9
Views
0
CrossRef citations to date
0
Altmetric
Articles

Paraffin Section Molecular Biology: Review of Current Techniques

Pages 263-269 | Published online: 18 Jul 2013

References

  • Sambrook J, Fritsch EF, Maniatis T: Molecular Cloning - A Laboratory Manual. Cold Spring Harbor, New York, 1989.
  • Keller GH, Manak MM: DNA Probes. Stockton Press, New York, 1989.
  • Sklar J: DNA hybridization in diagnostic pathology. Hum Pathol 16:654–658, 1985.
  • Fenoglio-Preiser CM, Willman CL: Molecular biology and the pathologist. General principles and applications. Arch Pathol Lab Med 111:601–618, 1987.
  • Craig RK: Methods in molecular medicine. Br Med J 295 :646–649, 1987.
  • DeLellis RA, Wolfe HJ: Contributions of immunohistochemical and molecular biological techniques to endocrine pathology. J Histochem Cytochem 35:1347–1351, 1987.
  • Southern EM: Detection of specific sequences among DNA fragments separated by gel electrophoresis. J Mol Biol 98:503–517, 1975.
  • Kafatos FC, Jones CW, Efstratiadis A: Determination of nucleic acid sequence homologies and relative concentrations by a dot hybridization procedure. Nucleic Acids Res 7:1541–1552, 1979.
  • Goelz SE, Hamilton SR, Vogelstein B: Purification of DNA from formaldehyde fixed and paraffin embedded human tissues. Biochem Biophys Res Commun 130:118–126, 1985.
  • Dubeau L, Chandler LA, Gralow JR et al: Southern blot analysis of DNA extracted from formalin-fixed pathology specimens. Cancer Res 46:2964–2969, 1986.
  • Dubeau L, Weinberg K, Jones PA, Nichols PW: Studies on immunoglobulin gene rearrangement in formalin-fixed, paraffin-embedded pathology specimens. Am J Pathol 130:588–594, 1988.
  • Warford A, Pringle JH, Hay J et al: Southern blot analysis of DNA extracted from formol-saline fixed and paraffin wax embedded tissue. J Pathol 154:313–320, 1988.
  • Libetta CM, Pringle JH, Angel CA et al: Demonstration of Epstein-Barr viral DNA in formalin-fixed, paraffin-embedded samples of Hodgkin's disease. J Pathol 161:255–260, 1990.
  • Scholefield JH, McIntyre P, Palmer JG et al: DNA hybridization of routinely processed tissue for detecting HPV DNA in anal squamous cell carcinomas over 40 years. J Clin Pathol 43:133–136, 1990.
  • Langer PR, Waldrop AA, Ward DC: Enzymatic synthesis of biotin labelled polynucleotides: Novel nucleic acid affinity probes. Proc Natl Acad Sci USA 78:6633–6637, 1981.
  • Chan VT-W, Fleming KA, McGee JO'D: Detection of sub-picogram quantities of specific DNA sequences on blot hybridization with biotinylated probes. Nucleic Acids Res 13:8083–8091, 1985.
  • Sheldon EL, Kellogg DE, Watson R et al: Use of nonisotopic M13 probes for genetic analysis: Application to HLA class II loci. Proc Natl Acad Sci USA 83:9085–9089, 1986.
  • Bronstein I, McGrath P: Chemiluminescence lights up. Nature 338: 599–600, 1989'.
  • Brigati DJ, Myerson D, Leary JL et al: Detection of viral genomes in cultured cells and paraffin-embedded tissue sections using biotin-labeled hybridization probes. Virology 126:32–50, 1983.
  • Unger ER, Hammer ML, Chenggis ML: Comparison of 355 and biotin as labels for in situ hybridization: Use of an HPV model system. J Histochem Cytochem 39:145–150, 1991.
  • Allan GM, Todd D, Smyth JA et al: In situ hybridization; an optimised detection protocol for a biotinylated DNA probe renders it more sensitive than a comparable 35S-labeled probe. J Virol Methods 24:181–190, 1989.
  • Elias JM: Nonradioactive in situ hybridization for viral detection. In: Immunohistopathology. A Practical Approach to Diagnosis. ASCP Press, Chicago, 1990, pp 404–440.
