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Review

Gene expression profiling of inflammatory bladder disorders

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Pages 217-235 | Published online: 09 Jan 2014

References

  • Atamas SP. Complex cytokine regulation of tissue fibrosis. Life Sc]. 72, 631–643 (2002).
  • Buckley CD, Pilling D, Lord JM, Akbar AN, Scheel-Toellner D, Salmon M. Fibroblasts regulate the switch from acute resolving to chronic persistent inflammation. Bench Immunol 22, 199–204 (2001).
  • D'Andrea MR, Saban MR, Nguyen N-B, Andrade-Gordon P, Saban R. Expression of protease activated receptor (PAR)s 1, 2, 3 and 4 in control and experimentally inflamed mouse bladder. Am j Pathol (2003) (In Press).
  • Luo W Sharif TR, Sharif M. Substance P- induced mitogenesis in human astrocytoma cells correlates with activation of the mitogen-activated protein kinase signaling pathway. Cancer Res. 56, 4983–4991 (1996).
  • Li X, Lee JW, Graves LM, Earp HS. Angiotensin II stimulates ERK via two pathways in epithelial cells: protein kinase C suppresses a G-protein coupled receptor-EGF receptor transactivation pathway. Emba J. 17, 2574–2583 (1998).
  • Linseman DA, Benjamin CW, Jones DA. Convergence of angiotensin II and platelet-derived growth factor receptor signaling cascades in vascular smooth muscle cells. Biol. Chem. 270, 12563–12568 (1995).
  • Daub H, Weiss FU, Wallasch C, Ullrich A. Role of transactivation of the EGF receptor in signalling by G-protein coupled receptors. Nature 379, 557–560 (1996).
  • Rao GN, Delafontaine P, Runge MS. Thrombin stimulates phosphorylation of insulin-like growth factor-1 receptor, insulin receptor substrate-1 and phospholipase C-[MAGNI in rat aortic smooth muscle cells. Biol. Chem. 270, 27871–27875 (1995).
  • Gailit J, Marchese MJ, Kew RR, Gruber BL. The differentiation and function of myofibroblasts is regulated by mast cell mediators. Invest. Dennatol 117, 1113–1119 (2001).
  • Benoist C, Mathis D. Mast cells in autoimmune disease. Nature 420, 875–878 (2002).
  • Pardo J, Diaz L, Errasti P eta]. Mast cells in chronic rejection of human renal allografts. Virchows krh. 437, 167–172 (2000).
  • Abo-Zenah H, Katsoudas S, Wild G et al Early human renal allograft fibrosis: cellular mediators. Nephron 91, 112–119 (2002).
  • Skold CM, Ohkuni Y, Liu XD, Numerof R, Rennard SI. Co-cultured human mast cells stimulate fibroblast-mediated contraction of collagen gels. Inflammation 25, 47–51 (2001).
  • Frungieri MB, Weidinger S, Meineke V, Kohn FM, Mayerhofer A. Proliferative action of mast-cell tryptase is mediated by PAR2, COX2, prostaglandins and PPARy: possible relevance to human fibrotic disorders. Proc. Natl Acad. Sc]. USA 99, 15072–15077 (2002).
  • Howard PS, Renfrow D, Ford S, Kucich U, Schechter N. Mast cell enzymes alter the connective tissue phenotype of bladder wall fibroblasts and smooth muscle cells. Urology 57, 112–113 (2001).
  • Inoue Y, King TE Jr, Barker E, Daniloff E, Newman LS. Basic fibroblast growth factor and its receptors in idiopathic pulmonary fibrosis and lymphangioleiomyomatosis. Am.Respir. Grit. Care Merl 166, 765–773(2002).
  • Artuc M, Steckelings UM, Henz BM. Mast cell-fibroblast interactions: human mast cells as source and inducers of fibroblast and epithelial growth factors. j Invest. Dermatol 118, 391–395 (2002).
  • Yamamoto T, Hartmann K, Eckes B, Krieg T Role of stem cell factor and monocyte chemoattractant protein-1 in the interaction between fibroblasts and mast cells in fibrosis. J. Dermatol Sc]. 26, 106–111 (2001).
  • Ito A, Jippo T, Wakayama T eta]. SgIGSF: a new mast-cell adhesion molecule used for attachment to fibroblasts and transcriptionally regulated by MITE Blood 100(9), 3175–3182 (2002)
  • Severini C, Improta G, Falconieri-Erspamer G, Salvadori S, Erspamer V. The tachykinin peptide family. Pharmacol Rev 54, 285–322 (2002).
