单细胞与空间多组学

课题组的核心方向之一是发展 single-cell and spatial multi-omics 方法，包括 Xenium spatial transcriptomics 及相关成像平台的数据分析。我们构建可扩展算法，用于细胞分割、组织结构分析、细胞状态图谱构建和细胞间相互作用推断，并应用于癌症、免疫生物学和免疫相关疾病研究。近期空间转录组学研究展示了这些方法如何连接组织结构与疾病机制 (Qin et al., 2025)。

此前在 integrative single-cell regulome analysis (Wang et al., 2020) 和癌症干细胞层级结构研究 (Wei et al., 2022) 中的工作，也构成了这一方向的方法学基础。我们还应用单细胞转录组学研究儿童肿瘤模型中治疗响应和耐药相关的非遗传性、转录组机制 (Yang et al., 2025)。

参考文献

2025

bioRxiv

Spatial Transcriptomics Identify T Cell-Driven Mechanisms of Kidney Damage in Immune Checkpoint Inhibitor-Associated Acute Interstitial Nephritis

Qian Qin, Lennard Ostendorf, Sophia L Wells, and 24 more authors

bioRxiv, Oct 2025

DOI Bib HTML

@article{Qin2025ICIAIN,
  title = {Spatial Transcriptomics Identify {T} Cell-Driven Mechanisms of Kidney Damage in Immune Checkpoint Inhibitor-Associated Acute Interstitial Nephritis},
  author = {Qin, Qian and Ostendorf, Lennard and Wells, Sophia L and Gao, Ce and Tran, Miles and Alikhan, Firasat M and Zhang, Xiwen and Chewcharat, Api and Rider, Robert S and Prell, Sean A and Chowdhury, Raad B and Weins, Astrid and Shah, Sujal I and Mistry, Kavita and Bowman, Teresa and Villani, Alexandra-Chloe and LeBoeuf, Nicole R and Selamet, Umut and Ravi, Katherine Scovner and Sharon, Elad and Leaf, David E and Moledina, Dennis G and Sise, Meghan E and De Vlaminck, Iwijn and Rao, Deepak A and Wei, Kevin and Gupta, Shruti},
  journal = {bioRxiv},
  pages = {2025.10.31.685702},
  month = oct,
  year = {2025},
  doi = {10.1101/2025.10.31.685702},
}

Nat Commun

The PIK3CA/AKT pathway drives therapy resistance in rhabdomyosarcoma

Q Yang, Y Wang, L A Corchete Sanchez, and 13 more authors

Nature Communications, Dec 2025

DOI Bib HTML

@article{Yang2025RMSResistance,
  title = {The {PIK3CA/AKT} pathway drives therapy resistance in rhabdomyosarcoma},
  author = {Yang, Q and Wang, Y and Corchete Sanchez, L A and Mathavarajah, S and Qin, Qian and Wei, Y and Alpert, E and Whelton, L and Sharma, P and Strom, S and Oultache, I and Iafrate, A J and Pinello, L and Rheinbay, E and Yan, C and Langenau, D M},
  journal = {Nature Communications},
  volume = {17},
  number = {1},
  pages = {65},
  month = dec,
  year = {2025},
  doi = {10.1038/s41467-025-66632-9},
}

2022

Nat Cancer

Single-cell analysis and functional characterization uncover the stem cell hierarchies and developmental origins of rhabdomyosarcoma

Y Wei, Qian Qin, C Yan, and 1 more author

Nature Cancer*Co-first authors , 2022

DOI Bib

@article{Wei2022Rhabdomyosarcoma,
  title = {Single-cell analysis and functional characterization uncover the stem cell hierarchies and developmental origins of rhabdomyosarcoma},
  author = {Wei, Y and Qin, Qian and Yan, C and others},
  journal = {Nature Cancer},
  year = {2022},
  doi = {10.1038/s43018-022-00414-w},
}

2020

Genome Biol

Integrative analyses of single-cell transcriptome and regulome using MAESTRO

C Wang, D Sun, X Huang, and 13 more authors

Genome Biology, 2020

Bib HTML

@article{Wang2020MAESTRO,
  title = {Integrative analyses of single-cell transcriptome and regulome using {MAESTRO}},
  author = {Wang, C and Sun, D and Huang, X and Wan, C and Li, Z and Han, Y and Qin, Qian and Fan, J and Qiu, X and Xie, Y and Meyer, C A and Brown, M and Tang, M and Long, H and Liu, T and Liu, X S},
  journal = {Genome Biology},
  volume = {21},
  number = {1},
  pages = {198},
  year = {2020},
}