Unknown

Dataset Information

0

PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data.


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.

SUBMITTER: Franzen O 

PROVIDER: S-EPMC6450036 | biostudies-literature | 2019 Jan

REPOSITORIES: biostudies-literature

altmetric image

Publications

PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data.

Franzén Oscar O   Gan Li-Ming LM   Björkegren Johan L M JLM  

Database : the journal of biological databases and curation 20190101


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 inter  ...[more]

Similar Datasets

| S-EPMC6233170 | biostudies-literature
| S-EPMC7320629 | biostudies-literature
| S-EPMC4489260 | biostudies-literature
| S-EPMC9252722 | biostudies-literature
| S-EPMC8535304 | biostudies-literature
| S-EPMC6377397 | biostudies-literature
| S-EPMC4987876 | biostudies-literature
| S-EPMC8416086 | biostudies-literature
| S-EPMC6132189 | biostudies-literature
| S-EPMC8187165 | biostudies-literature