  • Nilsson J, von Euler AM, Dalsgaard CJ. Stimulation of connective tissue cell growth by substance P and substance K. Nature 315, 61–63 (1985).
  • Castagliuolo I, Valenick L, Liu J, Pothoulakis C. Epidermal growth factor receptor transactivation mediates substance P-induced mitogenic responses in U-373 MG cells. J. Bid Chem. 275, 26545–26550 (2000).
  • Nakamura M, Nishida T, Ofuji K, Reid TW, Mannis MJ, Murphy CJ. Synergistic effect of substance P with epidermal growth factor on epithelial migration in rabbit cornea. Exp. Eye Res. 65, 321–329 (1997).
  • Mantyh CR, Gates TS, Zimmerman RP et al. Receptor binding sites for substance P but not substance K or neuromedin K, are expressed in high concentrations by arterioles, venules and lymph nodules in surgical specimens obtained from patients with ulcerative colitis and Crohn disease. Proc. Natl Acad. Sc]. USA 85, 3235–3239 (1988).
  • Sharkey IKA. Substance P and calcitonin gene-related peptide (CGRP) in gastrointestinal inflammation. Ann. NY Acad. Sc]. 664, 425–442 (1992).
  • Kjartansson J, Dalsgaard CJ, Jonsson CE. Decreased survival of experimental critical flaps in rats after sensory denervation with capsaicin. Rast. Reconstr Surg. 79, 218–221 (1987).
  • Benrath J, Zimmermann M, Gillardon F. Substance P and nitric oxide mediate would healing of ultraviolet photodamaged rat skin: evidence for an effect of nitric oxide on keratinocyte proliferation. Neurosci. Lett. 200, 17–20 (1995).
  • Castagliuolo I, Morteau 0, Keates AC eta]. Protective effects of neurokinin-1 receptor during colitis in mice: role of the epidermal growth factor receptor. BE J. Pharmacol 136, 271–279 (2002).
  • Cresswell J, Robertson H, Neal DE, Griffiths TR, Kirby JA. Distribution of lymphocytes of the a (E)13(7) phenotype and E-cadherin in normal human urothelium and bladder carcinomas. Gun. Exp. Immunol 126, 397–402 (2001).
  • Delnay KM, Stonehill WH, Goldman HJ, Ukkola AF, Dmochowski RR. Bladder histological changes associated with chronic indwelling urinary catheter. J. Ural 161, 1106–1108 (1999).
  • Wall BM, Dmochowski RR, Malecha M, Mangold T, Bobal M, Cooke CR. Inducible nitric oxide synthase in the bladder of spinal cord injured patients with a chronic indwelling urinary catheter. J. Ural 165, 1457–1461 (2001).
  • Bhan R, Pisharodi LR, Gudlaugsson E, Bedrossian C. Cytological, histological and clinical correlations in intravesical Bacillus Calmette-Guerin immunotherapy. Ann. Diagnostic Pathol 2,55–60 (1998).
  • Giannantoni A, Di Stasi S, Stephen RL, Navarra P, Scivoltetto G, Mearini E. Intravesical capsaicin versus resinferatoxin in patients with detrusor hyperreflexia. A prostective randomized study. J. Ural 167, 1710–1714 (2002).
  • Vizzard MA. Alterations in neuropeptide expression in lumbosacral bladder pathways following chronic cystitis. J. Chem. Neuroanat. 21, 125–138 (2001).
  • Peeker R, Fall M. Toward a precise definition of interstitial cystitis: further evidence of differences in classic and nonulcer disease. J. Ural 167, 2470–2472 (2002).
  • Tomaszewski JE, Landis JR, Russack V, Williams TM, Wang LP, Hardy C. The Interstitial Cystitis Database Study Group. Biopsy features are associated with primary symptoms in interstitial cystitis: results from the interstitial cystitis database study. Ural 57, 67–81 (2001).
  • •Uses a well-characterized group of IC patients and suggested an important role for certain pathologic features in the predictive modeling of IC symptoms.
  • Baker PM, Young RII. Radiation-induced pseudocarcinomatous proliferations of the urinary bladder: a report of 4 cases. Human Pathol 31, 678–683 (2000).
  • Boone CVV, Kelloff GJ. End point markers for clinical trials of chemopreventive agents derived from the properties of epithelial precancer (intraepithelial neoplasia) measured by computer-assisted image analysis. Cancer Surveys 32, 133–147 (1998).
  • Coussens LM, Werb Z. Inflammatory cells and cancer: think different I Exp. Med. 193, F23–26 (2001).
