Quantification of splice variants using real-time PCR

Nucleic Acids Research

Volumn 29, Issue 13, 2020, Pages

  Vandenbroucke, Ina I ^a   Vandesompele, Jo ^a   De Paepe, Anne ^a   Messiaen, Ludwine ^a  

^a GHENT UNIVERSITY HOSPITAL   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

ALTERNATIVE RNA SPLICING; ARTICLE; EXON; GENE; GENETIC VARIABILITY; HUMAN; IN VIVO STUDY; NF1 GENE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; RELIABILITY; SENSITIVITY ANALYSIS; ANTIBODY SPECIFICITY; CELL CULTURE; CELL LINE; CEREBELLUM; DNA PROBE; FLUOROMETRY; GENETICS; LEUKOCYTE; LIVER; MELANOCYTE; METABOLISM; METHODOLOGY; PLASMID; POLYMERASE CHAIN REACTION; PRENATAL DEVELOPMENT; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY; STANDARD; TIME; TUMOR SUPPRESSOR GENE;

ISOPROTEIN; MESSENGER RNA; PRIMER DNA;

ALTERNATIVE SPLICING; CELL LINE, TRANSFORMED; CELLS, CULTURED; CEREBELLUM; DNA PRIMERS; DNA PROBES; EXONS; FLUOROMETRY; GENES, NEUROFIBROMATOSIS 1; HUMANS; LEUKOCYTES; LIVER; MELANOCYTES; ORGAN SPECIFICITY; PLASMIDS; POLYMERASE CHAIN REACTION; PROTEIN ISOFORMS; REFERENCE STANDARDS; REPRODUCIBILITY OF RESULTS; RNA, MESSENGER; SENSITIVITY AND SPECIFICITY; TIME FACTORS;

MLCS; MLOWN;

EID: 0035405887     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/29.13.e68     Document Type: Article

References (20)

1. Sambrook, J., Fritsch, E.F. and Maniatis, T. (1989) Molecular Cloning: A laboratory Manual, 2nd Edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, NY.
2. Hod, Y. (1992) A simplified ribonuclease protection assay. Biotechniques, 13, 852-854.
3. Saccomanno, C.F., Bordonaro, M., Chen, J.S. and Nordstrom, J.L. (1992) A faster ribonuclease protection assay. Biotechniques, 13, 846-850.
4. Ferré, F. Quantitative or semi-quantitative PCR: reality versus myth. (1992) PCR Methods Appl., 2, 1-9.
5. Becker-André, M. and Hahlbrock, K. (1989) Absolute mRNA quantification using the polymerase chain reaction (PCR). A novel approach by a PCR aided transcript titration assay (PATTY). Nucleic Acids Res., 17, 9437-9446.
6. Gilliland, G., Perrin, S., Blanchard, K. and Bunn, H.F. (1990) Analysis of cytokine mRNA and DNA: detection and quantitation by competitive polymerase chain reaction. Proc. Natl Acad. Sci. USA, 87, 2725-2729.
7. Higuchi, R., Fockler, C., Dollinger, G. and Watson, R. (1993) Kinetic PCR analysis: real-time monitoring of DNA amplification reactions. Biotechnology, 11, 1026-1030.
8. Heid, C.A., Stevens, J., Livak, K.J. and Williams, P.M. (1996) Real time quantitative PCR. Genome Res., 6, 986-994.
9. Gibson, U.E., Heid, C.A. and Williams, P.M. (1996) A novel method for real time quantitative RT-PCR. Genome Res., 6, 995-1001.
10. Kafert, S., Krauter, J., Ganser, A. and Eder, M. (1999) Differential quantitation of alternatively spliced messenger RNAs using isoformspecific real-time RT-PCR. Anal. Biochem., 269, 210-213.
11. Favy, D.A., Lafarge, S., Rio, P., Vissac, C., Bignon, Y.J. and Bernard-Gallon, D. (2000) Real-time PCR quantification of full-length and exon 11 spliced BRCA1 transcripts in human breast cancer cell lines. Biochem. Biophys. Res. Commun., 274, 73-78.
12. Davis-Taber, R., Choi, W., Feng, J., Hoogenboom, L., Mc Nally, T., Kroeger, P., Shieh, C.C., Simmer, R., Brion, J.D., Sullivan, J.P., Gopalakrishnan, M. and Scott, V.E. (2000) Molecular characterization of human SUR2-containing K(ATP) channels. Gene, 256, 261-270.
13. Marchuk, D.A., Saulino, A.M., Tavakkol, R., Swaroop, M., Wallace, M.R., Andersen, L.B., Mitchell, A.L., Gutmann, D.H., Boguski, M. and Collins, F.S. (1991) cDNA cloning of the type 1 neurofibromatosis gene: complete sequence of the NF1 gene product. Genomics, 11, 931-940.
14. Messiaen, L.M., Callens, T., Mortier, G., Beysen, D., Vandenbroucke, I., Van Roy, N., Speleman, F. and De Paepe, A. (2000) Exhaustive mutation analysis of the NF1 gene allows identification of 95% of mutations and reveals a high frequency of unusual splicing defects. Hum. Mutat., 15, 541-555.
15. Heim, R.A., Kam-Morgan, L.N., Binnie, C.G., Corns, D.D., Cayouette, M.C., Farber, R.A., Aylsworth, A.S., Silverman, L.M. and Luce, M.C. (1995) Distribution of 13 truncating mutations in the neurofibromatosis 1 gene. Hum. Mol. Genet., 4, 975-981.
16. Mankertz, A. and Hillenbrand, B. (2001) Replication of porcine circovirus type 1 requires two proteins encoded by the viral rep gene. Virology, 279, 429-438.
17. Ririe, K.M., Rasmussen, R.P. and Wittwer, C.T. (1997) Product differentiation by analysis of DNA melting curves during the polymerase chain reaction. Anal. Biochem., 245, 154-160.
18. Boddrich, A., Robinson, P.N., Schulke, M., Buske, A., Tinschert, S. and Nurnberg, P. (1997) New evidence for a mutation hotspot in exon 37 of the NF1 gene. Hum. Mutat., 9, 374-377.
19. Upadhyaya, M., Osborn, M., Maynard, J. and Harper, P. (1996) Characterization of six mutations in exon 37 of neurofibromatosis type 1 gene. Am. J. Med. Genet., 67, 421-423.
20. Gutzmer, R., Herbst, R.A., Mommert, S., Kiehl, P., Matiaske, F., Rutten, A., Kapp, A. and Weiss, J. (2000) Allelic loss at the neurofibromatosis type 1 (NF1) gene locus is frequent in desmoplastic neurotropic melanoma. Hum. Genet., 107, 357-361.