STAB


37904591	STAB2: an updated spatio-temporal cell atlas of the human and mouse brain. [PMID: 37904591] Yucheng T Yang, Ziquan Gan, Jinglong Zhang, Xingzhong Zhao, Yifan Yang, Shuwen Han, Wei Wu, Xing-Ming Zhao Abstract The brain is constituted of heterogeneous types of neuronal and non-neuronal cells, which are organized into distinct anatomical regions, and show precise regulation of gene expression during development, aging and function. In the current database release, STAB2 provides a systematic cellular map of the human and mouse brain by integrating recently published large-scale single-cell and single-nucleus RNA-sequencing datasets from diverse regions and across lifespan. We applied a hierarchical strategy of unsupervised clustering on the integrated single-cell transcriptomic datasets to precisely annotate the cell types and subtypes in the human and mouse brain. Currently, STAB2 includes 71 and 61 different cell subtypes defined in the human and mouse brain, respectively. It covers 63 subregions and 15 developmental stages of human brain, and 38 subregions and 30 developmental stages of mouse brain, generating a comprehensive atlas for exploring spatiotemporal transcriptomic dynamics in the mammalian brain. We also augmented web interfaces for querying and visualizing the gene expression in specific cell types. STAB2 is freely available at https://mai.fudan.edu.cn/stab2. Nucleic Acids Res. 2024:52(D1) \| 3 Citations (from Europe PMC, 2025-09-20)
32976581	STAB: a spatio-temporal cell atlas of the human brain. [PMID: 32976581] Song L, Pan S, Zhang Z, Jia L, Chen WH, Zhao XM. Abstract The human brain is the most complex organ consisting of billions of neuronal and non-neuronal cells that are organized into distinct anatomical and functional regions. Elucidating the cellular and transcriptome architecture underlying the brain is crucial for understanding brain functions and brain disorders. Thanks to the single-cell RNA sequencing technologies, it is becoming possible to dissect the cellular compositions of the brain. Although great effort has been made to explore the transcriptome architecture of the human brain, a comprehensive database with dynamic cellular compositions and molecular characteristics of the human brain during the lifespan is still not available. Here, we present STAB (a Spatio-Temporal cell Atlas of the human Brain), a database consists of single-cell transcriptomes across multiple brain regions and developmental periods. Right now, STAB contains single-cell gene expression profiling of 42 cell subtypes across 20 brain regions and 11 developmental periods. With STAB, the landscape of cell types and their regional heterogeneity and temporal dynamics across the human brain can be clearly seen, which can help to understand both the development of the normal human brain and the etiology of neuropsychiatric disorders. STAB is available at http://stab.comp-sysbio.org. Nucleic Acids Res. 2021:49(D1) \| 45 Citations (from Europe PMC, 2025-09-20)

STAB2: an updated spatio-temporal cell atlas of the human and mouse brain. [PMID: 37904591]

Yucheng T Yang, Ziquan Gan, Jinglong Zhang, Xingzhong Zhao, Yifan Yang, Shuwen Han, Wei Wu, Xing-Ming Zhao

The brain is constituted of heterogeneous types of neuronal and non-neuronal cells, which are organized into distinct anatomical regions, and show precise regulation of gene expression during development, aging and function. In the current database release, STAB2 provides a systematic cellular map of the human and mouse brain by integrating recently published large-scale single-cell and single-nucleus RNA-sequencing datasets from diverse regions and across lifespan. We applied a hierarchical strategy of unsupervised clustering on the integrated single-cell transcriptomic datasets to precisely annotate the cell types and subtypes in the human and mouse brain. Currently, STAB2 includes 71 and 61 different cell subtypes defined in the human and mouse brain, respectively. It covers 63 subregions and 15 developmental stages of human brain, and 38 subregions and 30 developmental stages of mouse brain, generating a comprehensive atlas for exploring spatiotemporal transcriptomic dynamics in the mammalian brain. We also augmented web interfaces for querying and visualizing the gene expression in specific cell types. STAB2 is freely available at https://mai.fudan.edu.cn/stab2.

Nucleic Acids Res. 2024:52(D1) | 3 Citations (from Europe PMC, 2025-09-20)

STAB: a spatio-temporal cell atlas of the human brain. [PMID: 32976581]

Song L, Pan S, Zhang Z, Jia L, Chen WH, Zhao XM.

Abstract

The human brain is the most complex organ consisting of billions of neuronal and non-neuronal cells that are organized into distinct anatomical and functional regions. Elucidating the cellular and transcriptome architecture underlying the brain is crucial for understanding brain functions and brain disorders. Thanks to the single-cell RNA sequencing technologies, it is becoming possible to dissect the cellular compositions of the brain. Although great effort has been made to explore the transcriptome architecture of the human brain, a comprehensive database with dynamic cellular compositions and molecular characteristics of the human brain during the lifespan is still not available. Here, we present STAB (a Spatio-Temporal cell Atlas of the human Brain), a database consists of single-cell transcriptomes across multiple brain regions and developmental periods. Right now, STAB contains single-cell gene expression profiling of 42 cell subtypes across 20 brain regions and 11 developmental periods. With STAB, the landscape of cell types and their regional heterogeneity and temporal dynamics across the human brain can be clearly seen, which can help to understand both the development of the normal human brain and the etiology of neuropsychiatric disorders. STAB is available at http://stab.comp-sysbio.org.

Nucleic Acids Res. 2021:49(D1) | 45 Citations (from Europe PMC, 2025-09-20)

URL:	http://stab.comp-sysbio.org
Full name:	A Spatio-Temporal Cell Atlas of the Human Brain
Description:	STAB2 provides a detailed map of cell types, regional heterogeneity, and temporal dynamics in the human and mouse brain. It integrates large-scale single-cell and single-nucleus RNA-sequencing data across various brain regions and developmental stages.
Year founded:	2021
Last update:	2024
Version:	v2.0
Accessibility:	Accessible
Country/Region:	China

Data type:	RNA
Data object:	Animal
Database category:	Expression
Major species:	Homo sapiens
Keywords:	brain development period single cell scRNA-seq

University/Institution:	Fudan University
Address:	Institute of Science and Technology for Brain-Inspired Intelligence, Fudan University, Shanghai 200433, China
City:	Shanghai
Province/State:	Shanghai
Country/Region:	China
Contact name (PI/Team):	Xingming Zhao
Contact email (PI/Helpdesk):	xmzhao@fudan.edu.cn

Database Commons
a catalog of worldwide biological databases

a catalog of worldwide biological databases

Database Profile

General information

Classification & Tag

Contact information

Publications

Ranking

Community reviews

Word cloud

Tags

Related Databases

Record metadata

Research & Resources

Featured

Alliance & Collaboration

Conference & Outreach

About

Database Commons a catalog of worldwide biological databases