  • Okragly AJ, Niles AL, Saban R etal. Elevated tryptase, NGF, NT-3 and GDNF levels in the urine of interstitial cystitis and bladder cancer patients. J. Ural 161, 438–441 (1999).
  • •Evidence on urinary levels of tryptase and nerve growth factor in the urine of IC and cancer patients.
  • Birder LA, Kanai AJ, de Groat WC, Kiss S, Nealen ML, Burke NE. Vanilloid receptor expression suggests a sensory role for urinary bladder epithelial cells. PNAS98, 13396–13401 (2001).
  • •Definitive study establishing a sensory role for urothelial cells.
  • Birder LA, Nakamura Y, Kiss S, Nealen ML, Barrick S. Altered urinary bladder function in mice lacking the vanilloid receptor TRPV1. Nature Neurosci. 5,856-860 (2002).
  • Saban R, Undem BJ, Keith IM eta]. Differential release of prostaglandins and leukotrienes by sensitized guinea-pig urinary bladder layers upon antigen challenge.j Ural 152, 544–549 (1994).
  • •The urothelium releases primarily prostaglandins whereas detrusor muscle releases leukotrienes during inflammation.
  • Saban MR, Saban R, Hammond TG et al LPS-sensory peptide communication in experimental cystitis. Am. J. Physiol Renal Physiol 282, F202–210 (2002).
  • Mysorekar IU, Mulvey MA, Hultgren SJ, Gordon JI. Molecular regulation of urothelial renewal and host defenses during infection with uropathogenic Escherichia colt. Biol. Chem. 277, 7412–7419 (2002).
  • Mulvey MA, Schilling JD, Martinez JJ, Hultgren SJ. Bad bugs and beleaguered bladders: Interplay between uropathogenic Escherichia coil and innate host defenses. PNAS97, 8829–8835 (2000).
  • Bjorling DE, Saban MR, Saban R. Neurogenic inflammation of the guinea-pig bladder. Mediators Intlamm. 3, 189–197 (1998).
  • •Early demonstration of the use of animal models for the study of bladder inflammation.
  • Saban R, Franz J, Bjorling DE. Spontaneously released substance P and bradykinin from isolated guinea-pig bladder. Br. J. Ural. 79, 516–524 (1997).
  • •Provides evidence of spontaneous release of peptides in the urinary bladder and the role for neprilysin.
  • van Giersbergen Plm, Buck Sh. Characterization of Tachykinin Receptors: Humana Press, NJ, USA, 39–68 (1994).
  • Severini C, Improta G, Fakonieri-Erspamer G, Salvadori S, Erspamer V. The Tachykinin peptide family. Pharmacol Rev 54, 285–322 (2002).
  • •Latest tachykinin review.
  • Lu B, Figini M, Emanueli C, Geppetti P, Grady EF, Gerard NP The control of microvascular permeability and blood pressure by neutral endopeptidase. Nature Merl 3, 904–907 (1997).
  • Hammond TG, Saban R, Bost KL etal. Substance P dependence of endosomal fusion during bladder inflammation. Am. J Physiol Renal Physiol 278, F440–451 (2000).
  • •Evidence indicating that NK1R can change the fusion properties of urothelial cell membranes.
  • Marchand JE, Sant GR, Kream RM. Increased expression of substance P receptor-encoding mRNA in bladder biopsies from patients with interstitial cystitis. Br. Ural. 81, 224–228 (1998) .
  • Abbadie C, Brown JL, Mantyh PW, Basbaum Pd. Spinal cord substance P receptor immunoreactivity increases in both inflammatory and nerve injury models of persistent pain. Neuroscience 70, 201–209 (1996).
  • Saban MR, Nguyen NB, Hammond TG, Saban R. Gene expression profiling of mouse bladder inflammatory responses to LPS, substance P and antigen-stimulation. Am. J Farhat. 160, 2095–2110 (2002).
  • •Common genes responding during acute and chronic bladder inflammation.
  • Iwata N, Tsubuki S, Takaki Y, Shirotani K, Lu B. Metabolic regulation of brain Ab by neprilysin. Science 292, 1550–1552 (2001).
  • •Demonstration that neprilysin is involved in the metabolism of beta amiloyd peptide.
  • Ihara H, Nakanishi S. Selective inhibition of expression of the SP receptor mRNA in pancreatic acinar AR42J cells by glucocorticoids. j Biol. Chem. 265, 22441–22445 (1990).
  • Hwang L, Leichter R, Okamoto A, Payan D, Collins SM. Downregulation of neutral endopeptidase (EC 3.4.24.11) in the inflammed rat intestine. Am. J Physiol 264, G735—G743 (1993).