  • Grody WW, Cheng L, Lewin KJ: In situ viral DNA hybridization in diagnostic surgical pathology. Hum Pathol 18:535–543, 1987.
  • Unger ER, Budgeon LR, Myerson D, Brigati DJ: Viral diagnosis by in situ hybridization. Description of a rapid simplified colorimetric method. Am J Surg Pathol 10:1–8, 1986.
  • Coates PJ, Hall PA, Butler MG, d'Ardenne JA: Rapid technique of DNA-DNA in situ hybridisation on formalin fixed tissue sections using microwave irradiation. J Clin Pathol 40: 865–869, 1987.
  • Garson JA, van den Berghe JA, Kemshead JT: Novel nonisotopic in situ hybridization technique detects small (1Kb) unique sequences in routinely Gbanded human chromosomes: fine mapping of Nmyc and (3-NGF genes. Nucleic Acids Res 15:4761–4770, 1987.
  • Coates PJ, Mak WP, Slavin G, d'Ardenne AJ: Detecting single copies of Epstein-Barr virus in paraffin wax sections by non-radioactive in situ hybridisation. J Clin Pathol 44:487–491, 1991.
  • Warford A: In situ hybridisation: a new tool in pathology. Med Lab Sci 45:381–394, 1988.
  • Emmerich P, Jauch A, Hofman MC et al: Interphase cytogenetics in paraffin embedded sections from human testicular germ cell tumor xenografts and in corresponding cultured cells. Lab Invest 61:235–242, 1989.
  • Lichter P, Cremer T, Borden J et al: Delineation of individual human chromosomes in metaphase and interphase cells by in situ suppression hybridization using recombinant DNA libraries. Hum Genet 80:224–234, 1988.
  • Friedlander ML, Hedley DW, Taylor IW: Clinical and biological significance of aneuploidy in human tumours. J Clin Pathol 37:961–974, 1984.
  • Devilee P, Thieny RF, Kievits T et al: Detection of chromosome aneuploidy in interphase nuclei from human primary breast tumors using chromosome specific repetitive DNA probes. Cancer Res 485825–5830, 1988.
  • Hopman AHN, Poddighe P, Smeets AWGB et al: Detection of numerical chromosome aberrations in bladder cancer by in situ hybridization. Am J Pathol 135:1105–1117, 1989.
  • Dekken HV, Pizzolo JG, Kelsen DP, Melamed MR: Targeted cytogenetic analysis of gastric tumors by in situ hybridization with a set of chromosome-specific DNA probes. Cancer 66: 491–497, 1990.
  • Cremer T, Tesin D, Hopman AHN, Manuelidis L: Rapid interphase and metaphase assessment of specific chromosomal changes in neuroectodermal tumour cells by in situ hybridization with chemically modified DNA probes. Exp Cell Res 176: 199–220, 1988.
  • Dekken H, Bauman JGJ: A new application of in situ hybridization: detection of numerical and structural chromosome aberrations with a combination centromeric-telomeric DNA probe. Cytogenet Cell Genet 48: 188–189, 1989.
  • Tkachuk DC, Westbrook CA, Andreeff M: Detection of bcrabl fusion in chronic myelogeneous leukemia by in situ hybridization. Science 250: 559–562, 1990.
  • Herrington CS, Bums J, Graham AK et al: Interphase cytogenetics using biotin and digoxigenin labelled probes 11: simultaneous differential detection of human and papilloma virus nucleic acids in individual nuclei. J Clin Pathol 42:601–606, 1989.
  • Heiles HBJ, Genersch E, Kessler C, Neumam R, Eggers HJ: In situ hybridization with digoxigenin-labelled DNA of human papillomavirus (HPV 16/18) in HeLa and SiHa cells. Biotechniques 6:978–981, 1988.
  • Morris RG, Arends MJ, Bishop PE et al: Sensitivity of digoxigenin and biotin labelled probes for detection of human papillomavirus by in situ hybridisation. J Clin Pathol 43: 800–805, 1990.
