X, Aten J, Toomey EM, Van Nas A, Wang S, Drake TA, Lusis AJ. J Lipid Res 45, 1793-1805 (2004).

Non-stoichiometric relationship between clathrin heavy and light chains revealed by quantitative comparative proteomics of clathrin-coated vesicles from brain and liver. Girard M, Allaire PD, McPherson PS, Blondeau F. Mol Cell Proteomics 4, 1145-54 (2005).

Drosophila ventral furrow morphogenesis: a proteomic analysis. Gong L, Puri M, Unlu M, Young M, Robertson K, Viswanathan S, Krishnaswamy A, Dowd SR, Minden JS. Development 131, 643-56 (2004).

Broad-based proteomic strategies: a practical guide to proteomics and functional screening. Graham DR, Elliott ST, Van Eyk JE. J Physiol 563, 1-9 (2005).

Saturation labeling with cysteine-reactive cyanine fluorescent dyes provides increased sensitivity for protein expression profiling of laser-microdissected clinical specimens. Greengauz-Roberts O, Stoppler H, Nomura S, Yamaguchi H, Goldenring JR, Podolsky RH, Lee JR, Dynan WS. Proteomics 5, 1746-57 (2005).

Environmental hypoxia influences hemoglobin subunit composition in the branchiopod crustacean Triops longicaudatus. Guadagnoli JA, Braun AM, Roberts SP, Reiber CL. Journal of Experimental Biology 208, 3543-3551 (2005).

Mechanisms of action of the antidepressants fluoxetine and the substance P antagonist L-000760735 are associated with altered neurofilaments and synaptic remodelling. Guest PC, Knowles MR, Molon-Noblot S, Salim K, Smith D, Murray F, Laroque P, Hunt SP, De Felipe C, Rupniak NM, McAllister G. Brain Research 1002, 1-10 (2004).

Mechanisms of hydrazine toxicity in rat liver investigated by proteomics and multivariate data analysis. Guldberg Klenø T, Ronnedal Leonardsen L, Ørsted Kjeldal H, Møller Laursen S, Nørregaard Jensen O, Baunsgaard D. Proteomics 4, 868-880 (2004).

Modern strategies for protein quantification in proteome analysis: Advantages and limitations. Hamdan M, Righetti PG. Mass Spectrometry Reviews 21, 287-302 (2002).

Plasminogen-like Protein Selectively Degrades Stearoyl-CoA Desaturase in Liver Microsomes. Heinemann FS, Korza G, Ozols JA. J. Biol Chem 278, 42966 - 42975 (2003).

Identification of fibrosis-relevant proteins using DIGE (difference in gel electrophoresis) in different models of hepatic fibrosis. Henkel C, Roderfeld M, Weiskirchen R, Scheibe B, Matern S, Roeb E. Z Gastroenterol 43, 23-29 (2005).

Discovery of Protein Biomarkers for Renal Diseases. Hewitt SM, Dear J, Star RA. J Am Soc Nephrol 15, 1677-1689 (2004).

Proteomics: current techniques and potential applications to lung disease. Hirsch J, Hansen KC, Burlingame AL, Matthay MA. Am J Physiol Lung Cell Mol Physiol 287, L1-L23 (2004).

Application of Difference Gel Electrophoresis (DIGE) to the Identification of Inner Medullary Collecting Duct Proteins. Hoffert JD, Van Balkom BW, Chou CL, Knepper MA. Am J Physiol Renal Physiol. 286, F170-9 (2003).

Proteomic exploration of pancreatic islets in mice null for the alpha2A adrenergic receptor. Hu X, Friedman D, Hill S, Caprioli R, Nicholson W, Powers AC, Hunter L, Limbird LE. J Mol Endocrinol 35, 73-88 (2005).

Recent advances in gel-based proteome profiling techniques. Hu Y, Huang X, Chen GY, Yao SQ. Mol Biotechnol 28, 63-76 (2004).

