Author

Qiyuan Li

Xiamen UniversityORCID 0000-0002-8934-8948Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 2 Research Focus:gene regulatory network inference· 2 Organism:human· 2 Approach:benchmark study· 1 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Assay:ChIP-seq· 1 Approach:deep learning· 1

Frequent Co-Authors

Ying ZhouiD· 3 shared Jun ReniD· 2 shared Zhiyu You· 2 shared Hongkun Fang· 1 shared Jialiang HuangiD· 1 shared Jialin ZhaoiD· 1 shared Jiayang Guo· 1 shared Jing YangiD· 1 shared

Activity by Year

2023-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 26 mutual co-author links

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3 shared papersBioinformatics

Ying ZhouORCID

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3 papers

Recent·Most cited

Benchmarking RNA velocity methods across 17 independent studies

Ya Hong Luo, Jun Ren, Q. Yang, Zhiyu You, Ying Zhou, Qingqing Qin, Qiyuan Li

This study benchmarks 14 RNA velocity methods across 17 datasets, finding no single method outperforms all others and highlighting the need for method comparison in analysis.

Cell Reports Methods · Mar 30, 2026Peer-reviewedBioinformatics

MGPfactXMBD: A Model-Based Factorization Method for scRNA Data Unveils Bifurcating Transcriptional Modules Underlying Cell Fate Determination

Jun Ren, Ying Zhou, Yudi Hu, Jing Yang, Hongkun Fang, Xuejing Lyu, Jintao Guo, Xiaodong Shi, Qiyuan Li

MGPfactXMBD is a model-based manifold-learning framework for scRNA-seq data that identifies bifurcating transcriptional modules underlying cell fate determination, outperforming existing methods in trajectory inference and biological interpretation.

eLife · Feb 5, 2025Peer-reviewedBioinformatics

Chrombus-XMBD: A Graph Generative Model Predicting 3D-Genome, ab initio from Chromatin Features

Yuanyuan Zeng, Zhiyu You, Jiayang Guo, Jialin Zhao, Ying Zhou, Jialiang Huang, Xiaowen Lyu, Longbiao Chen, Qiyuan Li

Chrombus-XMBD predicts 3D-genome structures from chromatin features using a graph generative model, outperforming existing methods and showing cross-species generalizability.

bioRxiv · Aug 2, 2023 · PreprintBioinformatics