  • Porter HJ, Heryet A, Quantrill AM, Fleming KA: Combined non-isotopic in situ hybridisation and immunohistochemistry on routine paraffin wax embedded tissue: identification of cell type infected by human pawovirus and demonstration of cytomegalovirus DNA and antigen in renal infection J Clin Pathol 43:129–132, 1990.
  • Sato Y, Mukai K, Furuya S, Shimosato Y: The AMeX method: A multipurpose tissue-processing and paraffin-embedding method. III. Extraction and purification of RNA and application to slot-blot hybridization analysis. J Pathol 163:81–85, 1991.
  • Simmons DM, Arriza JL, Swanson LW: A complete protocol for in situ hybridization of messenger RNAs in brain and other tissues with radiolabeled single-stranded RNA probes. J Histotechnol 12: 169–181, 1989.
  • Pfeifer-Ohlsson S, Goustin AS, Rydnert J et al: Spatial and temporal pattern of cellular myc oncogene expression in developing human placenta: implications for embryonic cell proliferation. Cell 38585–596, 1984.
  • Tournier I, Bernuau D, Poliard A et al: Detection of albumin mRNAs in rat liver by in situ hybridization: usefulness of paraffin embedding and comparison of various fixation procedures. J Histochem Cytochem 35:453–459, 1987.
  • Lewis ME, Sherman TG, Watson SJ: In situ hybridization with synthetic oligonucleotides: Strategies and methods. Peptides 6(Suppl 2):75–87, 1985.
  • Guitteny AF, Fouque B, Mougin C et al: Histological detection of messenger RNAs with biotinylated synthetic oligonucleotide probes. J Histochem Cytochem 36:563–571, 1988.
  • Pringle JH, Ruprai AK, Primrose L et al: In situ hybridization of immunoglobulin light chain mRNA in paraffin sections using biotinylated or hapten-labelled oligonucleotide probes. J Pathol 162:197–207, 1990.
  • Martinez J-C, Sawyer H, Evans MF et al: A new system for mRNA detection in routine paraffin sections by non-isotopic in situ hybridization (NISH) using digoxigenin-labeled RNA probes. J Pathol 161:342A, 1990.
  • Saiki RK, Scharf S, Faloona F et al: Enzymatic amplification ofg-globin genomic sequences and restriction site analysis for diagnosis of sickle cell anaemia. Science 230:1350–1354, 1985.
  • Saiki RK, Gelfand DH, Stoffel L et al: Primer-directed enzy-matic amplification of DNA with a thermostable DNA poly-merase. Science 239:487–491, 1988.
  • Coutelle C, Williams C, Handyside A et al: Genetic analysis of DNA from single human oocytes: a model for pre-implan-tation diagnosis of cystic fibrosis. Br Med J 299:22–24, 1989.
  • White TJ, Arnheim N, Erlich HA: The polymerase chain reaction. Trends Genet 5:185–189.
  • Erlich HA (ed). PCR Technology. Principles and Applications for DNA amplification. Stockton Press, New York, 1989.
  • Eisenstein BI: The polymerase chain reaction. A new method of using molecular genetics for medical diagnosis. N Engl J Med 322:178–182, 1990.
  • Goudie RB: The polymerase chain reaction and histopathol-ogy. J Pathol 158:183–184, 1989.
  • Wright PA, Wynford-Thomas D: The polymerase chain reac-tion: Miracle or mirage? A critical review of its uses and limi-tations in diagnosis and research. J Pathol 162:99–117, 1990.
  • Lo YM, Mehal WZ, Fleming KA: Rapid production of vector-free biotinylated probes using the polymerase chain reaction. Nucleic Acids Res 16:8719, 1988.
  • Impraim CC, Saiki RK, Erlich HA, Teplitz RL: Analysis of DNA extracted from formalin-fixed, paraffin-embedded tis-sues by enzymatic amplification and hybridization with se-quence-specific oligonucleotides. Biochem Biophys Res Corn-mun 142:710–716, 1987.
  • Shibata DK, Arnheim N, Martin WJ: Detection of human papilloma virus in paraffin-embedded tissue using the poly-merase chain reaction. J Exp Med 167:225–230, 1988.
  • Coates PJ, d'Ardenne AJ, Khan G et al: Simplified procedures for applying the polymerase chain reaction to routinely fixed paraffin wax sections. J Clin Pathol 44:115–118, 1991.
