CHEN, Yiru

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This is Yiru, the version on 2025/11/26

Hi there — I’m Yiru CHEN. Glad that you find me here!

Download CV (PDF) ORCID  ·  Google Scholar  ·  GitHub

Quick Background

I grew up in Hunan Province, China. Currently, I am an undergraduate student in the Bioinformatics program at the Zhejiang University–University of Edinburgh (ZJE) Institute, Zhejiang University, expected to graduate in 2026. You are very welcomed to contact me with yiru.22@intl.zju.edu.cn or yiru2chen@gmail.com

Actively applying for PhD positions (2025–2026). Open to rotations and funded opportunities in computational biology / bioinformatics!

Short research statement

I develop computational methods for spatial multi-omics and immunology. My work focuses on statistical modeling, integrative multimodal analysis, and algorithms for spatial transcriptomics and spatially resolved T-cell receptor profiling. Looking ahead, I am eager to explore new research areas while staying grounded in computational approaches — particularly statistical learning and deep learning for biomedcine.

Publications

* Equal contribution · † Corresponding author

Peer-Reviewed Publications

  1. A pan-disease and population-level single-cell TCRαβ repertoire reference
    Ziwei Xue*, Lize Wu*, Bing Gao*, Ruonan Tian, Yiru Chen, Yicheng Qi, Tianze Dong, Yadan Bai, Yu Zhao, Bing He, Lie Wang, Zuozhu Liu, Jianhua Yao, Linrong Lu†, and Wanlu Liu†
    Cell Discovery, 2025
  2. Integrating cross-sample and cross-modal data for spatial transcriptomics and metabolomics with SpatialMETA
    Ruonan Tian*, Ziwei Xue*, Yiru Chen, Yicheng Qi, Jian Zhang, Jie Yuan, Dengfeng Ruan, Junxin Lin, Jia Liu, Di Wang, Youqiong Ye, and Wanlu Liu†
    Nature Communications, 2025

Manuscripts Under Review / Submitted

  1. Recent advances in single-cell isoform profiling
    Zhejian Yu, Yanhui Chen, Yiru Chen, Yicheng Qi, and Wanlu Liu†
    Genomics, Proteomics & Bioinformatics, 2025
  2. Mapping lineage-resolved scRNA-seq data with spatial transcriptomics using TemSOMap
    Xinhai Pan, Alejandro Danies-Lopez, Yiru Chen, and Xiuwei Zhang†
    In Pacific Symposium on Biocomputing, 2026
  3. From features to slice: parameter-cloud modeling of spatial transcriptomics for simulation and 3D interpolatory augmentation
    Yiru Chen*, Manfei Xie*, Yunfei Hu, Weiman Yuan, Hirak Sarkar, Bingshan Li, Lu Zhang†, and Xin Maizie Zhou†
    In RECOMB, 2026
    PDF
  4. Integrative Inference of Spatially Resolved Cell Lineage Trees using LineageMap
    Xinhai Pan, Yiru Chen, and Xiuwei Zhang†
    In RECOMB, 2026

Presentations & Posters

  1. SpatialTCR: An integrated platform for high-resolution spatial sequencing of T cell receptor repertoires
    Ruonan Tian*, Yiru Chen*, Yicheng Qi*, Ziwei Xue, Zhejian Yu, and Wanlu Liu†
    In GPB Omics and Bioinformatics Frontiers Symposium, 2025
    Co-first author; Presenting author
    Awarded