Author

Chuan He

Yale UniversityORCID 0000-0002-6412-450XUnclaimed 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 Assay:scRNA-seq· 2 Research Focus:batch correction / integration· 1 Approach:benchmark study· 1 Research Focus:cell type annotation· 1 Approach:contrastive learning· 1 Approach:deep learning· 1 Approach:statistical model· 1

Frequent Co-Authors

Leying GuaniD· 2 shared Jian Xing· 1 shared Paraskevas FilippidisiD· 1 shared Steven Kleinstein· 1 shared Xiaoyu Shen· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

5 top collaborators · 7 mutual co-author links

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2 shared papersBioinformatics

Leying GuanORCID

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintJun 11, 2026

Robust semi-supervised scRNA-seq integration from virtual adversarial learning

Chuan He, Paraskevas Filippidis, Jian Xing…·Leying Guan

scCRAFT+ improves scRNA-seq integration by incorporating marker gene information via virtual adversarial training, enhancing accuracy and robustness to noisy annotations.

DOI 10.64898/2026.06.07.730754

scRNA-seqdeep learning

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BioinformaticsbioRxivPreprintAug 23, 2025

A Benchmark of Semi-Supervised scRNA-seq Integration Methods in Real-World Scenarios

Xiaoyu Shen, Chuan He, Leying Guan

This study benchmarks semi-supervised scRNA-seq integration methods against unsupervised baselines across six datasets and five annotation scenarios, finding limited practical benefits of semi-supervised approaches.

DOI 10.1101/2025.08.23.671952

scRNA-seqstatistical model

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