Author

Yilong Qu

Duke University

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

Signature Assays, Organisms & Methods

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Assay:spatial transcriptomics· 3 Research Focus:cell type annotation· 2 Approach:deep learning· 2 Approach:experimental assay· 2 Research Focus:benchmarking· 1 Research Focus:cell-cell communication· 1 Research Focus:clustering· 1 Research Focus:dimensionality reduction· 1

Frequent Co-Authors

Zhicheng JiiD· 3 shared Huifang Ma· 2 shared Alisha Aristel· 1 shared Andrew B. NixoniD· 1 shared Andrew P. McMahoniD· 1 shared Anru R. ZhangiD· 1 shared Bing JiiD· 1 shared Carolyn GlassiD· 1 shared

Activity by Year

2025-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 19 mutual co-author links

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3 shared papersBioinformatics

Zhicheng JiORCID

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Author profile →

4 papers

Recent·Most cited

Dissecting the coordinated progression of cell states in spatial transcriptomics with CoPro

Zhen Miao, Yilong Qu, Sijia Huang, Linshan Laux, Sam Peters, Alisha Aristel, Zhaojun Zhang, Laura J. Niedernhofer, Andrew P. McMahon, Junhyong Kim, Nancy Ruonan Zhang

CoPro identifies spatially coordinated gene expression programs across tissues, revealing distinct cellular states and their interactions in colon, brain, liver, and kidney.

bioRxiv · Apr 21, 2026 · PreprintBioinformatics

Single-cell and spatial detection of senescent cells using DeepScence

Yilong Qu, Bing Ji, Runze Dong, Liangcai Gu, Cliburn C. W. Chan, Jichun Xie, Carolyn Glass, Xiao‐Fan Wang, Andrew B. Nixon, Zhicheng Ji

DeepScence identifies senescent cells in single-cell and spatial transcriptomics data, outperforming existing methods.

Cell Genomics · Oct 7, 2025Peer-reviewedBioinformatics

Vispro improves imaging analysis for Visium spatial transcriptomics

Huifang Ma, Xingyuan Zhang, Yilong Qu, Anru R. Zhang, Zhicheng Ji

Vispro improves imaging analysis for Visium spatial transcriptomics by automating image processing tasks and enhancing downstream analysis performance.

Genome biology · Jun 18, 2025Peer-reviewedBioinformatics

Assessing large multimodal models for one-shot learning and interpretability in biomedical image classification

Wenpin Hou, Qi Liu, Huifang Ma, Yilong Qu, Zhicheng Ji

This study evaluates large multimodal models for one-shot learning and interpretability in biomedical image classification, showing their superiority over traditional methods.

Advanced Intelligent Systems · Apr 6, 2025Peer-reviewedBioinformatics