Performance evaluation and tuning of BioPig for genomic analysis. - Lizhen Shi; Zhong Wang 003; Weikuan Yu; Xiandong Meng (DISCS@SC, 2015)

A case study of tuning MapReduce for efficient Bioinformatics in the cloud. - Lizhen Shi; Zhong Wang 003; Weikuan Yu; Xiandong Meng (Parallel Comput., 2017)

SpaRC: scalable sequence clustering using Apache Spark. - Lizhen Shi; Xiandong Meng; Elizabeth Tseng; Michael Mascagni; Zhong Wang 003 (Bioinform., 2019)

Comparison and Benchmark of Graph Clustering Algorithms. - Lizhen Shi; Bo Chen (CoRR, 2020)

LSHvec: a vector representation of DNA sequences using locality sensitive hashing and FastText word embeddings. - Lizhen Shi; Bo Chen (BCB, 2021)

DNABERT-S: Learning Species-Aware DNA Embedding with Genome Foundation Models. - Zhihan Zhou 001; Weimin Wu; Harrison Ho; Jiayi Wang; Lizhen Shi; Ramana V. Davuluri; Zhong Wang; Han Liu 001 (CoRR, 2024)