Cellbase is a centralised database that integrates lots of information from several main genomic and biological databases used for genomic annotation and clinical variant prioritisation. See Overview for details.
CellBase is open-source and freely available at https://github.com/opencb/cellbase
You can search CellBase using your favourite programming language:
| installation | API | docs | tutorials | |
|---|---|---|---|---|
| REST API | RESTful Web Services | |||
| Python | ||||
| R | Vignette | |||
| Java | Installation |
Recent space activity
Some important fixes made, please check
https://github.com/opencb/cellbase/releases/tag/v4.5.2
https://github.com/opencb/cellbase/releases/tag/v4.5.3
Web services updated and accessible at:
http://bioinfo.hpc.cam.ac.uk/cellbase/webservices
Some important fixes made, please check
https://github.com/opencb/cellbase/releases/tag/v4.5.1
Web services updated and accessible at:
http://bioinfo.hpc.cam.ac.uk/cellbase/webservices
New data sources, new web services and many variant annotation improvements (structural variants annotation, new population frequencies datasets and much more).
Accessible now at
http://bioinfo.hpc.cam.ac.uk/cellbase/webservices/
Please, have a look to the release notes document at
variation_chr*.full.json.gz GRCh37 files in our http download server have been updated to include gnomAD frequencies:
http://bioinfo.hpc.cam.ac.uk/downloads/cellbase/v4/homo_sapiens_grch37/variation/json/
An R CellBase client (CellBaseR) is now distributed by Bioconductor
https://bioconductor.org/packages/release/bioc/html/cellbaseR.html
gnomAD exomes and genomes population frequencies (GRCh37) are now provided as part of the variant annotation results:
http://bioinfo.hpc.cam.ac.uk/cellbase/webservices/rest/v4/hsapiens/genomic/variant/19:45411941:T:C/annotation
http://gnomad.broadinstitute.org/
Space contributors