GenArk: towards a million UCSC genome browsers

Genome Biol. 2023 Oct 2;24(1):217. doi: 10.1186/s13059-023-03057-x.


Interactive graphical genome browsers are essential tools in genomics, but they do not contain all the recent genome assemblies. We create Genome Archive (GenArk) collection of UCSC Genome Browsers from NCBI assemblies. Built on our established track hub system, this enables fast visualization of annotations. Assemblies come with gene models, repeat masks, BLAT, and in silico PCR. Users can add annotations via track hubs and custom tracks. We can bulk-import third-party resources, demonstrated with TOGA and Ensembl gene models for hundreds of assemblies.Three thousand two hundred sixty-nine GenArk assemblies are listed at and can be searched for on the Genome Browser gateway page.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, N.I.H., Extramural

MeSH terms

  • Archives
  • Databases, Genetic
  • Genome*
  • Genomics
  • Internet
  • Nucleic Acid Amplification Techniques
  • Software*