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Here, we present Gene Expression Nebulas (GEN, https:\/\/ngdc.cncb.ac.cn\/gen\/), an open-access data portal integrating transcriptomic profiles under various biological contexts. GEN features a curated collection of high-quality bulk and single-cell RNA sequencing datasets by using standardized data processing pipelines and a structured curation model. Currently, GEN houses a large number of gene expression profiles from 323 datasets (157 bulk and 166 single-cell), covering 50 500 samples and 15 540 169 cells across 30 species, which are further categorized into six biological contexts. Moreover, GEN integrates a full range of transcriptomic profiles on expression, RNA editing and alternative splicing for 10 bulk datasets, providing opportunities for users to conduct integrative analysis at both transcriptional and post-transcriptional levels. In addition, GEN provides abundant gene annotations based on value-added curation of transcriptomic profiles and delivers online services for data analysis and visualization. Collectively, GEN presents a comprehensive collection of transcriptomic profiles across multiple species, thus serving as a fundamental resource for better understanding genetic regulatory architecture and functional mechanisms from tissues to cells.<\/jats:p>","DOI":"10.1093\/nar\/gkab878","type":"journal-article","created":{"date-parts":[[2021,9,17]],"date-time":"2021-09-17T19:14:13Z","timestamp":1631906053000},"page":"D1016-D1024","source":"Crossref","is-referenced-by-count":32,"title":["Gene Expression Nebulas (GEN): a comprehensive data portal integrating transcriptomic profiles across multiple species at both bulk and single-cell levels"],"prefix":"10.1093","volume":"50","author":[{"given":"Yuansheng","family":"Zhang","sequence":"first","affiliation":[{"name":"National Genomics Data Center & CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China"},{"name":"China National Center for Bioinformation, 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