CRiSPy-CUDA: Computing Species Richness in 16S rRNA Pyrosequencing Datasets with CUDA. - Zejun Zheng; Thuy-Diem Nguyen; Bertil Schmidt (PRIB, 2011)

Fast dendrogram-based OTU clustering using sequence embedding. - Thuy-Diem Nguyen; Bertil Schmidt; Chee-Keong Kwoh 001 (BCB, 2014)

SparseHC: A Memory-efficient Online Hierarchical Clustering Algorithm. - Thuy-Diem Nguyen; Bertil Schmidt; Chee Keong Kwoh 001 (ICCS, 2014)

IFACEwat: the interfacial water-implemented re-ranking algorithm to improve the discrimination of near native structures for protein rigid docking. - Chinh Tran To Su; Thuy-Diem Nguyen; Jie Zheng 002; Chee Keong Kwoh 001 (BMC Bioinform., 2014)

Efficient and Accurate OTU Clustering with GPU-Based Sequence Alignment and Dynamic Dendrogram Cutting. - Thuy-Diem Nguyen; Bertil Schmidt; Zejun Zheng; Chee-Keong Kwoh 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2015)

Efficient agglomerative hierarchical clustering for biological sequence analysis - Thuy-Diem Nguyen (2015)