Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database Profile

General information

URL: https://ngdc.cncb.ac.cn/cedr
Full name: Cellular drug response atlas
Description: CeDR Atlas: a knowledgebase of cellular drug response. CeDR represents an omnibus systematic exploration of tissue cell type specific drug response for human, mouse and cell lines. We collected the fast-growing single-cell transcriptome profiling generated by multiple international consortiums (e.g Single Cell Portal, Human Cell Landscape, and Mouse Cell Atlas) and other available labeled datasets to conduct the tissue cell type specific drug response analysis. CeDR provides direct references for cellular drug response profiles including not only disease cell types but also normal cell types. Currently, CeDR maintains the results for more than 582 single cell data objects for human, mouse and cell lines, including about 140 phenotypes and 1250 tissue-cell combination types, which result about 188,157 for human, 42,660 for mouse and 10,299 for cell line significant cell type-drug associations (enriched p-values<0.05, correlation p-value<0.01). Users can browse and search the drugs, cell types, tissues, and diseases and could also filter and prioritize the associations with exact gene signatures. Overall, CeDR infers drug response at cellular resolution and sheds light on the design of combinatory treatments and identification of drug resistance and even drug side effects.
Year founded: 2021
Last update: 2021-9-15
Version: 1.0
Accessibility:
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Country/Region: China

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Contact information

University/Institution: Beijing Institute of Genomics, Chinese Academy of Sciences
Address: No.1 Beichen West Road, Chaoyang District, Beijing
City: Beijing
Province/State: Beijing
Country/Region: China
Contact name (PI/Team): Peilin Jia
Contact email (PI/Helpdesk): pjia@big.ac.cn

Publications

34634794
CeDR Atlas: a knowledgebase of cellular drug response. [PMID: 34634794]
Wang YY, Kang H, Xu T, Hao L, Bao Y, Jia P.

Drug response to many diseases varies dramatically due to the complex genomics and functional features and contexts. Cellular diversity of human tissues, especially tumors, is one of the major contributing factors to the different drug response in different samples. With the accumulation of single-cell RNA sequencing (scRNA-seq) data, it is now possible to study the drug response to different treatments at the single cell resolution. Here, we present CeDR Atlas (available at https://ngdc.cncb.ac.cn/cedr), a knowledgebase reporting computational inference of cellular drug response for hundreds of cell types from various tissues. We took advantage of the high-throughput profiling of drug-induced gene expression available through the Connectivity Map resource (CMap) as well as hundreds of scRNA-seq data covering cells from a wide variety of organs/tissues, diseases, and conditions. Currently, CeDR maintains the results for more than 582 single cell data objects for human, mouse and cell lines, including about 140 phenotypes and 1250 tissue-cell combination types. All the results can be explored and searched by keywords for drugs, cell types, tissues, diseases, and signature genes. Overall, CeDR fine maps drug response at cellular resolution and sheds lights on the design of combinatorial treatments, drug resistance and even drug side effects.

Nucleic Acids Res. 2021:() | 3 Citations (from Europe PMC, 2022-05-14)

Ranking

All databases:
2265/5177 (56.268%)
Health and medicine:
482/1164 (58.677%)
2265
Total Rank
3
Citations
3
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Record metadata

Created on: 2021-09-15
Curated by:
Dong Zou [2021-10-19]
Dong Zou [2021-09-15]
Hongen Kang [2021-09-15]