Detection and quantification of modified nucleotides in RNA using thin-layer chromatography.

No abstract is available for this paper.

• Publication year

  2004

• Venue

  Methods in molecular biology

• Publication date

  Unknown publication date

• Fields of study

  Biology, Medicine, Chemistry

• Identifiers
  DOI 10.1385/1-59259-775-0:357PMID 15103084
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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• Pseudouridylation (Ψ) of U2 snRNA in S.cerevisiae is catalyzed by an RNA‐independent mechanism

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• Mapping pseudouridines in RNA molecules.

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• Determination of nearest neighbors in nucleic acids by mass spectrometry.

  1999cited by this paper
• The RNA Modification Database: 1999 update

  1999cited by this paper
• A liquid chromatography/electrospray mass spectrometric study on the post-transcriptional modification of tRNA.

  1998cited by this paper
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  1998cited by this paper
• Mapping of pseudouridine residues in RNA to nucleotide resolution.

  1998cited by this paper
• Inosine exists in mRNA at tissue‐specific levels and is most abundant in brain mRNA

  1998cited by this paper
• Concomitant changes in polyamine pools and DNA methylation during growth inhibition of human colonic cancer cells.

  1998cited by this paper
• Pleiotropic effects of intron removal on base modification pattern of yeast tRNAPhe: an in vitro study.

  1997cited by this paper
• Quantitative measurement of dihydrouridine in RNA using isotope dilution liquid chromatography-mass spectrometry (LC/MS).

  1996cited by this paper
• Enzymatic formation of modified nucleosides in tRNA: dependence on tRNA architecture.

  1996cited by this paper
• Mobilities of modified ribonucleotides on two-dimensional cellulose thin-layer chromatography.

  1995cited by this paper
• RNA polymerase bypass at sites of dihydrouracil: implications for transcriptional mutagenesis

  1995cited by this paper
• Oxidative base damage in RNA detected by reverse transcriptase.

  1995cited by this paper
• Postlabeling: a sensitive method for studying DNA adducts and their role in carcinogenesis.

  1995cited by this paper
• Classical and novel approaches to the detection and localization of the numerous modified nucleotides in eukaryotic ribosomal RNA.

  1995cited by this paper
• Batchwise purification of specific tRNAs by a solid-phase DNA probe.

  1994cited by this paper
• Structural characterization of modified nucleosides in tRNA hydrolysates by frit-fast atom bombardment liquid chromatography/mass spectrometry.

  1994cited by this paper
• Direct purification of tRNAs using oligonucleotides coupled to magnetic beads

  1994cited by this paper
• Summary: the modified nucleosides of RNA.

  1994cited by this paper
• A novel method for the determination of post-transcriptional modification in RNA by mass spectrometry.

  1993cited by this paper
• Compilation of tRNA sequences and sequences of tRNA genes

  1993cited by this paper
• 2'-O-methylation and inosine formation in the wobble position of anticodon-substituted tRNA-Phe in a homologous yeast in vitro system.

  1991cited by this paper
• O-ribosyl-phosphate purine as a constant modified nucleotide located at position 64 in cytoplasmic initiator tRNAs(Met) of yeasts.

  1991cited by this paper
• Chapter 5 Site Directed Replacement of Nucleotides in the Anti-Codon Loop of Trna: Application to the Study of Inosine Biosynthesis in Yeast TRNAALA

  1990cited by this paper
• Constituents of nucleic acids: overview and strategy.

  1990cited by this paper
• Chapter 3 Nucleic Acid Chromatographic Isolation and Sequence Methods

  1990cited by this paper
• [44] Analysis of RNA hydrolyzates by liquid chromatography-mass spectrometry

  1990cited by this paper
• Chapter 5 Structural Elucidation of Nucleosides in Nucleic Acids

  1990cited by this paper
• Purification of RNA molecules by gel techniques.

  1989cited by this paper
• Primer extension analysis of RNA.

  1989cited by this paper
• Codon recognition patterns as deduced from sequences of the complete set of transfer RNA species in Mycoplasma capricolum. Resemblance to mitochondria.

  1989cited by this paper
• Ribonucleoside analysis by reversed-phase high-performance liquid chromatography.

  1989cited by this paper
• Purifying RNA by column chromatography.

  1989cited by this paper
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  1987cited by this paper
• Analysis of modified nucleosides and nucleotide sequence of tRNA.

  1987cited by this paper
• Halobacterium volcanii tRNAs. Identification of 41 tRNAs covering all amino acids, and the sequences of 33 class I tRNAs.

  1984cited by this paper
• Site‐directed in vitro replacement of nucleosides in the anticodon loop of tRNA: application to the study of structural requirements for queuine insertase activity.

  1983cited by this paper
• Thiolated nucleotides in yeast transfer RNA.

  1983cited by this paper
• RNA processing in microinjected Xenopus oocytes. Sequential addition of base modifications in the spliced transfer RNA.

  1981cited by this paper
• A sequence from Drosophila melanogaster 18S rRNA bearing the conserved hypermodified nucleoside am psi: analysis by reverse transcription and high-performance liquid chromatography.

  1981cited by this paper
• 3H and 32P derivative methods for base composition and sequence analysis of RNA.

  1980cited by this paper
• Reverse transcription of tRNA.

  1978cited by this paper
• A different approach to RNA sequencing

  1978cited by this paper
• Conservation of the primary structure at the 3' end of 18S rRNA from eucaryotic cells.

  1978cited by this paper
• 3'-Phosphatase activity in T4 polynucleotide kinase.

  1977cited by this paper
• An improved method for the separation and quantitation of the modified nucleosides of transfer RNA

  1976cited by this paper
• A double-labeling procedure for sequence analysis of picomole amounts of nonradioactive RNA fragments.

  1976cited by this paper
• An improved separation procedure for nucleoside monophosphates on polyethyleneimine-(PEI-)cellulose thin layers.

  1976cited by this paper
• 2'-O-methylated oligonucleotides in ribosomal 18S and 28S RNA of a mouse hepatoma, MH 134.

  1975cited by this paper
• Replacement of odd bases in tRNA by fluorescent dyes.

  1974cited by this paper
• Heat-induced deamination of cytosine residues in deoxyribonucleic acid.

  1974cited by this paper
• Determination of sequences in RNA

  1972cited by this paper
• Rate of depurination of native deoxyribonucleic acid.

  1972cited by this paper
• The modified nucleosides in nucleic acids

  1971cited by this paper
• Reaction of pseudouridine and inosine with N-cyclohexyl-N'-beta-(4-methylmorpholinium)ethylcarbodiimide.

  1971cited by this paper
• Transfer ribonucleic acid from Mycoplasma laidlawii A.

  1971cited by this paper
• A specific chemical chain scission of tRNA at 7‐methylguanosine

  1970cited by this paper
• Use of polynucleotide kinase in fingerprinting non-radioactive nucleic acids.

  1969cited by this paper
• [43] A two-dimensional fractionation method for radioactive nucleotides

  1967cited by this paper
• Ribonuclease preparation for the base analysis of polyribonucleotides.

  1966cited by this paper
• THE PREPARATION OF AMINO ACID-TRANSFER RIBONUCLEIC ACID FROM ESCHERICHIA COLI BY DIRECT PHENOL EXTRACTION OF INTACT CELLS.

  1963cited by this paper
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  1961cited by this paper

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