Quantitative analysis of miRNA expression in epithelial cells and tissues

Methods in Molecular Biology

Volumn 820, Issue , 2012, Pages 55-70

  Bitzer, Markus ^a   Ju, Wenjun ^b   Jing, Xiaohong ^c   Zavadil, Jiri ^d  

^a UNIVERSITY OF MICHIGAN HEALTH SYSTEM   (United States)

^b UNIVERSITY OF MICHIGAN MEDICAL SCHOOL   (United States)

^c MEMORIAL SLOAN KETTERING CANCER CENTER   (United States)

^d NEW YORK UNIVERSITY MEDICAL CENTER   (United States)

Author keywords

Epithelial cell; Epithelial tissue; microRNA; miRNA; miRNA expression; miRNA target prediction; Pri miRNA expression; Primer3; Quantitative real time PCR; SYBR Green PCR; TaqMan Array MicroRNA Card; TaqMan MicroRNA Assay; TGF

Indexed keywords

MICRORNA; RNA; TRANSFORMING GROWTH FACTOR BETA;

ALGORITHM; ANIMAL; ARTICLE; CHEMISTRY; COMPUTER PROGRAM; DNA MICROARRAY; EPITHELIUM CELL; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENETICS; HUMAN; ISOLATION AND PURIFICATION; METABOLISM; METHODOLOGY; REAL TIME POLYMERASE CHAIN REACTION;

ALGORITHMS; ANIMALS; EPITHELIAL CELLS; GENE EXPRESSION; GENE EXPRESSION PROFILING; HUMANS; MICRORNAS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REAL-TIME POLYMERASE CHAIN REACTION; RNA; SOFTWARE; TRANSFORMING GROWTH FACTOR BETA;

EID: 84555187763     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-61779-439-1_4     Document Type: Article

References (16)

1. Bartel, D.P. (2004) MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116: 281-297.
2. Friedman, R.C., Farh, K.K., Burge, C.B., Bartel, D.P. (2009) Most mammalian mRNAs are conserved targets of microRNAs. Genome Res. 19: 92-105.
3. Lim, L.P., Lau, N.C., Garrett-Engele, P., Grimson, A., Schelter, J.M., Castle, J., Bartel, D.P., Linsley, P.S., Johnson, J.M. (2005) Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs. Nature 433: 769-773. (Pubitemid 40292988)
4. Bartel, D.P. (2009) MicroRNAs: target recognition and regulatory functions. Cell 136: 215-233.
5. Croce, C.M. (2009) Causes and consequences of microRNA dysregulation in cancer. Nat. Rev. Genet. 10: 704-714.
6. Massagué, J. (2008) TGFbeta in Cancer. Cell 134: 215-230.
7. Zavadil, J., Böttinger, E.P. (2005) TGF-beta and epithelial-to-mesenchymal transitions. Oncogene 24: 5764-5774.
8. Livak, K.J., Schmittgen, T.D. (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(?Delta Delta C(T)) Method. Methods 25: 402-408. (Pubitemid 34164012)
9. Griffi ths-Jones, S., Grocock, R.J., van Dongen, S., Bateman, A., Enright, A.J. (2006) miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 34: D140-144.
10. Baek, D., Villén, J., Shin, C., Camargo, F.D., Gygi, S.P., Bartel, D.P. (2008) The impact of microRNAs on protein output. Nature 455: 64-71.
11. Selbach, M., Schwanhäusser, B., Thierfelder, N., Fang, Z., Khanin, R., Rajewsky, N. (2008) Widespread changes in protein synthesis induced by microRNAs. Nature 455: 58-63.
12. Krek, A., Grün, D., Poy, M.N., Wolf, R., Rosenberg, L., Epstein, E.J., MacMenamin, P., da Piedade, I., Gunsalus, K.C., Stoffel, M., Rajewsky, N. (2005) Combinatorial microRNA target predictions. Nature Genet. 37: 495-500. (Pubitemid 40617277)
13. Betel, D., Wilson, M., Gabow, A., Marks, D.S., Sander, C. (2008) The microRNA.org resource: targets and expression. Nucleic Acids Res. 36: D149-153. (Pubitemid 351149712)
14. John, B., Enright, A.J., Aravin, A., Tuschl, T., Sander, C., Marks, D.S. (2004) Human MicroRNA targets. PLoS Biol. 2: e363.
15. Griffi ths-Jones, S., Saini, H.K., van Dongen, S., Enright, A.J. (2008) miRBase: tools for microRNA genomics. Nucleic Acids Res. 36: D154-158. (Pubitemid 351149713)
16. Miranda, K.C., Huynh, T., Tay, Y., Ang, Y.S., Tam, W.L., Thomson, A.M., Lim, B., Rigoutsos, I. (2006) A pattern-based method for the identifi cation of MicroRNA binding sites and their corresponding heteroduplexes. Cell 126: 1203-1217. (Pubitemid 44380294)