  • Saban R, Dick EC, Fishleder RI, Buckner CK. Enhancement by parainfluenza 3 infection of contractile responses to substance P and capsaicin in airway smooth muscle from the guinea-pig. Am. Rev Respir. Dis. 136, 586–591 (1987).
  • •Early demontration indicating alteration in neprilysin activity during viurs infection.
  • Sturiale S, Barbara G, Qiu B, Figini M, Geppetti P Neutral endopeptidase (EC 3.4.24.11) terminates colitis by degrading substance P. PNAS 96, 11653–11658 (1999).
  • Metcalfe DD, Baram D, Mekori YA. Mast cells. Physiol Rev 77, 1033–1079 (1997).
  • Keith IM, Jin J, Saban R. Nerve-mast cell interaction in normal guinea-pig urinary bladder. J. Comp. Neural. 363, 28–36 (1995).
  • Batler RA, Sengupta S, Forrestal SG, Schaeffer AJ, Klumpp DJ. Mast cell activation triggers a urothelial inflammatory response mediated by tumor necrosis factor-a. J Ural. 168, 819–825 (2002).
  • •Provides evidence for a role of mast cells in urothelial inflammation.
  • Schwartz LB, Irani AM, Roller K, Castells MC, Schechter NM. Quantitation of histamine, tryptase and chymase in dispersed human T and TC mast cells. J Immunal 138, 2611–2615 (1987).
  • Caughey GH. Of mites and men: trypsin- like proteases in the lungs. Am. J Respir. Cell Mal Biol. 16, 621–628 (1997).
  • Steinhoff M, Vergnolle N, Young SH, Tognetto M, Amadesi S, Ennes HS. Agonists of proteinase-activated receptor 2 induce inflammation by a neurogenic mechanism. Nature Merl 6,151-158 (2000). http://highwire.stanford.edu/
  • Theoharides TC. The mast cell: a neuroimmunoendocrine master player. Int. J Tissue React. 18, 1–21 (1996)
  • Yamada T, Murayama T, Mita H, Akiyama K. Subtypes of bladder mast cells in interstitial cystitis. I. Inter. J Ural. 7, 292–297 (2000).
  • Saban R, Gerard NP, Saban MR, Nguyen NB, DeBoer DJ, Wershil BK. Mast cells mediate substance P-induced bladder inflammation through an NK(1) receptor-independent mechanism. Am. J Physiol Renal Physiol 283, F616-629 (2002).
  • •Introducing a new mouse model presenting NK1 receptors in all cells except on the mast cell.
  • Saban R, Saban MR, Nguyen NB, Hammond TG, Wershil BK. Mast cell regulation of inflammation and gene expression during antigen-induced bladder inflammation in mice. Physiol Cenomics 7, 35–43 (2001).
  • •The definitive study establishing the role of mast cells in cystitis.
  • Lee DM, Friend DS, Gurish ME, Benoist C, Mathis D, Brenner MB. Mast cells: a cellular link between autoantibodies and inflammatory arthritis. Science 297, 1689–1692 (2002).
  • Jaggar SI, Sellaturay S, Rice AS. The endogenous cannabinoid anandamide but not the CB2 ligand palmitoylethanolamide, prevents the viscero-visceral hyper-reflexia associated with inflammation of the rat urinary bladder. Neurosci. Lett. 253, 123–126 (1998).
  • Johnson OL, Berkley KJ. Estrous influences on micturition thresholds of the female rat before and after bladder inflammation. Am. I Physiol 282, 289–294 (2002).
  • Yoshimura N, de Groat WC. Increased excitability of afferent neurons innervating rat urinary bladder after chronic bladder inflammation. J Neurosci. 19, 4644–4653 (1999).
  • DuPont MC, Spitsbergen JM, Kim KB, Tuttle JB, Steers WD. Histological and neurotrophic changes triggered by varying models of bladder inflammation. J Ural 166, 1111–1118 (2001).
  • Wang XC, Saban R, Kaysen JH, Saban MR, Allen PL, Benes EN, Hammond TG. Nuclear factor kappa B mediates lipopolysaccharide-induced inflammation in the urinary bladder. J Ural 163, 993–998 (2000).
  • •First report indicating a role for NE-kappaB in bladder inflammation.
  • Betz SA, See WA, Cohen MB. Granulomatous inflammation in bladder wash specimens after intravesical Bacillus Calmette-Guerin therapy for transitional cell carcinoma of the bladder. Am. J. Clin. Pathol 99,244–248 (1993).
