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Biorxiv : the Preprint Server for Biology|June 19, 2024
Efficient Seeding for Error-Prone Sequences with SubseqHash2Xiang Li, Ke Chen, Mingfu ShaoAlgorithms for Molecular Biology : AMB|June 4, 2020
Context-aware seeds for read mappingHongyi Xin, Mingfu Shao, Carl KingsfordGenome Biology|April 14, 2018
SQUID: transcriptomic structural variation detection from RNA-seqCong Ma, Mingfu Shao, Carl KingsfordJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|October 28, 2016
On Computing Breakpoint Distances for Genomes with Duplicate GenesMingfu Shao, Bernard M E MoretBiorxiv : the Preprint Server for Biology|December 3, 2025
Accurate Reconstruction of Circular RNAs from Complex Rolling Circular Long Reads with CircPlexTasfia Zahin, Irtesam Mahmud Khan, Mingfu ShaoGenome Biology|December 19, 2019
Quantifying the benefit offered by transcript assembly with Scallop-LR on single-molecule long readsLaura H Tung, Mingfu Shao, Carl KingsfordBioinformatics (Oxford, England)|June 30, 2023
Seeding with minimized subsequenceXiang Li, Qian Shi, Ke Chen, et al.Biorxiv : the Preprint Server for Biology|November 22, 2024
Accurate Detection of Tandem Repeats from Error-Prone Sequences with EquiRepZhezheng Song, Tasfia Zahin, Xiang Li, et al.Genome Research|August 21, 2025
Accurate detection of tandem repeats from error-prone sequences with EquiRepZhezheng Song, Tasfia Zahin, Xiang Li, et al.Biorxiv : the Preprint Server for Biology|December 22, 2025
Minimum flow decomposition guided by saturating subflowsKe Chen, Abhishek Talesara, Sanchal Thakkar, et al.Pageof 1,052