Proteome Analysis of UVB-Induced Anti-Apoptotic Regulatory Factors. Ibuki Y, Naitou H, Ohashi N, Goto R. Photochem Photobiol 81, 823-9 (2005).

Quantitative analysis of SARS-coronavirus infected cells using proteomic approaches: Implications for cellular responses to virus infection. Jiang XS, Tang LY, Dai J, Zhou H, Li SJ, Xia QC, Wu JR, Zeng R. Mol Cell Proteomics 4, 902-13 (2005).

A comparative proteomic strategy for subcellular proteome research: icat approach coupled with bioinformatics prediction to ascertain rat liver mitochondrial proteins and indication of mitochondrial localization for catalase. Jiang XS, Dai J, Sheng QH, Zhang L, Xia QC, Wu JR, Zeng R. Mol Cell Proteomics 4, 12-34 (2005).

Proteomic and immunochemical characterization of a role for stathmin in adult neurogenesis. Jin K, Mao XO, Cottrell B, Schilling B, Xie L, Row RH, Sun Y, Peel A, Childs J, Gendeh G, Gibson BW, Greenberg DA. FASEB J 18, 287-299 (2004).

Potential of proteomics towards the investigation of the IGF-independent actions of IGFBP-3. Jogie-Brahim S, Min H-K, Oh Y. Expert Rev Proteomics 2, 71-86 (2005).

Maximising sensitivity for detecting changes in protein expression: experimental design using minimal CyDyes. Karp NA, Lilley KS. Proteomics 5, 3105-15 (2005).

Application of partial least squares discriminant analysis to two-dimensional difference gel studies in expression proteomics. Karp NA, Griffin JL, Lilley KS. Proteomics 22;5, 81-90 (2005).

Determining a significant change in protein expression with DeCyder during a pair-wise comparison using two-dimensional difference gel electrophoresis. Karp NA, Kreil DP, Lilley KS. Proteomics 4, 1421-32 (2004).

Multiplex proteomic analysis by two-dimensional differential in-gel electrophoresis. Knowles MR, Cervino S, Skynner HA, Hunt SP, De Felipe C, Salim K, Meneses-Lorente G, McAllister G, Guest PC. Proteomics 3, 1162-1171 (2003).

Rapid and selective oxygen regulated protein tyrosine "denitration" and nitration in mitochondria. Koeck T, Fu X, Hazen SL, Crabb JW, Stuehr DJ, Aulak KS. J Biol Chem 279, 27257-27262 (2004).

Identification of differentially expressed proteins in oral squamous cell carcinoma using a global proteomic approach. Koike H, Uzawa K, Nakashima D, Shimada K, Kato Y, Higo M, Kouzu Y, Endo Y, Kasamatsu A, Tanzawa H. Int J Oncol 27, 59-67 (2005).

Double standards in quantitative proteomics: Direct comparative assessment of difference in Gel electrophoresis (DiGE) and metabolic stable isotope labeling. Kolkman A, Dirksen EH, Slijper M, Heck AJ. Mol Cell Proteomics 4, 255-66 (2005).

Application of sensitive fluorescent dyes in linkage of laser microdissection and two-dimensional gel electrophoresis as a cancer proteomic study tool. Kondo T, Seike M, Mori Y, Fujii K, Yamada T, Hirohashi S. Proteomics 3, 1758-1766 (2003).

DNA microarray normalization methods can remove bias from differential protein expression analysis of 2-D difference gel electrophoresis results. Kreil DP, Karp NA, Lilley KS. Bioinformatics 20, 2026-2034 (2004).

Nitrogen lowers the sulfur amino acid content of soybean (Glycine max [L.] Merr.) by regulating the accumulation of Bowman-Birk protease inhibitor. Krishnan HB, Bennett JO, Kim WS, Krishnan AH, Mawhinney TP. J Agric Food Chem 53, 6347-54 (2005).

The Arabidopsis ppi1 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, Jarvis P. Plant Cell 15, 1859 - 1871 (2003).