  • Wheeler MA, Yoon JH, Olsson LE, Weiss RM. Cyclooxygenase-2 protein and prostaglandin E(2) production are upregulated in a rat bladder inflammation model. Eur j Pharmacol 417,239–248 (2001).
  • Jaggar SI, Scott HC, James IF, Rice AS. The capsaicin analogue 5DZ249-665 attenuates the hyper-reflexia and referred hyperalgesia associated with inflammation of the rat urinary bladder. Pain 89,229–235 (2001).
  • Jaggar SI, Scott HC, Rice AS. Inflammation of the rat urinary bladder is associated with a referred thermal hyperalgesia which is nerve growth factor dependent. BE J. Anaesth. 83,442–448 (1999).
  • Bettex-Galland M, Studer UE, Walz A, Dewald B, Baggiolini M. Neutrophil-activating peptide-1/interleukin-8 detection in human urine during acute bladder inflammation caused by transurethral resection of superficial cancer and Bacillus Calmette-Guérin administration. Eur. Ural 19,171–175 (1991).
  • Bajory Z, Hutter J, Krombach F, Messmer K. The role of endothelin-1 in ischaemia-reperfusion induced acute inflammation of the bladder in rats.J Uml. 168,1222–1225 (2002).
  • Fodor SA. Massively parallel genomics. Science 277,393–395 (1997).
  • Alter 0, Brown PO, Botstein D. Singular value decomposition for genome-wide expression data processing and modeling. PNAS97, 10101–10106 (2000).
  • Diehn M, Eisen MB, Botstein D, Brown PO. Large-scale identification of secreted and membrane-associated gene products using DNA microarrays. Nature Genet. 25 (2000).
  • Celis JE, Kruhoffer M, Gromova I, Frederiksen C, Ostergaard M, Thykjaer T Gene expression profiling: monitoring transcription and translation products using DNA microarrays and proteomics. E PERS Letters 480,2–16 (2000).
  • Marton MJ, DeRisi JL, Bennett HA, Iyer VR, Meyer MR, Roberts CJ. Drug target validation and identification of secondary drug target effects using DNA microarrays. Nature Med. 4,1293–1301 (1998).
  • Lashkari DA, DeRisi JL, McCusker JH, Namath AF, Gentile C, Hwang SY. Yeast microarrays for genome wide parallel genetic and gene expression analysis. PNAS 94,13057–13062 (1997).
  • Lipshutz RJ, Fodor SP, Gingeras TR, Lockhart DJ. High density synthetic oligonucleotide arrays. Nature Genet. 21, 20–24 (1999).
  • Eisen MB, Spellman PT, Brown PO, Botstein D. Cluster analysis and display of genome-wide expression patterns. PNAS 95,14863–14868 (1998).
  • Iyer VR, Eisen MB, Ross DT eta]. The transcriptional program in the response of human fibroblasts to serum. Science 283, 83–87 (1999).
  • Tamayo P, Slonim D, Mesirov J, Zhu Q, Kitareewan S, Dmitrovsky E. Interpreting patterns of gene expression with self-organizing maps: Methods and application to hematopoietic differentiation. PNAS96, 2907–2912 (1999).
  • •Introducing self organizing maps for clustering results obtained with naicroarray technology.
  • Slonim DK. From patterns to pathways: gene expression data analysis comes of age. Natum Genet. 32 (Suppl. 2), 502–508 (2002).
  • Gerhold DL, Jensen RV, Gullans SR. Better therapeutics through microarrays. Nature Genet. 32 (Suppl. 2), 547–551 (2002).
  • Saban MR, Hellmich H, Nguyen NB, Winston J, Hammond TG, Saban R. Time course of LPS-induced gene expression in a mouse model of genitourinary inflammation. Physiol Genomic55, 147–160 (2001).
  • •Early, intermediate, and late genes responding to intravesical LPS.
  • Dozmorov I, Saban MR, Gerard NP eta]. Neurokinin 1 receptors and neprilysin modulation of mouse bladder gene-regulation. Physiol Genomics 1412002 (2002).
  • Churchill GA. Fundamentals of experimental design for cDNA microarrays. Natum Genet. 32 (Suppl. 2), 490–495 (2002).
  • Quackenbush J. Microarray data normalization and transformation. Nature Genet. 32 (Suppl. 2), 496–501 (2002).
  • Chuaqui RF, Bonner RF, Best CJ eta] Post- analysis follow-up and validation of microarray experiments. Nature Genet. 32\(Suppl. 2), 509–514 (2002).
