scCompass: An Integrated Multi-Species scRNA-seq Database for AI-Ready

doi:10.1002/advs.202500870

	scCompass: An Integrated Multi-Species scRNA-seq Database for AI-Ready
	Wang, Pengfei 1,8; Liu, Wenhao 2,3,4,9; Wang, Jiajia 1; Liu, Yana 2,3,4; Li, Pengjiang 1,8; Xu, Ping 1,8; Cui, Wentao 1,8; Zhang, Ran 1,8; Long, Qingqing 1,8; Hu, Zhilong 1,8; Fang, Chen 2,3,4,8; Dong, Jingxi 2,3,4; Zhang, Chunyang 1; Chen, Yan 1; Wang, Chengrui 1; Liu, Guole 5,8; Xie, Hanyu 1; Zhang, Yiyang 6,8; Xiao, Meng 1; Chen, Shubai 7,8; Jiang, Haiping 2,3,4,8; Chen, Yiqiang 7,8; Yang, Ge 5,8; Zhang, Shihua 6,8; Meng, Zhen 1,8; Wang, Xuezhi 1,8; Feng, Guihai 2,3,4,8; Li, Xin 2,3,4,8; Zhou, Yuanchun 1,8
	2025-05-02
发表期刊	ADVANCED SCIENCE
页码	16
摘要	Emerging single-cell sequencing technology has generated large amounts of data, allowing analysis of cellular dynamics and gene regulation at the single-cell resolution. Advances in artificial intelligence enhance life sciences research by delivering critical insights and optimizing data analysis processes. However, inconsistent data processing quality and standards remain to be a major challenge. Here scCompass is proposed, which provides a comprehensive resource designed to build large-scale, multi-species, and model-friendly single-cell data collection. By applying standardized data pre-processing, scCompass integrates and curates transcriptomic data from nearly 105 million single cells across 13 species. Using this extensive dataset, it is able to identify stable expression genes (SEGs) and organ-specific expression genes (OSGs) in humans and mice. Different scalable datasets are provided that can be easily adapted for AI model training and the pretrained checkpoints with state-of-the-art single-cell foundation models. In summary, scCompass is highly efficient and scalable database for AI-ready, which combined with user-friendly data sharing, visualization, and online analysis, greatly simplifies data access and exploitation for researchers in single-cell biology ().
关键词	AI-ready multi-species scRNA-seq database single-cell
DOI	10.1002/advs.202500870
收录类别	SCI
语种	英语
资助项目	National Natural Science Foundation of China ; National Key Research and Development Program of China[2024YFF0729201] ; National Key Research and Development Program of China[2024YFF0729200] ; Strategic Priority Research Program of Chinese Academy of Sciences[XDA0460305] ; CAS Project for Young Scientists in Basic Research[YSBR-076] ; Pilot Project for Enhancing Original Innovation Capability of the Chinese Academy of Sciences[E129L111] ; Initiative Scientific Research Program[2023IOZ0102] ; Initiative Scientific Research Program[2024IOZ0101] ; [92470204]
WOS研究方向	Chemistry ; Science & Technology - Other Topics ; Materials Science
WOS类目	Chemistry, Multidisciplinary ; Nanoscience & Nanotechnology ; Materials Science, Multidisciplinary
WOS记录号	WOS:001480068300001
出版者	WILEY
引用统计
文献类型	期刊论文
条目标识符	http://119.78.100.204/handle/2XEOYT63/40633
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Meng, Zhen; Wang, Xuezhi; Feng, Guihai; Li, Xin; Zhou, Yuanchun
作者单位	1.Chinese Acad Sci, Comp Network Informat Ctr, Beijing 100083, Peoples R China 2.Chinese Acad Sci, Inst Zool, State Key Lab Stem Cell & Reprod Biol, Beijing 100101, Peoples R China 3.Chinese Acad Sci, Inst Stem Cell & Regenerat Med, Beijing 100101, Peoples R China 4.Beijing Inst Stem Cell & Regenerat Med, Beijing 100101, Peoples R China 5.Chinese Acad Sci, Inst Automat, State Key Lab Multimodal Artificial Intelligence S, Beijing 100190, Peoples R China 6.Chinese Acad Sci, Acad Math & Syst Sci, CEMS, NCMIS,HCMS,MDIS,RCSDS, Beijing 100190, Peoples R China 7.Chinese Acad Sci, Inst Comp Technol, Beijing Key Lab Mobile Comp & Pervas Device, Beijing 100190, Peoples R China 8.Univ Chinese Acad Sci, Beijing 100864, Peoples R China 9.Northeast Agr Univ, Coll Life Sci, Harbin 150030, Peoples R China
推荐引用方式 GB/T 7714	Wang, Pengfei,Liu, Wenhao,Wang, Jiajia,et al. scCompass: An Integrated Multi-Species scRNA-seq Database for AI-Ready[J]. ADVANCED SCIENCE,2025:16.
APA	Wang, Pengfei.,Liu, Wenhao.,Wang, Jiajia.,Liu, Yana.,Li, Pengjiang.,...&Zhou, Yuanchun.(2025).scCompass: An Integrated Multi-Species scRNA-seq Database for AI-Ready.ADVANCED SCIENCE,16.
MLA	Wang, Pengfei,et al."scCompass: An Integrated Multi-Species scRNA-seq Database for AI-Ready".ADVANCED SCIENCE (2025):16.