Author

Chaoqi Liang

Harbin Institute of Technology

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 4

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Approach:deep learning· 3 Research Focus:batch correction / integration· 2 Research Focus:cell type annotation· 2 Assay:DNA methylation· 2 Organism:human· 2 Approach:large language model· 2 Organism:mouse· 2 Assay:scRNA-seq· 2

Frequent Co-Authors

Jianle SuniD· 4 shared Wanli OuyangiD· 4 shared Peng YeiD· 3 shared Peng ZhengiD· 3 shared Ran WeiiD· 3 shared Hong-Liang YaniD· 2 shared Lei BaiiD· 2 shared Weiqiang Bai· 2 shared

Activity by Year

2024-2025 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 42 mutual co-author links

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4 shared papersBioinformatics

Jianle SunORCID

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Author profile →

4 papers

Recent·Most cited

scMOBA: A conversational single-cell Multi-Omics Brain Agent across species

Ran Wei, Ziyao Zhang, Jianle Sun, Yongkang Sun, Juan Meng, Peng Zheng, Chaoqi Liang, Fanyi Meng, Wanli Ouyang, Lei Bai, Peng Ye, Yidi Sun

scMOBA is a multi-omics brain agent that integrates single-cell and spatial data across species, achieving state-of-the-art cell type classification and improving downstream tasks like aging clock construction and disease prediction.

bioRxiv · Dec 2, 2025 · PreprintBioinformatics

Scalable integration and prediction of unpaired single-cell and spatial multi-omics via regularized disentanglement

Jianle Sun, Chaoqi Liang, Ran Wei, Zheng Qiang Peng, Hong-Liang Yan, Lei Bai, Kun Zhang, Wanli Ouyang, Peng Ye

This paper introduces scMRDR, a framework for integrating unpaired single-cell and spatial multi-omics data, showing strong performance in batch correction and spatial mapping.

bioRxiv · Nov 25, 2025 · PreprintBioinformatics

scDNAm-GPT Captures Genome-wide CpG Dependencies in Single-cell DNA methylomes to Revolutionize Epigenetic Analysis

Chaoqi Liang, Peng Ye, Hongliang Yan, Peng Zheng, Jianle Sun, Yanni Wang, Yu Li, Yuchen Ren, Yuanpei Jiang, Ran Wei, Junjia Xiang, Sizhe Zhang, Linle Jiang, Weiqiang Bai, Xinzhu Ma, , Jia Li

scDNAm-GPT is a foundation model for single-cell DNA methylation analysis that improves clustering, trajectory inference, and deconvolution using context-aware tokenization and attention mechanisms.

bioRxiv · Feb 19, 2025 · PreprintBioinformatics

Genomics-FM: Universal Foundation Model for Versatile andData-Efficient Functional Genomic Analysis

Peng Ye, Weiqiang Bai, Yuchen Ren, Wenran Li, Lifeng Qiao, Chaoqi Liang, Linxiao Wang, Yuchen Cai, Jianle Sun, Zejun Yang, Peng Zheng, Nanqing Dong, Tao Chen, Zhihui Wang, Xihui Liu, , Wanli Ouyang

Genomics-FM is a foundation model that reduces reliance on labeled data and outperforms existing models in genome annotation, epigenomic prediction, and variant effect assessment.

bioRxiv · Jul 16, 2024 · PreprintBioinformatics