- https://cappseq.stanford.edu
- sourcecode available but restrictive license
- March 2017 Ensembl core software resources: storage and programmatic access for DNA sequence and genome annotation https://academic.oup.com/database/article-lookup/doi/10.1093/database/bax020
- European Bioinformatics Institute
EBI
- EU > European Moleculary Biology Laboratory
EMBL
>EBI
- EU > European Moleculary Biology Laboratory
- Human Genome Project
HGP
1990~- Funded by
NIH
+ world
- Funded by
- Ensembl 1999~
- joint project between European Bioinformatics Institute
EBI
and Wellcome Trust Sanger Institute - response to imminent completion of
HGP
- joint project between European Bioinformatics Institute
- The Cancer Genome Atlas
TCGA
- US Dept of Health and Human Services > National Institutes of Health
NIH
> National Cancer InstituteNCI
- US Dept of Health and Human Services > National Institutes of Health
- Cancer Genome Project
CGP
- UK > Wellcome Trust Sanger Institute
- Catalogue of Somatic Mutations in Cancer
COSMIC
database- Curates data from:
- literature
- screening projects from CGP
- Curates data from:
- International Cancer Genome Consortium ICGC 2008~
- Funded by participating nations; secretariat is the Ontario Institute for Cancer Research
OICR
- Funded by participating nations; secretariat is the Ontario Institute for Cancer Research
- University of California, Santa Crus
UCSC
- UCSC Genome Browser
- Originally for distribution of
GHP
results
- Originally for distribution of
- Other tools: BLAT, liftOver
- UCSC Genome Browser
- National Center for Biotechnology Information
NCBI
- US >
NIH
> National Library of MedicineNLM
>NCBI
- directed by BLAST author (David Lipman)
- Databases (all are available through the
Entrez
search engine):- GenBank -- DNA sequences
- PubMed -- literature
- dbSNP
- US >
- BioMart
- Community-driven; originated at
EBI
- Community-driven; originated at
- International HapMap Project 2002~
- world non-/for-profit groups, added ~10 million entries to dbSNP
- shut down 2016-06-16
- 1000 Genomes Project
1KGP
2008~2015- catalogue of variants within and among ethnic groups
- Ensembl
- NCBI
- UCSC
- GenBank
- ...
- bootstrap dashboard template; plotly; d3js
- https://github.com/keen/dashboards