  • Rogers BB, Alpert LC, Hine EAS, Buffone GJ: Analysis of DNA in fresh and fixed tissue by the polymerase chain reac-tion. Am J Pathol 136:541–548, 1990.
  • De Franchis R, Cfoss NCP, Foulkes NS, Cox TM: A potent inhibitor of Taq polymerase copurifies with human genomic DNA. Nucleic Acids Res 16:10355, 1988.
  • Khan G, Kangro HO, Coates PJ, Heath RB: Inhibitory effects of urine on polymerase chain reaction for cytomegalovirus DNA. J Clin Pathol 44:360–365, 1991.
  • An SF, Fleming ICA: Removal of inhibitor(s) of the polymer-ase chain reaction from formalin fixed, paraffin-embedded tis-sues. J Pathol 163:159A, 1991.
  • Jackson DP, Quirke P, Lewis F etal: Detection of measles vi-rus RNA in paraffin-embedded tissue. Lancet 1:1391, 1989.
  • Jackson DP, Lewis FA, Taylor GR, Boylston AW, Quirke P: Tissue extraction of DNA and RNA and analysis by the poly-merase chain reaction. J Clin Pathol 43:499–504, 1990.
  • Vanvelde C, Verstraete M, Van Beers D: Fast multiplex poly-merase chain reaction on boiled clinical samples for rapid viral diagnosis. J Virol Meth 30:215–228, 1990.
  • Chamberlain J, Gibbs RA, Ranier JE et al: Deletion screening of Duchenne muscular dystrophy locus via multiplex DNA amplification. Nucleic Acids Res 16:141–156, 1988.
  • Kwok S, Higuchi R: Avoiding false positives with PCR. Nature 339:237–238, 1989.
  • Sarkar G, Sommer SS: Shedding light on PCR contamination. Nature 343:27, 1990.
  • Furrer B, Candrian U, Wieland P, Luthy J: Improving PCR efficiency. Nature 346:324, 1990.
  • Lizardi PM, Kramer FR: Exponential amplification of nucleic acids: new diagnostics using DNA polymerases and RNA replicases. Trends Biotechnol 9:53–58, 1991.
  • Compton J: Nucleic acid sequence-based amplification. Na-ture 350:91–92, 1991.
  • Weinberg RA: Oncogenes, antioncogenes, and the molecular basis of multistep carcinogenesis. Cancer Res 49:3713–3721, 1989.
  • Bishop JM: Molecular themes in oncogenesis. Cell 64:235–248, 1991.
  • Cline M, Slamon DJ, Lipsick JS: Oncogenes, implications for the diagnosis and treatment of cancer. Ann Intern Med 101: 223–231, 1984.
  • Feramisco JR, Clark R, Wong G et al: Transient reversion of ras oncogene-induced cell transformation by antibodies spec-ific for amino acid 12 of ras protein. Nature 314:639–641, 1985.
  • Marx J: Oncogenes evoke new cancer therapies. Science 249: 1376–1378, 1990.
  • Woodruff M: Ways forward. In Cellular Variation and Adaptation in Cancer. Biological Basis and Therapeutic Consequences. Oxford University Press, Oxford, 1990, pp 92–106.
  • Burck KB, Liu ET, Larrick JW: Potential therapeutic applica-tions of oncogenes. In Oncogenes. An Introduction to the Con-cept of Cancer Genes. Springer Verlag, London, 1988, pp 262–278.
  • McManaway ME, Neckers LM, Loke SL et al: Tumour-specific inhibition of lymphoma growth by an antisense oligo-deoxynucleotide. Lancet 1:808–811, 1990.
  • Ross DW: Sense and antisense oligonucleotides. Arch Pathol Lab Med 114:1296, 1990.
  • Tanaka K, Oshimura M, Kikuchi R et al: Suppression of tumorigenecity in human colon carcinoma cells by introduc-tion of normal chromosome 5 or 18. Nature 349:340–342, 1991.
  • Weatherall DJ: Gene therapy in perspective. Nature 349:275–276, 1991.
  • Weber J, McClure M: Oncogenes and cancer. Br Med J 294: 1246–1248, 1987.

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.