This page has JBrowse genome browsers for both main UCSC genomes and the UCSC GenArk hubs
Short list:
| Name | Scientific name | Organism | Description | JBrowse | UCSC |
|---|---|---|---|---|---|
| hs1 | Homo sapiens | Human | Jan. 2022 (T2T CHM13v2.0/hs1) | JBrowse | UCSC |
| hg38 | Homo sapiens | Human | Dec. 2013 (GRCh38/hg38) | JBrowse | UCSC |
| hg19 | Homo sapiens | Human | Feb. 2009 (GRCh37/hg19) | JBrowse | UCSC |
| hg18 | Homo sapiens | Human | Mar. 2006 (NCBI36/hg18) | JBrowse | UCSC |
| hg17 | Homo sapiens | Human | May 2004 (NCBI35/hg17) | JBrowse | UCSC |
| hg16 | Homo sapiens | Human | July 2003 (NCBI34/hg16) | JBrowse | UCSC |
| mm39 | Mus musculus | Mouse | Jun. 2020 (GRCm39/mm39) | JBrowse | UCSC |
| mm10 | Mus musculus | Mouse | Dec. 2011 (GRCm38/mm10) | JBrowse | UCSC |
| mm9 | Mus musculus | Mouse | July 2007 (NCBI37/mm9) | JBrowse | UCSC |
| mm8 | Mus musculus | Mouse | Feb. 2006 (NCBI36/mm8) | JBrowse | UCSC |
| hub gateway | description |
|---|---|
| primates | NCBI primate genomes |
| mammals | NCBI mammal genomes |
| birds | NCBI bird genomes |
| fish | NCBI fish genomes |
| vertebrate | NCBI vertebrate genomes |
| invertebrate | NCBI invertebrate genomes |
| fungi | NCBI fungi genomes |
| plants | NCBI plant genomes |
| viral | NCBI viral genomes |
| bacteria | NCBI bacteria genomes |
collections below are subsets of the assemblies above
| hub gateway | description |
|---|---|
| VGP | Vertebrate Genome Project |
| CCGP | The California Conservation Genomics Project |
| HPRC | Human Pangenome Reference Consortium |
| BRC | BRC Analytics - Bioinformatics Research Center (VEuPathDB and others) |
| globalReference | Global Human Reference genomes, January 2020 |
| legacy | NCBI genomes legacy/superseded by newer versions |
To reference these resources in publications, please credit:
Clawson, H., Lee, B.T., Raney, B.J. et al. GenArk: towards a million UCSC genome browsers. Genome Biol 24, 217 (2023). https://doi.org/10.1186/s13059-023-03057-x