DeepSloop: A Recurrent Neural Network Learns Complex Rules to Detect Stem-Loop-Forming RNA Sequences. - Dezhong Deng; Douglas Holman; David A. Hendrix (BIBM, 2019)

LinearFold: linear-time approximate RNA folding by 5'-to-3' dynamic programming and beam search. - Liang Huang 001; He Zhang; Dezhong Deng; Kai Zhao 003; Kaibo Liu; David A. Hendrix; David H. Mathews (Bioinform., 2019)

miRWoods: Enhanced precursor detection and stacked random forests for the sensitive detection of microRNAs. - Jimmy Bell; Maureen Larson; Michelle Kutzler; Massimo Bionaz; Christiane V. Löhr; David A. Hendrix (PLoS Comput. Biol., 2019)

Improving transformer secondary structure predictions with secondary structure "fixing" task. - Juneki Hong; Dezhong Deng; David A. Hendrix (MLCB, 2023)

Crowdsourcing to predict RNA degradation and secondary structure. - David A. Hendrix (Nat. Mac. Intell., 2023)

Improving deep models of protein-coding potential with a Fourier-transform architecture and machine translation task. - Joseph D. Valencia; David A. Hendrix (PLoS Comput. Biol., 2023)