You Feng Zou

panHiTE detects population-specific transposable elements in large-scale plant genomes, improving sensitivity and precision while reducing redundancy and enabling TE-gene associations.

DMRIntTk integrates DMR sets from different methods using density peak clustering to enhance methylation difference proportions and comprehensiveness.

The paper introduces ccsmeth, a deep-learning method for detecting DNA 5mCpGs using PacBio CCS, achieving high accuracy and AUC, and presents ccsmethphase for haplotype-aware methylation detection.

HiTE improves TE detection accuracy by dynamically adjusting boundaries, identifying more full-length TEs than existing tools in rice.

The paper accelerates RepeatClassifier using Spark and a greedy algorithm with dynamic upper boundary, achieving 42-88x speedup while maintaining accuracy.