  • Cox JM, Clayton CL, Tomita T, Wallace DM, Robinson PA, Crabtree JE. DNA array analysis of cag pathogenicity island—associated Helicobacter pylori epithelial cell response genes. Infect. Immunity69, 6970–6980 (2001). an Eckmann L, Smith JR, Housley MP, Dwinell MB, Kagnoff ME. Analysis by high density cDNA arrays of altered gene expression in human intestinal epithelial cells in response to infection with the invasive enteric bacteria Salmonella. Biol. Chem. 275,14084-14094 (2000).
  • Boer JM, Huber WK, Sultmann H, Wilmer F, von Heydebreck A, Haas S. Identification and classification of differentially expressed genes in renal cell carcinoma by expression profiling on a global human 31,500—element cDNA array. Genome Res.1(11), 1861–1870 (2001).
  • Simeonova PP, Wang S, Toriuma W Kommineni V, Matheson J, Unimye N. Arsenic mediates cell proliferation and gene expression in the bladder epithelium: association with activating protein-1 transactivation. Cancer Res. 60,3445-3453 (2000).
  • Thykjaer T, Workman C, Kruhoffer M, Demtroder K, Wolf H, Andersen LD. Identification of gene expression patterns in superficial and invasive human bladder cancer. Cancer Res. 61,2492–2499 (2001).
  • Liang G, Gonzales FA, Jones PA, Orntoft T, Thykjaer T Analysis of gene induction in human fibroblasts and bladder cancer cells exposed to the methylation inhibitor 5-aza-2 --deoxycytidine. Cancer Res. 62, 961–966 (2002).
  • Orntoft TF, Thykjaer T, Waldman FM, Wolf H, Celis JE. Genome-wide study of gene copy numbers, transcripts and protein levels in pairs of non-invasive and invasive human transitional cell carcinomas. Mal Cellular Proteomics 1,37–45 (2002).
  • Dyrskjot L, Thykjaer T, Kruhoffer M eta]. Identifying distinct classes of bladder carcinoma using microarrays. Nature Genet. 33(1), 90–96 (2003).
  • Harding MA, Arden KC, Gildea JW et al Functional genomic comparison of lineage-related human bladder cancer cell lines with differing tumorigenic and metastatic potentials by spectral karyotyping, comparative genomic hybridization and a novel method of positional expression profiling. Cancer Res. 62, 6981–6989 (2002).
  • Sanchez-Carbayo M, Socci ND, Charytonowicz E et al Molecular profiling of bladder cancer using cDNA microarrays: defining histogenesis and biological phenotypes. Cancer Res. 62, 6973–6980 (2002).
  • Simeonova PP, Wang S, Toriuma W etal Arsenic mediates cell proliferation and gene expression in the bladder epithelium: association with activating protein-1 transactivation. Cancer Res. 60, 3445–3453 (2000). iii Emmert-Buck MR, Bonner RF, Smith PD, Chuaqui RF, Zhuang Z, Goldstein SR. Laser capture microdissection. Science 274, 998–1001 (1996).
  • Wong MET, Saam JR, Stappenbeck TS, Rexer CH, Gordon JI. Genetic mosaic analysis based on Cre recombinase and navigated laser capture microdissection. PNAS97, 12601–12606 (2000).
  • Van Gelder RN, von Zastrow ME, Yool A, Dement WC, Barchas JD, Eberwine JH. Amplified RNA synthesized from limited quantities of heterogeneous cDNA. PNAS 87, 1663–1667 (1990).
  • Crino PB, Trojanowski JQ, Dichter MA, Eberwine J. Embryonic neuronal markers in tuberous sclerosis: single-cell molecular pathology. PNAS93, 14152–14157 (1996).
  • Luo L, Salunga RC, Guo H, Bittner A, Joy K, Galindo JE. Gene expression profiles of laser-captured adjacent neuronal subtypes. Nature Med. 5, 117–122 (1999).
  • Ohyama H, Zhang X, Kohno Y, Alevizos I, Posner M, Wong DT Laser capture microdissection-generated target sample for high-density oligonucleotide army hybridization. Rio Techniques 29, 530–536 (2000).
  • Chenchik A, Zhu YY, Diachenko L, Li R, Hill J, Siebert PD. Generation and Use of 146-Quality cDNA from Small Amounts of Total RNA by SMART PCR. BioTechniques Books, Westborough, 305–319 (1998).
  • Endege WO, Steinmann KE, Boardman LA, Thibodeau SN, Schlegel R. Representative cDNA libraries and their utility in gene expression profiling. Biotechniques 26, 542–548 (1999).
