Author

Yuli She

ByteDance (China)

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· 2 Biochemistry· 1 Bioengineering· 1

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 2 Approach:deep learning· 2 Research Focus:drug response / drug discovery· 2 Approach:benchmark study· 1 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Research Focus:differential expression· 1 Assay:protein sequence· 1

Frequent Co-Authors

Lei WeiiD· 3 shared Chen LiiD· 2 shared Haiyang BianiD· 2 shared Haoxiang GaoiD· 2 shared Junwei CheniD· 2 shared Kai LiuiD· 2 shared Qilong Wu· 2 shared Xuegong ZhangiD· 2 shared

Activity by Year

2024-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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3 shared papersBioinformatics

Lei WeiORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

Forecasting cell state futures from static snapshots

Erpai Luo, Haoxiang Gao, Haiyang Bian, Shuguang Peng, Chen Li, Minsheng Hao, Mo Chen, Yuli She, Lei Wei, Kai Liu, Xuegong Zhang

This paper introduces CellTempo, a framework that forecasts long-range cell state trajectories from static transcriptomic data, demonstrating its ability to predict lineage progression and distinguish perturbation responses from long-term fate changes.

bioRxiv · Jul 31, 2026 · PreprintBioinformatics

Programming Biomolecular Interactions with All-Atom Generative Model

Xiangzhe Kong, Junwei Chen, Ziting Zhang, Gaodeng Li, Qingyuan Zhu, L Wei, Mingyu Li, Yan Shi, Weiyang Dai, Zishen Zhang, Wenjuan Tan, Rui Jiao, Xiaolun Wang, Jiqing Zheng, Ziyang Yu, , Jianzhu Ma

This paper introduces AnewOmni, a generative model that designs biomolecules across scales by learning interaction patterns and physical constraints from 5 million complexes.

bioRxiv · Jun 4, 2026 · PreprintBioengineering

Delta PSA: A New Metric for Conformational Dynamics Underlying Macrocyclic Peptide Permeability

Yiping Yu, Qilong Wu, Junwei Chen, Yuli She, Lizhe Zhu, Zhiye Guo

The paper introduces Delta PSA, a metric for predicting macrocyclic peptide permeability using MD simulations, achieving lower MSE than existing methods.

bioRxiv · Jan 6, 2026 · PreprintBiochemistry

Benchmarking AI Models for In Silico Gene Perturbation of Cells

Chen Li, Haoxiang Gao, Yuli She, Haiyang Bian, Qing Chen, Kai Liu, Lei Wei, Xuegong Zhang

This study benchmarks 10 in silico gene perturbation methods across four scenarios, identifying strengths and limitations in predicting perturbation effects and zero-shot transfer.

bioRxiv · Dec 20, 2024 · PreprintBioinformatics