Combination of two-dimensional electrophoresis and shotgun peptide sequencing in comparative proteomics. Kubota K, Kosaka T, Ichikawa K. J Chromatogr B 815, 3-9 (2005).

Substrate-dependent regulation of anaerobic degradation pathways for toluene and ethylbenzene in a denitrifying bacterium, strain EbN1. (Max Planck Institute for Marine Microbiology, Celsiusstr. 1, 28359 Bremen, Germany). Kuhner S, Wohlbrand L, Fritz I, Wruck W, Hultschig C, Hufnagel P, Kube M, Reinhardt R, Rabus R. J Bacteriol 187, 1493-503 (2005).

Differential Protein Analysis of Spasomolytic Polypeptide Expressing Metaplasia Using Laser Capture Microdissection and Two-dimensional Difference Gel Electrophoresis. Lee JR, Baxter TM, Yamaguchi H, Wang TC, Goldenring JR, Anderson MG. Applied Immunohistochemistry and Molecular Morphology 11, 188-193 (2003).

Effect of Sterol Regulatory Element Binding Protein-1a on the Mitochondrial Protein Pattern in Human Liver Cells Detected by 2D-DIGE. Lehr S, Kotzka J, Avci H, Knebel B, Muller S, Hanisch FG, Jacob S, Haak C, Susanto F, Muller-Wieland D. Biochemistry 44, 5117-5128 (2005).

Proteome analysis of human hepatocellular carcinoma tissues by two-dimensional difference gel electrophoresis and mass spectrometry. Liang CR, Leow CK, Neo JC, Tan GS, Lo SL, Lim JW, Seow TK, Lai PB, Chung MC. Proteomics 5, 2258-71 (2005).

All about DIGE: quantification technology for differential-display 2D-gel proteomics. Lilley KS, Friedman DB. Expert Rev Proteomics 1, 401-409 (2004).

Localization, annotation and comparison of the Escherichia coli K-12 proteome under two states of growth. Lopez-Campistrous A, Semchuk P, Burke L, Palmer-Stone T, Brokx SJ, Broderick G, Bottorff D, Bolch S, Weiner JH, Ellison MJ. Mol Cell Proteomics 4, 1205-1209 (2005).

YB-1 is important for late-stage embryonic development, optimal cellular stress responses, and the prevention of premature senescence. Lu ZH, Books JT, Ley TJ. Mol Cell Biol 25, 4625-37 (2005).

Effect of biofilm model, mode of growth, and strain on streptococcusmutans protein expression as determined by two-dimensional difference gel electrophoresis. Luppens SB, ten Cate JM. J Proteome Res 4, 232-7 (2005).

Cy5 maleimide-labelling for sensitive detection of free thiols in native protein extracts: Identification of seed proteins targeted by barley thioredoxin h isoforms. Maeda K, Finnie C, Svensson B. Biochem J 378, 497-507 (2004).

Quantitative proteomic analysis of mouse liver response to the peroxisome proliferator diethylhexylphthalate (DEHP). Macdonald N, Chevalier S, Tonge R, Davison M, Rowlinson R, Young J, Rayner S, Roberts R. Arch Toxicol 75, 415-424 (2001).

A proteomic investigation of drug-induced steatosis in rat liver. Meneses-Lorente G, Guest PC, Lawrence J, Muniappa N, Knowles MR, Skynner HA, Salim K, Cristea I, Mortishire-Smith R, Gaskell SJ, Watt A. Chem Res Toxicol 17, 605-12 (2004).

Proteomic analysis of livers of patients with primary hepatolithiasis. Nabetani T, Tabuse Y, Tsugita A, Shoda J. Proteomics 5, 1043-61 (2005).

Targets of microRNA regulation in the Drosophila oocyte proteome. Nakahara K, Kim K, Sciulli C, Dowd SR, Minden JS, Carthew RW. Proc Natl Acad Sci U S A 102, 12023-8 (2005).

beta-Phenylethyl isothiocyanate mediated apoptosis: A proteomic investigation of early apoptotic protein changes. Neo JC, Rose P, Ong CN, Chung MC. Proteomics 5, 1075-82 (2005).

