Journal
BIOINFORMATICS
Volume 28, Issue 20, Pages 2691-2692Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/bts488
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Funding
- Danish Council for Strategic Research [09-061856]
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PPfold is a multi-threaded implementation of the Pfold algorithm for RNA secondary structure prediction. Here we present a new version of PPfold, which extends the evolutionary analysis with a flexible probabilistic model for incorporating auxiliary data, such as data from structure probing experiments. Our tests show that the accuracy of single-sequence secondary structure prediction using experimental data in PPfold 3.0 is comparable to RNAstructure. Furthermore, alignment structure prediction quality is improved even further by the addition of experimental data. PPfold 3.0 therefore has the potential of producing more accurate predictions than it was previously possible.
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