RNAStructViz: graphical base pairing analysis
نویسندگان
چکیده
منابع مشابه
Deconvolving RNA Base Pairing Signals
The structure of an RNA sequence encodes information about its biological function. A sequence is typically predicted to fold to a single minimum free energy conformation. But, an increasing number of RNA molecules are now known to fold into multiple stable structures. Discrete optimization methods are commonly used to predict foldings, and adding experimental data as auxiliary information impr...
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An understanding of why adenine (A) pairs with thymine (T) and cytosine (C) with guanine (G) in DNA is very useful in the design of sensors and other related devices. We report the use of dissociation energies, geometries and molecular electrostatic potentials (MEPs) to justify the canonical (AT and CG) Watson-Crick pairs. We also analyze all mismatches in both configurations-cis and trans-with...
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A row of small white volumes marches along one bookshelf in my cluttered office. It is flanked on both ends by slightly larger volumes. The first is labeled “Processing of RNA, Brookhaven Symposia in Biology, Number 26,” the proceedings of a meeting I attended in May, 1974, as a relatively new assistant professor with my undergraduate student David Ginsburg. The other larger volume is “RNA ’96,...
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Let K be a complete field with a discrete valuation v, ring of integers OK , and maximal ideal (πK). Let k := OK/(πK) be the residue field, assumed to be separably closed of characteristic p ≥ 0. Let A/K be any abelian variety of dimension g. Let A/OK denote its Néron model, with special fiber Ak/k and group of components ΦA,K . Let A′/K denote the dual abelian variety, with Néron model A/OK an...
متن کاملAlignment of RNA base pairing probability matrices
MOTIVATION Many classes of functional RNA molecules are characterized by highly conserved secondary structures but little detectable sequence similarity. Reliable multiple alignments can therefore be constructed only when the shared structural features are taken into account. Since multiple alignments are used as input for many subsequent methods of data analysis, structure-based alignments are...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2021
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btab197