Chromatofocusing fractionation and two-dimensional difference gel electrophoresis for low abundance serum proteins. Qin S, Ferdinand AS, Richie JP, O'Leary MP, Mok SC, Liu BC. Proteomics 5, 3183-92 (2005).

Target class strategies in mass spectrometry-based proteomics. Opiteck GJ, Scheffler JE. Expert Rev Proteomics 1, 57-66 (2004).

Proteomics to diagnose human tumors and provide prognostic information. Ornstein DK, Petricoin EF 3rd. Oncology (Huntingt) 18, 521-9; discussion 529-32 (2004).

A multidimensional differential proteomic platform using dual-phase ion-exchange chromatography-polyacrylamide gel electrophoresis/reversed-phase liquid chromatography tandem mass spectrometry. Ottens AK, Kobeissy FH, Wolper RA, Haskins WE, Hayes RL, Denslow ND, Wang KK. Anal Chem 77, 4836-45 (2005).

Hyperthermia-induced proteasome inhibition and loss of androgen receptor expression in human prostate cancer cells. Pajonk F, van Ophoven A, McBride WH. Cancer Res 65, 4836-43 (2005).

Update on proteomics in Arabidopsis. Where do we go from here? Peck SC.Plant Physiol 138, 591-9 (2005).

Disruption of a Nuclear Gene Encoding a Mitochondrial Gamma Carbonic Anhydrase Reduces Complex I and Supercomplex I+III(2) Levels and Alters Mitochondrial Physiology in Arabidopsis. Perales M, Eubel H, Heinemeyer J, Colaneri A, Zabaleta E, Braun HP. J Mol Biol 350, 263-77 (2005).

Cancer Proteomics: Serum Diagnostics for Tumor Marker Discovery. Rai AJ, Chan DW. Ann NY Acad Sci 1022, 286-294 (2004).

Neurotoxicity of Polychlorinated Biphenyls (PCBs) by Disturbance of Thyroid Hormone-Regulated Genes. Roelens SA, Beck V, Aerts G, Clerens S, Vanden Bergh G, Arckens L, Darras VM, VAN DER Geyten S. Ann N Y Acad Sci 1040, 454-6 (2005).

Genomics and proteomics analysis of acetaminophen toxicity in mouse liver. Ruepp SU, Tonge RP, Shaw J, Wallis N, Pognan F. Toxicol Sci 65, 135-150 (2002).

Proteomic analysis of rat heart in ischemia and ischemia-reperfusion using fluorescence two-dimensional difference gel electrophoresis. Sakai J, Ishikawa H, Kojima S, Satoh H, Yamamoto S, Kanaoka M. Proteomics 3, 1318-1324 (2003).

Comparison of hippocampal synaptosome proteins in young-adult and aged rats. Sato Y, Yamanaka H, Toda T, Shinohara Y, Endo T. Neurosci Lett 382, 22-6 (2005).

Proteomics analysis by two-dimensional differential gel electrophoresis reveals the lack of a broad response of Neisseria meningitidis to in vitro-produced AI-2. Schauder S, Penna L, Ritton A, Manin C, Parker F, Renauld-Mongenie G. J Bacteriol 187, 392-5 (2005).

Proteomic signatures for histological types of lung cancer. Seike M, Kondo T, Fujii K, Okano T, Yamada T, Matsuno Y, Gemma A, Kudoh S, Hirohashi S. Proteomics 5, 2939-48 (2005).

Proteomic Analysis of Intestinal Epithelial Cells Expressing Stabilized ß-Catenin. Seike M, Kondo T, Mori Y, Gemma A, Kudoh S, Sakamoto M, Yamada T, Hirohashi S.Cancer Res. 63, 4641 - 4647 (2003).

