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成果及论文
  1. Host Variable-Embedding Augment Microbiome-Based Simultaneous Detection of Multiple Disease by Deep Learning. Advanced Intelligent Systems 2023

  2. Discovering Microbe-disease Associations with Weighted Graph Convolution Networks and Taxonomy Common Tree. Current Bioinformatics 2023

  3. Gut microbiome predicts selenium supplementation efficiency across different Chinese adult cohorts using hybrid modeling and feature refining. Front Microbiol 2023

  4. Comprehensive Assessment of 16S rRNA Gene Amplicon Sequencing for Microbiome Profiling across Multiple Habitats. Microbiology Spectrum 2023

  5. Flex Meta-Storms elucidates the microbiome local beta-diversity under specific phenotypes. Bioinformatics 2023

  6. Parallel-Meta Suite: Interactive and rapid microbiome data analysis on multiple platforms. iMeta 2022

  7. Comprehensive understanding to the public health risk of environmental microbes via a microbiome-based index. Journal of genetics and genomics 2022

  8. Search-based health status detection and disease classification using species-level profiles of metagenomes. Medicine in Microecology 2022

  9. mzMD: visualization-oriented MS data storage and retrieval. Bioinform 2022

  10. MultiTrans: An Algorithm for Path Extraction Through Mixed Integer Linear Programming for Transcriptome Assembly. IEEE/ACM Transactions on Computational Biology and Bioinformatics 2022

  11. Elucidating the Beta-Diversity of the Microbiome: from Global Alignment to Local Alignment. mSystems 2021

  12. A Scale-Free, Fully Connected Global Transition Network Underlies Known Microbiome Diversity. mSystems 2021

  13. Microbiome Search Engine 2: a Platform for Taxonomic and Functional Search of Global Microbiomes on the Whole-Microbiome Level. mSystems 2021

  14. Meta-Apo improves accuracy of 16S-amplicon-based prediction of microbiome function. BMC Genomics 2021

  15. Hierarchical Meta-Storms enables comprehensive and rapid comparison of microbiome functional profiles on a large scale using hierarchical dissimilarity metrics and parallel computing. Bioinformatics Advances 2021

  16. Towards multi-label classification: Next step of machine learning for microbiome research. Computational and Structural Biotechnology Journal 2021

  17. A novel model-checking approach for dose-response relationships. Statistical Methods in Medical Research 2021

  18. Sorting a Permutation by Best Short Swaps. Algorithmica 2021

  19. mzMD: A New Storage and Retrieval System for Mass Spectrometry Data. ICIC 2021

  20. Dynamic Meta-Storms enables comprehensive taxonomic and phylogenetic comparison of shotgun metagenomes at the species level. Bioinformatics, 2020

  21. Multiple-Disease Detection and Classification across Cohorts via Microbiome Search. mSystems 2020

  22. Method development for cross-study microbiome data mining: Challenges and opportunities. Computational and Structural Biotechnology Journal 2020

  23. Hybrid link prediction via model averaging. Physica A: Statistical Mechanics and its Applications 2020

  24. IsoTree: A New Framework for de novo Transcriptome Assembly from RNA-seq Reads. IEEE/ACM Trans Comput Biol Bioinform 2020

  25.  "Identifying Composition Novelty in Microbiome Studies: Improvement of Prediction Accuracy". mBio 2019

  26. DTA-SiST: de novo transcriptome assembly by using simplified suffix trees. BMC Bioinformatics 2019

  27. Identifying and Predicting Novelty in Microbiome Studies. mBio 2018

  28. The Longest Common Exemplar Subsequence Problem. BIBM 2018

  29. Can a permutation be sorted by best short swaps? CPM 2018