  • Franz 0, Bruchhaus II, Roeder T Verification of differential gene transcription using virtual northern blotting. Nucleic Acids Res. 27, e3 (1999).
  • Hung HL, Song F, Gewirtz A. A method for identifying differentially expressed genes in rare populations of primary human hematopoietic cells. Leukemia 13, 295–297 (1999).
  • Spirin KS, Ljubimov AV, Castellon R, Wiedoeft 0, Marano M, Sheppard D. Analysis of gene expression in human bullous keratopathy corneas containing limiting amounts of RNA. Invest. Ophthalmol Visual ScL 40, 3108–3115 (1999).
  • Vernon SD, Unger ER, Rajeevan M, Dimulescu IM, Nisenbaum R, Campbell CE. Reproducibility of alternative probe synthesis approaches for gene expression profiling with arrays. j Mal Diagn. 2, 124–127 (2000).
  • Celis JE, Celis P, Ostergaard M, Basse B, Lauridsen JB, Ratz G. Proteomics and immunohistochemistry define some of the steps involved in the squamous differentiation of the bladder transitional epithelium: a novel strategy for identifying metaplastic lesions. Cancer Res. 59, 3003–3009 (1999).
  • Stephan JP, Schanz S, Wong A, Schow P, Wong WL. Development of a frozen cell array as a high-throughput approach for cell-based analysis. Am. j Pathol 161, 787–797 (2002).
  • Vlahou A, Schellhammer PF, Mendrinos S, Patel K, Kondylis FT, Gong L. Development of a novel proteomic approach for the detection of transitional cell carcinoma of the bladder in urine. Am. Pathol 158, 1491–1502 (2001).
  • Nocito A, Bubendorf L, Maria Tinner E et al Microarrays of bladder cancer tissue are highly representative of proliferation index and histological grade. I Path& 194, 349–357 (2001).
  • Richter J, Wagner U, Kononen J, Fijan A, Bruderer J, Schmid U. High-throughput tissue microarray analysis of cyclin E gene amplification and overexpression in urinary bladder cancer. Am. j Pathol 157, 787–794 (2000).
  • Simon R, Richter J, Wagner U, Fijan A, Bruderer J, Schmid U. High-throughput tissue microarray analysis of 3p25 (RAF1) and 8p12 (FGFR1) copy number alterations in urinary bladder cancer. Cancer Res. 61, 4514–4519 (2001).
  • Gillespie JW, Best CJ, Bichsel VE, Cole Greenhut SF, Hewitt SM. Evaluation of non-formalin tissue fixation for molecular profiling studies. Am. j Pathol 160, 449–457 (2002).
  • Service RE High-speed biologists search for gold in proteins. News Focus. Science 294, 2074–2077 (2001).
  • Haak-Frendscho M, Saban R, Shields RL, Jardieu PM. Anti-immunoglobulin E antibody treatment blocks histamine release and tissue contraction in sensitized mice. Immunology94, 115–121 (1998).
  • Johnson JR, Brown JJ. Defining inoculation conditions for the mouse model of ascending urinary tract infection that avoid immediate vesicoureteral reflux yet produce renal and bladder infection. Infect. Dis. 173, 746–749 (1996).
  • Bernard R. Hypothesis Testing for Correlation Coefficients. PWS Publishers, Boston, 443–455 (1990).
  • Little SR, Eisen AN. Preparation of immunogenic 2,4-dinitrophenyl and 2,4,6-trinitrophenyl proteins. Meth. ImmunaL Immunochem. 1, 128–133 (1967).
  • Brazma A, Hingamp P, Quackenbush J, Sherlock G, Spellman PT, Stoeckert C. Minimum information about a microarray experiment (MIAME)-toward standards for microarray data. Nature Genet. 29, 365–371 (2001). http://highwire.stanford.edu/).
  • •Comprehensive summary of the necessary microarray information.
  • Service RE High-speed biologists search for gold in proteins. News Focus. Science 294, 2074–2077 (2001).
  • Emmert-Buck MR, Bonner RF, Smith PD, Chuaqui RF, Zhuang Z and Goldstein SR. Laser capture microdissection. Science 274, 998–1001 (1996).
  • Keith IM, Jin J and Saban R. Nerve-mast cell interaction in normal guinea pig urinary bladder. I Comp. Neural 363, 28–36 (1995).
  • •Electron microscopy demonstration of close association between mast cell and nerves in the urinary bladder.
  • Wong MH, Saam JR, Stappenbeck TS, Rexer CH, Gordon JI. Genetic mosaic analysis based on Cre recombinase and navigated laser capture microdissection. PNAS97, 12601–12606 (2000).
