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Protein secondary structure prediction using deep convolutional neural fields
Sheng Wang, Jian Peng, Jianzhu Ma +1
Protein secondary structure (SS) prediction is important for studying protein structure and function. When only the sequence (profile) information is used as input feature, current…
Predicting diverse M-best protein contact maps
Siqi Sun, Jianzhu Ma, Sheng Wang +1
Protein contacts contain important information for protein structure and functional study, but contact prediction from sequence information remains very challenging. Recently evolu…
AUC-maximized Deep Convolutional Neural Fields for Sequence Labeling
Sheng Wang, Siqi Sun, Jinbo Xu
Deep Convolutional Neural Networks (DCNN) has shown excellent performance in a variety of machine learning tasks. This manuscript presents Deep Convolutional Neural Fields (DeepCNF…
Bermuda: Bidirectional de novo assembly of transcripts with new insights for handling uneven coverage
Qingming Tang, Sheng Wang, Jian Peng +2
Motivation: RNA-seq has made feasible the analysis of a whole set of expressed mRNAs. Mapping-based assembly of RNA-seq reads sometimes is infeasible due to lack of high-quality re…