Gene expression in formalin-fixed paraffin-embedded lymph nodes

Journal of Immunological Methods

Volumn 359, Issue 1-2, 2010, Pages 42-46

  Antica, Mariastefania ^a   Paradzik, Mladen ^a   Novak, Sanja ^a   Dzebro, Sonja ^b   Dominis, Marija ^b  

^a RUDER BO KOVI INSTITUTE   (Croatia)

^b University of Zagreb   (Croatia)

Author keywords

Gene expression; Lymph nodes; Lymphocytes; Lymphoma; RNA

Indexed keywords

FORMALDEHYDE; PARAFFIN; REAGENT; RNA;

ARTICLE; CONTROLLED STUDY; EMBEDDING; FORMALIN FIXATION PARAFFIN EMBEDDING; GENE EXPRESSION; GENE EXPRESSION PROFILING; HUMAN; HUMAN CELL; HUMAN TISSUE; LYMPH NODE; LYMPHOCYTE; LYMPHOMA; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; REAL TIME POLYMERASE CHAIN REACTION; RETROSPECTIVE STUDY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA EXTRACTION; RNA ISOLATION;

FORMALDEHYDE; GENE EXPRESSION PROFILING; HUMANS; LYMPH NODES; LYMPHOMA; PARAFFIN EMBEDDING; RNA, MESSENGER; RNA, NEOPLASM; TISSUE FIXATION;

EID: 77954384172     PISSN: 00221759     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jim.2010.05.010     Document Type: Article

References (19)

1. Abrahamsen H.N., Steiniche T., Nexo E., Hamilton-Dutoit S.J., Sorensen B.S. Towards quantitative mRNA analysis in paraffin-embedded tissues using real-time reverse transcriptase-polymerase chain reaction: a methodological study on lymph nodes from melanoma patients. The Journal of Molecular Diagnostics 2003, 5:34.
2. Antica M., Cicin-Sain L., Kapitanovic S., Matulic M., Dzebro S., Dominis M. Aberrant Ikaros, Aiolos, and Helios expression in Hodgkin and non-Hodgkin lymphoma. Blood 2008, 111:3296.
3. Beillard E., Pallisgaard N., van der Velden V.H.J., Bi W., Dee R., van der Schoot E., Delabesse E., Macintyre E., Gottardi E., Saglio G., Watzinger F., Lion T., van Dongen J.J.M., Hokland P., Gabert J. Evaluation of candidate control genes for diagnosis and residual disease detection in leukemic patients using /'real-time/' quantitative reverse-transcriptase polymerase chain reaction (RQ-PCR) - a Europe against cancer program. Leukemia 2003, 17:2474.
4. Cairns M.T., Church S., Johnston P.G., Phenix K.V., Marley J.J. Paraffin-embedded tissue as a source of RNA for gene expression analysis in oral malignancy. Oral Diseases 1997, 3:157.
5. Chomczynski P., Sacchi N. Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Analytical Biochemistry 1987, 162:156.
6. Coombs N.J., Gough A.C., Primrose J.N. Optimisation of DNA and RNA extraction from archival formalin-fixed tissue. Nucl. Acids Res. 1999, 27:12.
7. Farragher S., Tanney A., Kennedy R., Paul Harkin D. RNA expression analysis from formalin fixed paraffin embedded tissues. Histochemistry and Cell Biology 2008, 130:435.
8. Foss R.D., Guha-Thakurta N., Conran R.M., Gutman P. Effects of fixative and fixation time on the extraction and polymerase chain reaction amplification of RNA from paraffin-embedded tissue: comparison of two housekeeping gene mRNA controls. Diagnostic Molecular Pathology 1994, 3:148.
9. Koopmans M., Monroe S.S., Coffield L.M., Zaki S.R. Optimization of extraction and PCR amplification of RNA extracts from paraffin-embedded tissue in different fixatives. Journal of Virological Methods 1993, 43:189.
10. Korbler T., Grskovic M., Dominis M., Antica M. A simple method for RNA isolation from formalin-fixed and paraffin-embedded lymphatic tissues. Experimental & Molecular Pathology 2003, 74:336.
11. Masuda N., Ohnishi T., Kawamoto S., Monden M., Okubo K. Analysis of chemical modification of RNA from formalin-fixed samples and optimization of molecular biology applications for such samples. Nucl. Acids Res. 1999, 27:4436.
12. Morgan B., Sun L., Avitahl N., Andrikopoulos K., Ikeda T., Gonzales E., Wu P., Neben S., Georgopoulos K. Aiolos, a lymphoid restricted transcription factor that interacts with Ikaros to regulate lymphocyte differentiation. EMBO Journal 1997, 16:2004.
13. Ng S.Y.-M., Yoshida T., Georgopoulos K. Ikaros and chromatin regulation in early hematopoiesis. Current Opinion in Immunology 2007, 19:116.
14. Ohl F., Jung M., Xu C., Stephan C., Rabien A., Burkhardt M., Nitsche A., Kristiansen G., Loening S., Radonić A., Jung K. Gene expression studies in prostate cancer tissue: which reference gene should be selected for normalization?. Journal of Molecular Medicine 2005, 83:1014.
15. Roberts L., Bowers J., Sensinger K., Lisowski A., Getts R., Anderson M.G. Identification of methods for use of formalin-fixed, paraffin-embedded tissue samples in RNA expression profiling. Genomics 2009, 94:341.
16. Sun L., Goodman P.A., Wood C.M., Crotty M.-L., Sensel M., Sather H., Navara C., Nachman J., Steinherz P.G., Gaynon P.S., Seibel N., Vassilev A., Juran B.D., Reaman G.H., Uckun F.M. Expression of aberrantly spliced oncogenic ikaros isoforms in childhood acute lymphoblastic leukemia. Journal of Clinical Oncology 1999, 17:3753.
17. Votavova H., Forsterova K., Stritesky J., Velenska Z., Trneny M. Optimized protocol for gene expression analysis in formalin-fixed, paraffin-embedded tissue using real-time quantitative polymerase chain reaction. Diagnostic Molecular Pathology 2009, 18:176.
18. Warren L.A., Rothenberg E.V. Regulatory coding of lymphoid lineage choice by hematopoietic transcription factors. Current Opinion in Immunology 2003, 15:166.
19. Winandy S., Wu P., Georgopoulos K. A dominant mutation in the Ikaros gene leads to rapid development of leukemia and lymphoma. Cell 1995, 83:289.