  • Van Gelder RN, von Zastrow ME, Yool A, Dement WC, Barchas JD and Eberwine JH. Amplified RNA synthesized from limited quantities of heterogeneous cDNA. PNAS87, 1663–1667 (1990).
  • Crino PB, Trojanowski JQ, Dichter MA and Eberwine J. Embryonic neuronal markers in tuberous sclerosis: single-cell molecular pathology. PNAS93, 14152–14157 (1996).
  • Luo L, Salunga RC, Guo H, Bittner A, Joy K and Galindo JE. Gene expression profiles of laser-captured adjacent neuronal subtypes. Nature Med. 5,117–122 (1999).
  • Ohyama H, Zhang X, Kohno Y, Alevizos I, Posner M and Wong DT Laser capture microdissection-generated target sample for high-density oligonucleotide array hybridization. Rio Techniques 29,530–536 (2000).
  • Chenchik A, Zhu YY, Diachenko L, Li R, Hill J and Siebert PD. Generation and use of high-quality cDNA from small amounts of total RNA by SMART PCR.. BioTechniques Books, Westborough, (1998).
  • Endege WO, Steinmann KE, Boardman LA, Thibodeau SN and Schlegel R. Representative cDNA libraries and their utility in gene expression profiling. Rio Techniques 26,542–548 (1999).
  • Franz 0, Bruchhaus II and Roeder T Verification of differential gene transcription using virtual northern blotting. Nucleic Acids Res. 27, e3 (1999).
  • Hung HL, Song F and Gewirtz A. A method for identifying differentially expressed genes in rare populations of primary human hematopoietic cells. Leukemia 13,295–297 (1999).
  • Spirin KS, Ljubimov AV, Castellon R, Wiedoeft 0, Marano M and Sheppard D. Analysis of gene expression in human bullous keratopathy corneas containing limiting amounts of RNA. Invest. Ophthalmol Visual Science 40,3108–3115 (1999).
  • Vernon SD, Unger ER, Rajeevan M, Dimulescu IM, Nisenbaum R, Campbell CE. Reproducibility of alternative probe synthesis approaches for gene expression profiling with arrays. j Mal Diagnostics 2, 124–127 (2000).
  • Celis JE, Kruhoffer M, Gromova I, Frederiksen C, Ostergaard M and Thykjaer T Gene expression profiling: monitoring transcription and translation products using DNA microarrays and proteomics. FEBS Letters 480,2–16 (2000).
  • Orntoft TF, Thykjaer T, Waldman FM, Wolf H and Celis JE. Genome-wide study of gene copy numbers, transcripts, and protein levels in pairs of non-invasive and invasive human transitional cell carcinomas. Mal Cellular Proteomics 1,37–45 (2002).
  • Celis JE, Celis P, Ostergaard M, Basse B, Lauridsen JB and Ratz G. Proteomics and immunohistochemistry define some of the steps involved in the squamous differentiation of the bladder transitional epithelium: a novel strategy for identifying metaplastic lesions. Cancer Res. 59,3003–3009 (1999).
  • •Comprehensive review of bladder proteomics.
  • Stephan JP, Schanz S, Wong A, Schow P and Wong WL. Development of a frozen cell array as a high-throughput approach for cell-based analysis. Am j Barba 161,787–797 (2002).
  • Vlahou A, Schellhammer PF, Mendrinos S, Patel K, Kondylis FT and Gong L. Development of a novel proteomic approach for the detection of transitional cell carcinoma of the bladder in urine. Am. .1. Barba 158,1491–502 (2001).
  • Nocito A, Bubendorf L, Maria Tinner E et al. Microarrays of bladder cancer tissue are highly representative of proliferation index and histological grade. I Barba 194, 349–357 (2001).
  • Richter J, Wagner U, Kononen J, Fijan A, Bruderer J and Schmid U. High-throughput tissue microarray analysis of cyclin E gene amplification and overexpression in urinary bladder cancer. Am. Barba 157,787–794 (2000).
  • Simon R, Richter J, Wagner U, Fijan A, Bruderer J, Schmid U. High-throughput tissue microarray analysis of 3p25 (RAF1) and 8p12 (FGFR1) copy number alterations in urinary bladder cancer. Cancer Res. 61,4514–4519 (2001).
  • Gillespie JW, Best CJ, Bichsel VE, Cole Greenhut SF, Hewitt SM. Evaluation of non-formalin tissue fixation for molecular profiling studies. Am. j Athol 160,449–457 (2002).

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