An accurate method for identifying recent recombinants from unaligned sequences. - Qian Feng; Kathryn E. Tiedje; Shazia Ruybal-Pesántez; Gerry Tonkin-Hill; Michael F. Duffy; Karen P. Day; Heejung Shim; Yao-Ban Chan (Bioinform., 2022)

NanoSplicer: accurate identification of splice junctions using Oxford Nanopore sequencing. - Yupei You; Michael B. Clark; Heejung Shim (Bioinform., 2022)

Trade-off between conservation of biological variation and batch effect removal in deep generative modeling for single-cell transcriptomics. - Hui Li; Davis J. McCarthy; Heejung Shim; Susan Wei (BMC Bioinform., 2022)

Semi-Supervised Learning Under General Causal Models. - Archer Moore; Heejung Shim; Jingge Zhu; Mingming Gong (IEEE Trans. Neural Networks Learn. Syst., 2025)