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The UCSC Genome Browser database: 2017 update.
Cath Tyner1, Galt P Barber2, Jonathan Casper2
1Genomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, USA cath@ucsc.edu.
Nucleic Acids Research
|December 1, 2016
Summary
The UCSC Genome Browser offers a free, open-source platform for visualizing genomic data. Recent updates enhance its usability and expand support for new species and data types, aiding biomedical research.
Area of Science:
- Genomics
- Bioinformatics
- Computational Biology
Background:
- The University of California, Santa Cruz (UCSC) Genome Browser has been a vital resource since 2001.
- It provides a web-based, open-source platform for displaying genomic sequence alignments and annotations.
- The platform supports a vast collection of reference genome assemblies.
Purpose of the Study:
- To detail recent enhancements and new features of the UCSC Genome Browser.
- To highlight the continuous support provided to the genomics and biomedical research communities.
- To showcase the expansion of the platform's capabilities and accessibility.
Main Methods:
- Web-based platform development and maintenance.
- Integration of new genome assemblies and data types.
- Enhancement of graphical user interfaces and data query tools.
Main Results:
- Newly designed home and gateway pages for improved user experience.
- Introduction of a 'multi-region' track display for versatile visualization.
- Addition of genome browsers for three new species and updates to eight existing assemblies.
- Extended support for data types including CRAM, RNA-seq, and chromatin interaction pairs.
- Establishment of a new supported mirror site in Japan.
Conclusions:
- The UCSC Genome Browser continues to evolve, offering enhanced tools and broader support for genomic research.
- These updates improve data accessibility and visualization capabilities for the international scientific community.
- The platform remains a cornerstone for bioinformatics, facilitating complex genomic data analysis.
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