Proteomic signature of human cancer cells. Seike M, Kondo T, Fujii K, Yamada T, Gemma A, Kudoh S, Hirohashi S. Proteomics 4, 2776-88 (2004).

NADPH Oxidase Activity Is Essential for Keap1/Nrf2-mediated Induction of GCLC in Response to 2-Indol-3-yl-methylenequinuclidin-3-ols. Sekhar KR, Crooks PA, Sonar VN, Friedman DB, Chan JY, Meredith MJ, Starnes JH, Kelton KR, Summar SR, Sasi S, Freeman ML. Cancer Res. 63, 5636 - 5645 (2003).

Two-dimensional fluorescence difference gel electrophoresis analysis of the urine proteome in human diabetic nephropathy. Sharma K, Lee S, Han S, Lee S, Francos B, McCue P, Wassell R, Shaw MA, RamachandraRao S. Proteomics 5, 2648-55 (2005).

Evaluation of saturation labelling two-dimensional difference gel electrophoresis fluorescent dyes. Shaw J, Rowlinson R, Nickson J, Stone T, Sweet A, Williams K, Tonge R. Proteomics 3, 1181-1195 (2003).

Application of fluorescence difference gel electrophoresis saturation labelling for the analysis of microdissected precursor lesions of pancreatic ductal adenocarcinoma. Sitek B, Luttges J, Marcus K, Kloppel G, Schmiegel W, Meyer HE, Hahn SA, Stuhler K. Proteomics 5, 2665-79 (2005).

Identification of dynamic proteome changes upon ligand-activation of Trk-receptors using two-dimensional fluorescence difference gel electrophoresis and mass spectrometry. Sitek B, Apostolov O, Stuhler K, Pfeiffer K, Meyer HE, Eggert A, Schramm A. Mol Cell Proteomics 4, 291-299 (2005).

Alterations of stress related proteins in genetically altered mice revealed by two-dimensional differential in-gel electrophoresis analysis. Skynner H, Rosahl T, Knowles M, Salim K, Reid L, Cothliff R, McAllister G, Guest P. Proteomics 2, 1018-1025 (2002).

Proteomics of breast carcinoma. Somiari RI, Somiari S, Russell S, Shriver CD. J Chromatogr B Analyt Technol Biomed Life Sci 815, 215-25 (2005).

High-throughput proteomic analysis of human infiltrating ductal carcinoma of the breast. Somiari RI, Sullivan A, Russell S, Somiari S, Hu H, Jordan R, George A, Katenhusen R, Buchowiecka R, Arciero C, Brzeski H, Hooke J, Shriver C. Proteomics 3, 1863-1873 (2003).

Quantitative detection of phosphoproteins by combination of two-dimensional difference gel electrophoresis and phosphospecific fluorescent staining. Stasyk T, Morandell S, Bakry R, Feuerstein I, Huck CW, Stecher G, Bonn GK, Huber LA. Electrophoresis 26, 2850-4 (2005).

Unchanged Survival Rates of 14-3-3 Knockout Mice after Inoculation with Pathological Prion Protein. Steinacker P, Schwarz P, Reim K, Brechlin P, Jahn O, Kratzin H, Aitken A, Wiltfang J, Aguzzi A, Bahn E, Baxter HC, Brose N, Otto M. Mol Cell Biol 25, 1339-46 (2005).

The Histidine Kinase Hik34 Is Involved in Thermotolerance by Regulating the Expression of Heat Shock Genes in Synechocystis. Suzuki I, Kanesaki Y, Hayashi H, Hall JJ, Simon WJ, Slabas AR, Murata N. Plant Physiology Preview 138, 1409-21 (2005).

Protein profiling of human postmortem brain using 2-dimensional fluorescence difference gel electrophoresis (2-D DIGE). Swatton JE, Prabakaran S, Karp NA, Lilley KS, Bahn S. Mol Psychiatry 9, 128-143 (2004).

