Author

Yunfeng Chi

Tsinghua UniversityORCID 0009-0009-8013-9590Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Neuroscience· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 3 Organism:zebrafish· 3 Assay:imaging· 2 Research Focus:benchmarking· 1 Research Focus:cell-cell communication· 1 Research Focus:clustering· 1 Approach:deep learning· 1 Organism:Drosophila· 1

Frequent Co-Authors

Yinan WaniD· 3 shared Guoqiang YuiD· 2 shared Joaquín Navajas AcedoiD· 2 shared Qinghua ZhangiD· 2 shared Zeyu MuiD· 2 shared Alexander F. SchieriD· 1 shared Alyson PetruncioiD· 1 shared Amy HuiD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 25 mutual co-author links

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3 shared papersBioinformatics

Yinan WanORCID

Mutual co-authors in cluster

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3 papers

Recent·Most cited

BioinformaticsbioRxivPreprintAug 28, 2026

FOCUS-3D: Robust, generalizable volumetric cell segmentation for three-dimensional fluorescence microscopy

Qinghua Zhang, Zeyu Mu, Boqi Liu…·Guoqiang Yu

FOCUS-3D segments cells in 3D fluorescence microscopy data across species and tissues, revealing phases of notochord morphogenesis in zebrafish.

DOI 10.64898/2026.08.25.746907

zebrafishimaging

𝕏 PostBluesky

BioinformaticsbioRxivPreprintMar 16, 2026

High-Fidelity Long-term Whole-embryo Lineage and Fate Reconstruction by Iterative Tracking with Error Correction

Mengfan Wang, Qinghua Zhang, Congchao Wang…·Guoqiang Yu

ITEC reconstructs high-fidelity cell lineages and fate maps of embryos with over 99.7% accuracy using iterative tracking and error correction.

3 citations

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NeurosciencebioRxivPreprintAug 20, 2025

Imaging cellular activity simultaneously across all organs of a vertebrate reveals body-wide circuits

Virginia M. S. Ruetten, Weihao Zheng, Igor Siwanowicz…·Misha B. Ahrens

The paper introduces WHOLISTIC, a method to image cellular activity across all organs of a vertebrate, revealing body-wide circuits and responses to stimuli.

4 citations

zebrafishnon-human primate

𝕏 PostBluesky