255 citations · 265 across the 3 of their papers we have counts for
3 papers
q-bio.BM2022
LinearCoFold and LinearCoPartition: Linear-Time Algorithms for Secondary Structure Prediction of Interacting RNA molecules
He Zhang, Sizhen Li, Liang Zhang +2
Many ncRNAs function through RNA-RNA interactions. Fast and reliable RNA structure prediction with consideration of RNA-RNA interaction is useful. Some existing tools are less accu…
q-bio.BM2020★ 10 cited
ThreshKnot: Thresholded ProbKnot for Improved RNA Secondary Structure Prediction
Liang Zhang, He Zhang, David H. Mathews +1
RNA structure prediction is a challenging problem, especially with pseudoknots. Recently, there has been a shift from the classical minimum free energy-based methods (MFE) to parti…
q-bio.BM2019★ 255 cited
LinearFold: linear-time approximate RNA folding by 5'-to-3' dynamic programming and beam search
Liang Huang, He Zhang, Dezhong Deng +4
Motivation: Predicting the secondary structure of an RNA sequence is useful in many applications. Existing algorithms (based on dynamic programming) suffer from a major limitation:…