Proteomic analysis of protein expression profiles during Caenorhabditis elegans development using two-dimensional difference gel electrophoresis. Tabuse Y, Nabetani T, Tsugita A. Proteomics 5, 2876-91 (2005).

Integrated genomic and proteomic analyses of gene expression in mammalian cells. Tian Q, Stepaniants SB, Mao M, Weng L, Feetham MC, Doyle MJ, Yi EC, Dai H, Thorsson V, Eng J, Goodlett D, Berger JP, Gunter B, Linseley PS, Stoughton RB, Aebersold R, Collins SJ, Hanlon WA, Hood LE. Mol Cell Proteomics 3, 960-969 (2004).

Validation and development of fluorescence two-dimensional difference gel electrophoresis proteomics technology. Tonge RP, Shaw J, Middleton B, Rowlinson R, Rayner S, Young J, Pognan F, Hawkins E, Currie I, Davison M.Proteomics 1, 377-396 (2001).

Proteomic identification of Bcl2-associated athanogene 2 as a novel MAP kinase-activated protein kinase 2 substrate. Ueda K, Kosako H, Fukui Y, Hattori S.J Biol Chem 279, 41815-41821 (2004).

Difference gel electrophoresis: A single method for detecting changes in protein extracts. Unlu M, Morgan ME, Minden JS. Electrophoresis 18, 2071-2077 (1997).

Quantitative Proteomic Analysis Using Isobaric Protein Tags Enables Rapid Comparison of Changes in Transcript and Protein Levels in Transformed Cells. Unwin RD, Pierce A, Watson RB, Sternberg DW, Whetton AD. Mol Cell Proteomics 4, 924-935 (2005).

Proteomic analysis of long-term vasopressin action in inner medullary collecting duct of Brattleboro rat. Van Balkom BW, Hoffert JD, Chou CL, Knepper MA. Am J Physiol Renal Physiol 286, 216-224 (2004).

Recent advances in 2D electrophoresis: an array of possibilities. Van den Bergh G, Arckens L. Expert Rev Proteomics 2, 243-52 (2005).

Fluorescent two-dimensional difference gel electrophoresis unveils the potential of gel-based proteomics. Van den Bergh G, Arckens L. Current Opinion in Biotechnology 15, 38-43 (2004).

Differential proteomics for studying Drosophila immunity. Vierstraete E, Verleyen P, DE Loof A, Schoofs L. Ann N Y Acad Sci 1040, 504-7 (2005).

A proteomic approach for the analysis of instantly released wound and immune proteins in Drosophila melanogaster hemolymph. Vierstraete E, Verleyen P, Baggerman G, D'Hertog W, Van Den Bergh G, Arckens L, De Loof A, Schoofs L. Proc Natl Acad Sci USA 101, 470-475 (2004).

Proteome and transcriptome analysis of retinoic acid-induced differentiation of human acute promyelocytic leukemia cells, NB4. Wang D, Jensen R, Gendeh G, Williams K, Pallavicini MG. Journal of Proteome Research 3, 627-635 (2004).

Intact-protein based high-resolution three-dimensional quantitative analysis system for proteome profiling of biological fluids. Wang H, Clouthier SG, Galchev V, Misek DE, Duffner U, Min CK, Zhao R, Tra J, Omenn GS, Ferrara JL, Hanash SM. Mol Cell Proteomics 4, 618-25 (2005).

Isolation of rodent airway epithelial cell proteins facilitates in vivo proteomics studies of lung toxicity. Wheelock ÅM, Zhang L, Tran M-U, Morin D, Penn S, Buckpitt AR, Plopper CG. Am J Physiol Lung Cell and Mol Physiol 286, 399-410 (2004).

Functional genomics and proteomics: application in neurosciences. Wilson KE, Ryan MM, Prime JE, Pashby DP, Orange PR, O'Beirne G, Whateley JG, Bahn S, Morris CM. Journal of Neurology Neurosurgery and Psychiatry 75, 529-538 (2004).

