{"id":"doi:10.1093/database/baz046","kind":"article","title":"PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data","authors":["Oscar Franzén","Li‐Ming Gan","Johan Björkegren"],"author_count":3,"year":2019,"published":"2019-01-01","venue":"Database","cited_by":1550,"doi":"10.1093/database/baz046","arxiv_id":null,"nct_id":null,"source_url":"https://doi.org/10.1093/database/baz046","archive_url":"https://space-kitty.com/papers/doi:10.1093/database/baz046","updated":null,"pmid":"30951143","pmcid":null,"openalex_id":"W2931036699","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz046/28277084/baz046.pdf","abstract":"Single-cell RNA sequencing is an increasingly used method to measure gene expression at the single cell level and build cell-type atlases of tissues. Hundreds of single-cell sequencing datasets have already been published. However, studies are frequently deposited as raw data, a format difficult to access for biological researchers due to the need for data processing using complex computational pipelines. We have implemented an online database, PanglaoDB, accessible through a user-friendly interface that can be used to explore published mouse and human single cell RNA sequencing studies. PanglaoDB contains pre-processed and pre-computed analyses from more than 1054 single-cell experiments covering most major single cell platforms and protocols, based on more than 4 million cells from a wide range of tissues and organs. The online interface allows users to query and explore cell types, genetic pathways and regulatory networks. In addition, we have established a community-curated cell-type marker compendium, containing more than 6000 gene-cell-type associations, as a resource for automatic annotation of cell types.","abstract_license":"CC-BY (publisher license, via OpenAlex)","license":"cc-by","is_open_access":true,"retracted":false,"peer_reviewed":null,"categories":["Single-cell and spatial transcriptomics"],"details":null,"provenance":"openalex","attribution":"Abstract of \"PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data\" by Oscar Franzén, Li‐Ming Gan, Johan Björkegren, https://doi.org/10.1093/database/baz046, used under its Creative Commons Attribution license (CC-BY); markup removed, otherwise unmodified.","topics":[{"slug":"single-cell-spatial","name":"Single-Cell & Spatial Omics","domain_slug":"biotech"}],"cited_in_dossiers":[]}