| URL: | http://eca.xglab.tech/#/index |
| Full name: | human Ensemble Cell Atlas |
| Description: | human Ensemble Cell Atlas (hECA) provides a platform for assembling massive scattered single-data into a unified Giant Table (uGT). We keeps exploring information framework and future ways of building and utilizing cell atlas. Here we provide entries for customized in data cell sorting, access to unified Hierarchical Annotation Framework (uHAF) and multifaceted portraits of genes, cell types and organs. |
| Year founded: | 2022 |
| Last update: | 2024 |
| Version: | |
| Accessibility: |
Accessible
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| Country/Region: | China |
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| University/Institution: | Tsinghua University |
| Address: | MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University,Beijing 100084, China |
| City: | Beijing |
| Province/State: | Beijing |
| Country/Region: | China |
| Contact name (PI/Team): | Xuegong Zhang |
| Contact email (PI/Helpdesk): | zhangxg@tsinghua.edu.cn |
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hECA: The cell-centric assembly of a cell atlas. [PMID: 35602947]
The accumulation of massive single-cell omics data provides growing resources for building biomolecular atlases of all cells of human organs or the whole body. The true assembly of a cell atlas should be cell-centric rather than file-centric. We developed a unified informatics framework for seamless cell-centric data assembly and built the human Ensemble Cell Atlas (hECA) from scattered data. hECA v1.0 assembled 1,093,299 labeled human cells from 116 published datasets, covering 38 organs and 11 systems. We invented three new methods of atlas applications based on the cell-centric assembly: "in data" cell sorting for targeted data retrieval with customizable logic expressions, "quantitative portraiture" for multi-view representations of biological entities, and customizable reference creation for generating references for automatic annotations. Case studies on agile construction of user-defined sub-atlases and "in data" investigation of CAR-T off-targets in multiple organs showed the great potential enabled by the cell-centric ensemble atlas. |
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Protocol for profiling cell-centric assembled single-cell human transcriptome data in hECA. [PMID: 35942342]
Human Ensemble Cell Atlas (hECA) provides a unified informatics framework and the cell-centric-assembled single-cell transcriptome data of 1,093,299 labeled human cells from 116 published datasets. In this protocol, we provide three applications of hECA: "quantitative portraiture" exploration with websites, customizable reference creation for automatic cell type annotation, and "in data" cell sorting with logical conditions. We provide detail steps of connecting to the database, searching cell with conditions, downloading data, and annotating new datasets with customized reference. For complete details on the use and execution of this protocol, please refer to Chen et al. (2022). |