ArticleJournal of the American Society for Mass Spectrometry2013
OMA and OPA--software-supported mass spectra analysis of native and modified nucleic acids.
Article in Journal of the American Society for Mass Spectrometry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
27 citing papers in PubMed.
- tRNA modifications: greasing the wheels of translation and beyond.RNA biology · 2025Review
- Top-Down Characterization of Yeast tRNA by Gas-Phase Fractionation and Collisionally Activated Dissociation Informed by Electron Photodetachment Charge Reduction Mass Spectrometry.Analytical chemistry · 2025Article
- FAST MS: Software for the Automated Analysis of Top-Down Mass Spectra of Polymeric Molecules Including RNA, DNA, and Proteins.Journal of the American Society for Mass Spectrometry · 2025Article
- Nucleo-SAFARI: Automated Identification of Fragment Ions in Top-Down MS/MS Spectra of Nucleic Acids.Analytical chemistry · 2024Article
- Unveiling the intricacy of gapmer oligonucleotides through advanced tandem mass spectrometry approaches and scan accumulation for 2DMS.The Analyst · 2024Article
- Challenges and emerging trends in liquid chromatography-based analyses of mRNA pharmaceuticals.Journal of pharmaceutical and biomedical analysis · 2023Review
- Analysis of RNA Sequences and Modifications Using NASE.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Cholesterol Stationary Phase in the Separation and Identification of siRNA Impurities by Two-Dimensional Liquid Chromatography-Mass Spectrometry.International journal of molecular sciences · 2022Article
- Advancements in the characterisation of oligonucleotides by high performance liquid chromatography-mass spectrometry in 2021: A short review.Analytical science advances · 2022Review
- Locating chemical modifications in RNA sequences through ribonucleases and LC-MS based analysis.Methods in enzymology · 2021Article
- Introducing an In Vitro Liver Stability Assay Capable of Predicting the In Vivo Pharmacodynamic Efficacy of siRNAs for IVIVC.Molecular therapy. Nucleic acids · 2020Article
- POE Immunoassay: Plate-based oligonucleotide electro-chemiluminescent immunoassay for the quantification of nucleic acids in biological matrices.Scientific reports · 2020Article
- A computational platform for high-throughput analysis of RNA sequences and modifications by mass spectrometry.Nature communications · 2020Article
- Application of Locked Nucleic Acid Oligonucleotides for siRNA Preclinical Bioanalytics.Scientific reports · 2019Article
- Detection of ribonucleoside modifications by liquid chromatography coupled with mass spectrometry.Biochimica et biophysica acta. Gene regulatory mechanisms · 2019Review
- Improved application of RNAModMapper - An RNA modification mapping software tool - For analysis of liquid chromatography tandem mass spectrometry (LC-MS/MS) data.Methods (San Diego, Calif.) · 2019Article
- What Hinders Electron Transfer Dissociation (ETD) of DNA Cations?Journal of the American Society for Mass Spectrometry · 2017Article
- Specific Interactions of Antitumor Metallocenes with Deoxydinucleoside Monophosphates.Journal of the American Society for Mass Spectrometry · 2017Article
- Sequence mapping of transfer RNA chemical modifications by liquid chromatography tandem mass spectrometry.Methods (San Diego, Calif.) · 2016Article
- The Contribution of the Activation Entropy to the Gas-Phase Stability of Modified Nucleic Acid Duplexes.Journal of the American Society for Mass Spectrometry · 2016Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The platform-independent software package consisting of the oligonucleotide mass assembler (OMA) and the oligonucleotide peak analyzer (OPA) was created to support the analysis of oligonucleotide mass spectra. It calculates all theoretically possible fragments of a given input sequence and annotates it to an experimental spectrum, thus, saving a large amount of manual processing time. The software performs analysis of precursor and product ion spectra of oligonucleotides and their analogues comprising user-defined modifications of the backbone, the nucleobases, or the sugar moiety, as well as adducts with metal ions or drugs. The ability to expand the library of building blocks and to implement individual structural variations makes it extremely useful for supporting the analysis of therapeutically active compounds. The functionality of the software tool is demonstrated on the examples of a platinated double-stranded oligonucleotide and a modified RNA sequence. Experiments also reveal the unique dissociation behavior of platinated higher-order DNA structures.
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23264149What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.