Methods for characterization of alternative RNA splicing

Methods in Molecular Biology

Volumn 1402, Issue , 2016, Pages 229-241

  Harvey, Samuel E ^a   Cheng, Chonghui ^a  

^a NONE

Author keywords

Alternative splicing; Minigene; regulation; RNA; RT PCR; Splicing; Splicing factors; Variable exon

Indexed keywords

CD44V ANTIGEN; DNA POLYMERASE; RNA; RNA PROBE;

ALTERNATIVE RNA SPLICING; BREAST EPITHELIUM CELL; CONTROLLED STUDY; EXON; GENETIC TRANSFECTION; HUMAN; HUMAN CELL; LABORATORY DEVICE; QUANTITATIVE ANALYSIS; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA EXTRACTION; RNA PURIFICATION; TISSUE CULTURE; ANIMAL; GENETICS; HEK293 CELL LINE; PROCEDURES; RNA PROBE;

ALTERNATIVE SPLICING; ANIMALS; EXONS; HEK293 CELLS; HUMANS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA; RNA PROBES; TRANSFECTION;

EID: 84953277669     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-4939-3378-5_18     Document Type: Chapter

References (10)

1. Wang ET, Sandberg R, Luo S, Khrebtukova I, Zhang L, Mayr C, Kingsmore SF, Schroth GP, Burge CB (2008) Alternative isoform regulation in human tissue transcriptomes. Nature 456(7221):470-476. doi: 10.1038/ nature07509
2. Pan Q, Shai O, Lee LJ, Frey BJ, Blencowe BJ (2008) Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat Genet 40(12):1413-1415. doi: 10.1038/ng.259
3. Liu S, Cheng C (2013) Alternative RNA splicing and cancer. Wiley Interdiscip Rev RNA 4(5):547-566. doi: 10.1002/wrna.1178
4. Keren H, Lev-Maor G, Ast G (2010) Alternative splicing and evolution: diversification, exon definition and function. Nat Rev Genet 11(5):345-355. doi: 10.1038/nrg2776
5. Freeman WM, Walker SJ, Vrana KE (1999) Quantitative RT-PCR: pitfalls and potential. Biotechniques 26(1):112-122, 124-125
6. Wang Z, Burge CB (2008) Splicing regulation: from a parts list of regulatory elements to an integrated splicing code. RNA 14(5): 802-813. doi: 10.1261/rna.876308
7. Cooper TA (2005) Use of minigene systems to dissect alternative splicing elements. Methods 37(4):331-340. doi: 10.1016/j. ymeth.2005.07.015
8. Xu Y, Gao XD, Lee JH, Huang H, Tan H, Ahn J, Reinke LM, Peter ME, Feng Y, Gius D, Siziopikou KP, Peng J, Xiao X, Cheng C (2014) Cell type-restricted activity of hnRNPM promotes breast cancer metastasis via regulating alternative splicing. Genes Dev 28(11):1191-1203. doi: 10.1101/gad.241968.114
9. Okamoto T, Okabe S (2000) Ultraviolet absorbance at 260 and 280 nm in RNA measurement is dependent on measurement solution. Int J Mol Med 5(6):657-659
10. Horner RM (2006) Relative RT-PCR: determining the linear range of amplification and optimizing the primers:competimers ratio. CSH Protoc 2006(1). doi: 10.1101/pdb.prot4109