Mass spectrometry based expression profiling of clinical prostate cancer. Wright ME, Han DK, Aebersold R. Mol Cell Biol 4, 545-554 (2005).

A hybrid LC-Gel-MS method for proteomics research and its application to protease functional pathway mapping. Wu S, Tang XT, Siems WF, Bruce JE. J Chromatogr B Analyt Technol Biomed Life Sci 822, 98-111 (2005).

Proteomic signature corresponding to alpha fetoprotein expression in liver cancer cells. Yokoo H, Kondo T, Fujii K, Yamada T, Todo S, Hirohashi S. Hepatology 40, 609-17 (2004).

Elucidation of the mechanism of action of a proprietary compound on a liver cell line using 2-D DIGE. Yokota H, Hiramoto M, Yoshida S, Kuromitsu S, Orange P. Life Science News 12, 3-5 (2002).

Quantitative validation of different protein precipitation methods in proteome analysis of blood platelets. Zellner M, Winkler W, Hayden H, Diestinger M, Eliasen M, Gesslbauer B, Miller I, Chang M, Kungl A, Roth E, Oehler R, Reichenbach HD, Wolf E, Arnold GJ. Electrophoresis 26, 2481-9 (2005).

Subcellular proteomic analysis of host-pathogen interactions using human monocytes exposed to Yersinia pestis and Yersinia pseudotuberculosis. Zhang CG, Gonzales AD, Choi MW, Chromy BA, Fitch JP, McCutchen-Maloney SL. Proteomics 5, 1877-88 (2005).

Protein expression profiling of the drosophila fragile X mutant brain reveals upregulation of monoamine synthesis. Zhang YQ, Friedman DB, Wang Z, Woodruff E 3rd, Pan L, O'Donnell J, Broadie. Mol Cell Proteomics 4, 278-290 (2005).

2-D differential in-Gel electrophoresis for the identification of human esophageal squamous cell cancer specific protein markers. Zhou G, Li H, DeCamp D, Chen S, Shu H, Gong Y, Flaig M, Gillespie JW, Hu N, Taylor PR, Emmert-Buck MR, Liotta LA, Petricoin EF 3rd, Zhao Y. Molecular and Cellular Proteomics 1, 117-123 (2002).

The influence of agr and sigma(B) in growth phase dependent regulation of virulence factors in Staphylococcus aureus. Ziebandt AK, Becher D, Ohlsen K, Hacker J, Hecker M, Engelmann S. Proteomics 4, 3034-3047 (2004).

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Papers in press

NEW Expression of the theta class GST isozyme, Yd(f)Yd(f), in low GST dogs. Watanabe T, Ohashi Y, Kosaka T, Arakawa S, Shibaya Y, Yamoto T, Manabe S, Takasaki W. Arch Toxicol (2005), in press.

NEW Comparative proteomics analysis of intra- and inter-individual variation in human cerebrospinal fluid. Hu Y, Malone JP, Fagan AM, Townsend RR, Holtzman DM. Mol Cell Proteomics (2005), in press.

NEW Proteomic analysis reveals a novel role for the actin cytoskeleton in Vincristine resistant childhood leukemia: An in vivo study. Verrills NM, Liem NL, Liaw TYE, Hood B, Lock RB, Kavallaris M. Proteomics (2005), in press.

Analysis of leaf proteome after UV-B irradiation in maize lines differing in sensitivity. Casati P, Zhang X, Burlingame AL, Walbot V. Mol Cell Proteomics (2005), in press.

Protein expression profiling identifies maspin and stathmin as potential biomarkers of adenoid cystic carcinoma of the salivary glands. Nakashima D, Uzawa K, Kasamatsu A, Koike H, Endo Y, Saito K, Hashitani S, Numata T, Urade M, Tanzawa H. Int J Cancer (2005), in press.

Proteomic analysis of parkin knockout mice: alterations in energy metabolism, protein handling and synaptic function. Periquet M, Corti O, Jacquier S, Brice A. J Neurochem (2005), in press.

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