The UCSC Genome Browser is an on-line, and downloadable, genome browser.
This is an interactive website offering access to genome sequence data from a variety of vertebrate and invertebrate species and major model organisms, integrated with a large collection of aligned annotations.
The Browser is a graphical viewer optimized to support fast interactive performance and is an open-source, web-based tool suite built on top of a MySQL database for rapid visualization, examination, and querying of the data at many levels.
Key Features
- Wide collection of annotation datasets (known as “tracks” and presented graphically), including mRNA alignments, mappings of DNA repeat elements, gene predictions, gene-expression data, disease-association data (representing the relationships of genes to diseases), and mappings of commercially available gene chips (e.g. Illumina and Agilent).
- Instant access to the alignments of any RNA to any of the hosted species
- Continuously variable nature of the display. Sequence of any size can be displayed, from a single DNA base up to the entire chromosome (human chr1 = 245 million bases, Mb) with full annotation tracks.
- Highly configurable.
Website: genome.ucsc.edu
Support: Blog
Developer: UC Santa Cruz
License: UCSC Browser code base is open-source for non-commercial use. A license is required for commercial use.
Related Software
| Web-Based Desktop Genome Browsers | |
|---|---|
| Ensembl | Resource for geneticists, molecular biologists and other researchers |
| Genome Browser | Interactively visualize genomic data |
| GDV | Exploration and analysis of eukaryotic RefSeq genome assemblies |
| HiGlass | Explore and compare genomic contact matrices and tracks |
| igv.js | Embeddable genomic visualization |
| NGB | Web-based NGS data viewer |
| JBrowse 2 | Modern React-based genome browser |
| trackplot | Visualize various next-generation sequencing data |
| GIVE | Genomic Interactive Visualization Engine |
| Genoverse | HTML5 scrollable genome browser |
| Epigenome Browser | Visualization, integration and analysis tools for epigenomic datasets |
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