Secondary structure prediction and in vitro accessibility of mRNA as tools in the selection of target sites for ribozymes

We have investigated the relative merits of two commonly used methods for target site selection for ribozymes: secondary structure prediction (MFold program) and in vitro accessibility assays. A total of eight methylated ribozymes with DNA arms were synthesized and analyzed in a transient co-transfe...

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Veröffentlicht in:	Nucleic acids research 2000-11, Vol.28 (21), p.4113-4124
Hauptverfasser:	Amarzguioui, M, Brede, G, Babaie, E, Grotli, M, Sproat, B, Prydz, H
Format:	Artikel
Sprache:	eng
Schlagworte:	Algorithms Animals Base Sequence Cation Exchange Resins Down-Regulation Fluorescein-5-isothiocyanate Gene Library Genes, Reporter - genetics Genetic Engineering HeLa Cells Humans Lipids Luciferases - genetics Methylation Molecular Sequence Data Nuclease Protection Assays Nucleic Acid Conformation Oligoribonucleotides - administration & dosage Oligoribonucleotides - chemistry Oligoribonucleotides - genetics Oligoribonucleotides - metabolism Promoter Regions, Genetic - genetics Regulatory Sequences, Nucleic Acid - genetics Ribonuclease H - metabolism RNA Stability RNA, Catalytic - administration & dosage RNA, Catalytic - chemistry RNA, Catalytic - genetics RNA, Catalytic - metabolism RNA, Messenger - chemistry RNA, Messenger - genetics RNA, Messenger - metabolism Software Substrate Specificity Thermodynamics Transfection
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