An Open-source Collaboration Environment for Metagenomics Research. - Xiaoquan Su; Yongzheng Ma; Hongwei Yang; Xingzhi Chang; Kai Nan; Jian Xu 020; Kang Ning 001 (eScience, 2011)

A machine learning framework of functional biomarker discovery for different microbial communities based on metagenomic data. - Wei Fang; Xingzhi Chang; Xiaoquan Su; Jian Xu 020; Deli Zhang; Kang Ning 001 (ISB, 2012)

Meta-Storms: efficient search for similar microbial communities based on a novel indexing scheme and similarity score for metagenomic data. - Xiaoquan Su; Jian Xu 020; Kang Ning 001 (Bioinform., 2012)

SNP calling using genotype model selection on high-throughput sequencing data. - Na You; Gabriel H. Murillo; Xiaoquan Su; Xiaowei Zeng; Jian Xu 020; Kang Ning 001; Shoudong Zhang; Jiankang Zhu; Xinping Cui (Bioinform., 2012)

Parallel-META: efficient metagenomic data analysis based on high-performance computation. - Xiaoquan Su; Jian Xu 020; Kang Ning 001 (BMC Syst. Biol., 2012)

GPU-Meta-Storms: computing the structure similarities among massive amount of microbial community samples using GPU. - Xiaoquan Su; Xuetao Wang; Gongchao Jing; Kang Ning 001 (Bioinform., 2014)

Microbial community pattern detection in human body habitats via ensemble clustering framework. - Peng Yang; Xiaoquan Su; Le Ou-Yang; Hon Nian Chua; Xiaoli Li 001; Kang Ning 001 (BMC Syst. Biol., 2014)

DNA Extraction Protocol for Biological Ingredient Analysis of Liuwei Dihuang Wan. - Xinwei Cheng; Xiaohua Chen; Xiaoquan Su; Huanxin Zhao; Maozhen Han; Cunpei Bo; Jian Xu 020; Hong Bai; Kang Ning 001 (Genom. Proteom. Bioinform., 2014)

Meta-QC-Chain: Comprehensive and Fast Quality Control Method for Metagenomic Data. - Qian Zhou; Xiaoquan Su; Gongchao Jing; Kang Ning 001 (Genom. Proteom. Bioinform., 2014)

Application of Meta-Mesh on the analysis of microbial communities from human associated-habitats. - Xiaoquan Su; Xiaojun Wang; Gongchao Jing; Shi Huang; Jian Xu 020; Kang Ning 001 (Quant. Biol., 2015)

Condensing Raman spectrum for single-cell phenotype analysis. - Shiwei Sun; Xuetao Wang; Xin Gao 001; Lihui Ren; Xiaoquan Su; Dongbo Bu; Kang Ning 001 (BMC Bioinform., 2015)

MultiGeMS: detection of SNVs from multiple samples using model selection on high-throughput sequencing data. - Gabriel H. Murillo; Na You; Xiaoquan Su; Wei Cui; Muredach P. Reilly; Mingyao Li; Kang Ning 001; Xinping Cui (Bioinform., 2016)

Dynamic Meta-Storms enables comprehensive taxonomic and phylogenetic comparison of shotgun metagenomes at the species level. - Gongchao Jing; Yufeng Zhang; Ming Yang; Lu Liu; Jian Xu 020; Xiaoquan Su (Bioinform., 2020)

Flex Meta-Storms elucidates the microbiome local beta-diversity under specific phenotypes. - Mingqian Zhang; Wenke Zhang; Yuzhu Chen; Jin Zhao; Shunyao Wu; Xiaoquan Su (Bioinform., 2023)

Host-Variable-Embedding Augmented Microbiome-Based Simultaneous Detection of Multiple Diseases by Deep Learning. - Shunyao Wu; Zhiruo Li; Yuzhu Chen; Mingqian Zhang; Yangyang Sun; Jieqi Xing; Fengyang Zhao; Shi Huang; Rob Knight 001; Xiaoquan Su (Adv. Intell. Syst., 2023)

A deep learning framework for predicting disease-gene associations with functional modules and graph augmentation. - Xianghu Jia; Weiwen Luo; Jiaqi Li; Jieqi Xing; Hongjie Sun; Shunyao Wu; Xiaoquan Su (BMC Bioinform., 2024)

TaxaCal: enhancing species-level profiling accuracy of 16S amplicon data. - Qingrong Shen; Xiaoqian Fan; Yangyang Sun; Hao Gao; Xiaoquan Su (BMC Bioinform., 2025)